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  • 1. Abbasi, Arshad Mehmood
    et al.
    Khan, Mir Ajab
    Khan, Nadeem
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Shah, Munir H
    Ethnobotanical survey of medicinally important wild edible fruits species used by tribal communities of Lesser Himalayas-Pakistan2013Ingår i: Journal of Ethnopharmacology, ISSN 0378-8741, E-ISSN 1872-7573, Vol. 148, nr 2, s. 528-536Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Ethnopharmacological relevance: Present survey was conducted to explore ethnomedicinal uses and cultural importance of wild edible fruits species by the inhabitants of Lesser Himalayas-Pakistan. Materials and methods: Information was obtained through informed consent semi-structured interviews, questionnaires, market survey, focus group conversation, unceremonious dialogue and village walks with key informants. Cultural significance of each species was calculated based on use report by participants at each study site. Results: A total of 35 wild edible fruits belonging to 21 genera and 17 families were used for the treatment of various ailments and consumed. Rosaceae was found dominating family with (8 spp.), followed by Moraceae (6 spp.), Rhamnaceae (5 spp.), Palmae and Vitaceae (2 spp. each) and remaining families were represented by one species each. Fruits (48%) were found highly utilized plant parts, followed by leaves (34%), bark, flowers and seeds (4% each), branches, latex and roots (2% each). Water was used as a medium for preparation while milk, ghee, oil, egg and butter are used for application. Modes of preparation were fall into seven categories like fresh parts eaten raw (38%), powder (24%), decoction (20%), extract (12 %), paste (4%), juice and latex (2% each). Based on cultural important index (CI) Morus nigra was found most significant species within top ten fruit plants followed by Morus alba, Olea ferruginea, Berberis lycium, Pyrus pashia, Ficus carica, Ficus palmata, Ziziphus mauritiana, Diospyros lotus and Ziziphus nummularia. Conclusions: Traditional uses of wild edible plant depend mainly on socio-economic factors rather than climatic conditions or wealth of flora. Use reports and citation demonstrated that there is a common cultural heritage regarding the gathered food plants. Further investigation is required for Antioxidant study, essential and toxic components, pharmacological applications; dietary requirements and biotechnological techniques to improve yields.

    (C) 2013 Elsevier Ireland Ltd. All rights reserved.

  • 2. Abreu, Ilka N.
    et al.
    Johansson, Annika I.
    Sokolowska, Katarzyna
    Niittylä, Totte
    Sundberg, Björn
    Hvidsten, Torgeir R.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC). Faculty of Chemistry, Biotechnology and Food Science, Norwegian University of Life Sciences, Ås, Norway.
    Street, Nathaniel R.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Moritz, Thomas
    A metabolite roadmap of the wood-forming tissue in Populus tremula2020Ingår i: New Phytologist, ISSN 0028-646X, E-ISSN 1469-8137, Vol. 228, nr 5, s. 1559-1572Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Wood, or secondary xylem, is the product of xylogenesis, a developmental process that begins with the proliferation of cambial derivatives and ends with mature xylem fibers and vessels with lignified secondary cell walls. Fully mature xylem has undergone a series of cellular processes, including cell division, cell expansion, secondary wall formation, lignification and programmed cell death. A complex network of interactions between transcriptional regulators and signal transduction pathways controls wood formation. However, the role of metabolites during this developmental process has not been comprehensively characterized. To evaluate the role of metabolites during wood formation, we performed a high spatial resolution metabolomics study of the wood-forming zone of Populus tremula, including laser dissected aspen ray and fiber cells. We show that metabolites show specific patterns within the wood-forming zone, following the differentiation process from cell division to cell death. The data from profiled laser dissected aspen ray and fiber cells suggests that these two cell types host distinctly different metabolic processes. Furthermore, by integrating previously published transcriptomic and proteomic profiles generated from the same trees, we provide an integrative picture of molecular processes, for example, deamination of phenylalanine during lignification is of critical importance for nitrogen metabolism during wood formation.

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  • 3. Agostinelli, Marta
    et al.
    Cleary, Michelle
    Martin, Juan A.
    Albrectsen, Benedicte R.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Witzell, Johanna
    Pedunculate Oaks (Quercus robur L.) Differing in Vitality as Reservoirs for Fungal Biodiversity2018Ingår i: Frontiers in Microbiology, E-ISSN 1664-302X, Vol. 9, artikel-id 1758Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Ecological significance of trees growing in urban and peri-urban settings is likely to increase in future land-use regimes, calling for better understanding of their role as potential reservoirs or stepping stones for associated biodiversity. We studied the diversity of fungal endophytes in woody tissues of asymptomatic even aged pedunculate oak trees, growing as amenity trees in a peri-urban setting. The trees were classified into three groups according to their phenotypic vitality (high, medium, and low). Endophytes were cultured on potato dextrose media from surface sterilized twigs and DNA sequencing was performed to reveal the taxonomic identity of the morphotypes. In xylem tissues, the frequency and diversity of endophytes was highest in oak trees showing reduced vitality. This difference was not found for bark samples, in which the endophyte infections were more frequent and communities more diverse than in xylem. In general, most taxa were shared across the samples with few morphotypes being recovered in unique samples. Leaf phenolic profiles were found to accurately classify the trees according to their phenotypic vitality. Our results confirm that xylem is more selective substrate for endophytes than bark and that endophyte assemblages in xylem are correlated to the degree of host vitality. Thus, high vitality of trees may be associated with reduced habitat quality to wood-associated endophytes.

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  • 4.
    Aguida, Blanche
    et al.
    Unite Mixed de Recherche (UMR) Centre Nationale de la Recherche Scientifique (CNRS) 8256 (B2A), Institut de Biologie Paris-Seine (IBPS), Sorbonne Université, Paris, France.
    Babo, Jonathan
    Unite Mixed de Recherche (UMR) Centre Nationale de la Recherche Scientifique (CNRS) 8256 (B2A), Institut de Biologie Paris-Seine (IBPS), Sorbonne Université, Paris, France.
    Baouz, Soria
    Unite Mixed de Recherche (UMR) Centre Nationale de la Recherche Scientifique (CNRS) 8256 (B2A), Institut de Biologie Paris-Seine (IBPS), Sorbonne Université, Paris, France.
    Jourdan, Nathalie
    Unite Mixed de Recherche (UMR) Centre Nationale de la Recherche Scientifique (CNRS) 8256 (B2A), Institut de Biologie Paris-Seine (IBPS), Sorbonne Université, Paris, France.
    Procopio, Maria
    Department of Biophysics, Faculty of Arts and Sciences, Johns Hopkins University, MD, Baltimore, United States.
    El-Esawi, Mohamed A.
    Botany Department, Faculty of Science, Tanta University, Tanta, Egypt.
    Engle, Dorothy
    Biology Department, Xavier University, OH, Cincinnati, United States.
    Mills, Stephen
    Chemistry Department, Xavier University, OH, Cincinnati, United States.
    Wenkel, Stephan
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Huck, Alexander
    DTU Physics, Technical University of Denmark, Kongens Lyngby, Denmark.
    Berg-Sørensen, Kirstine
    DTU Health Technology, Technical University of Denmark, Kongens Lyngby, Denmark.
    Kampranis, Sotirios C.
    Biochemical Engineering Group, Plant Biochemistry Section, Department of Plant and Environment Sciences, University of Copenhagen, Frederiksberg, Denmark.
    Link, Justin
    Physics and Engineering Department, OH, Cincinnati, United States.
    Ahmad, Margaret
    Unite Mixed de Recherche (UMR) Centre Nationale de la Recherche Scientifique (CNRS) 8256 (B2A), Institut de Biologie Paris-Seine (IBPS), Sorbonne Université, Paris, France; Biology Department, Xavier University, OH, Cincinnati, United States.
    'Seeing' the electromagnetic spectrum: spotlight on the cryptochrome photocycle2024Ingår i: Frontiers in Plant Science, E-ISSN 1664-462X, Vol. 15, artikel-id 1340304Artikel, forskningsöversikt (Refereegranskat)
    Abstract [en]

    Cryptochromes are widely dispersed flavoprotein photoreceptors that regulate numerous developmental responses to light in plants, as well as to stress and entrainment of the circadian clock in animals and humans. All cryptochromes are closely related to an ancient family of light-absorbing flavoenzymes known as photolyases, which use light as an energy source for DNA repair but themselves have no light sensing role. Here we review the means by which plant cryptochromes acquired a light sensing function. This transition involved subtle changes within the flavin binding pocket which gave rise to a visual photocycle consisting of light-inducible and dark-reversible flavin redox state transitions. In this photocycle, light first triggers flavin reduction from an initial dark-adapted resting state (FADox). The reduced state is the biologically active or ‘lit’ state, correlating with biological activity. Subsequently, the photoreduced flavin reoxidises back to the dark adapted or ‘resting’ state. Because the rate of reoxidation determines the lifetime of the signaling state, it significantly modulates biological activity. As a consequence of this redox photocycle Crys respond to both the wavelength and the intensity of light, but are in addition regulated by factors such as temperature, oxygen concentration, and cellular metabolites that alter rates of flavin reoxidation even independently of light. Mechanistically, flavin reduction is correlated with conformational change in the protein, which is thought to mediate biological activity through interaction with biological signaling partners. In addition, a second, entirely independent signaling mechanism arises from the cryptochrome photocycle in the form of reactive oxygen species (ROS). These are synthesized during flavin reoxidation, are known mediators of biotic and abiotic stress responses, and have been linked to Cry biological activity in plants and animals. Additional special properties arising from the cryptochrome photocycle include responsivity to electromagnetic fields and their applications in optogenetics. Finally, innovations in methodology such as the use of Nitrogen Vacancy (NV) diamond centers to follow cryptochrome magnetic field sensitivity in vivo are discussed, as well as the potential for a whole new technology of ‘magneto-genetics’ for future applications in synthetic biology and medicine.

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  • 5.
    Ailizati, Aili
    et al.
    Graduate School of Science and Engineering, Saitama University, Saitama, Japan.
    Nagahage, Isura Sumeda Priyadarshana
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik.
    Miyagi, Atsuko
    Graduate School of Science and Engineering, Saitama University, Saitama, Japan.
    Ishikawa, Toshiki
    Graduate School of Science and Engineering, Saitama University, Saitama, Japan.
    Kawai-Yamada, Maki
    Graduate School of Science and Engineering, Saitama University, Saitama, Japan.
    Demura, Taku
    Graduate School of Biological Sciences, Nara Institute of Science and Technology (NAIST), Nara, Japan.
    Yamaguchi, Masatoshi
    Graduate School of Science and Engineering, Saitama University, Saitama, Japan.
    An Arabidopsis NAC domain transcriptional activator VND7 negatively regulates VNI2 expression2021Ingår i: Plant Biotechnology, ISSN 1342-4580, E-ISSN 1347-6114, Vol. 38, nr 4, s. 415-420Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    A NAC domain transcription factor, VND-INTERACTING2 (VNI2) is originally isolated as an interacting protein with another NAC domain transcription factor, VASCULAR-RELATED NAC-DOMAIN7 (VND7), a master regulator of xylem vessel element differentiation. VND7 directly or indirectly induces expression of a number of genes associated with xylem vessel element differentiation, while VNI2 inhibits the transcriptional activation activities of VND7 by forming a protein complex. VNI2 is expressed at an earlier stage of xylem vessel element differentiation than VND7. Here, to investigate whether VND7 also affects VNI2, a transient expression assay was performed. We demonstrated that VND7 downregulated VNI2 expression. Other transcription factors involved in xylem vessel formation did not show the negative regulation of VNI2 expression. Rather, MYB83, a downstream target of VND7, upregulated VNI2 expression. By using the deletion series of the VNI2 promoter, a 400 bp region was identified as being responsible for downregulation by VND7. These data suggested that VND7 and VNI2 mutually regulate each other, and VNI2 expression is both positively and negatively regulated in the transcriptional cascade.

  • 6.
    Ailizati, Aili
    et al.
    Graduate School of Science and Engineering, Saitama University, 255 Shimo-Okubo, Sakura-ku, Saitama, Saitama, Japan.
    Nagahage, Isura Sumeda Priyadarshana
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik.
    Miyagi, Atsuko
    Graduate School of Science and Engineering, Saitama University, 255 Shimo-Okubo, Sakura-ku, Saitama, Saitama, Japan.
    Ishikawa, Toshiki
    Graduate School of Science and Engineering, Saitama University, 255 Shimo-Okubo, Sakura-ku, Saitama, Saitama, Japan.
    Kawai-Yamada, Maki
    Graduate School of Science and Engineering, Saitama University, 255 Shimo-Okubo, Sakura-ku, Saitama, Saitama, Japan.
    Demura, Taku
    Graduate School of Biological Sciences, Nara Institute of Science and Technology (NAIST), 8916-5 Takayama, Nara, Ikoma, Japan.
    Yamaguchi, Masatoshi
    Graduate School of Science and Engineering, Saitama University, 255 Shimo-Okubo, Sakura-ku, Saitama, Saitama, Japan.
    VND-INTERACTING2 effectively inhibits transcriptional activities of VASCULAR-RELATED NAC-DOMAIN7 through a conserved sequence2022Ingår i: Plant Biotechnology, ISSN 1342-4580, E-ISSN 1347-6114, Vol. 39, nr 2, s. 147-153Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    An Arabidopsis NAC domain transcription factor VND-INTERACTING2 (VNI2) was originally isolated as an interacting protein with another NAC domain transcription factor, VASCULAR-RELATED NAC-DOMAIN7 (VND7), a master regulator of xylem vessel element differentiation. VNI2 inhibits transcriptional activation activity of VND7 by forming a protein complex. Here, to obtain insights into how VNI2 regulates VND7, we tried to identify the amino acid region of VNI2 required for inhibition of VND7. VNI2 has an amino acid sequence similar to the ETHYLENE-RESPONSIVE ELEMENT BINDING FACTOR (ERF)-associated amphiphilic repression (EAR) motif, conserved in transcriptional repressors, at the C-terminus. A transient expression assay showed that the EAR-like motif of VNI2 was not required for inhibition of VND7. The C-terminal deletion series of VNI2 revealed that 10 amino acid residues, highly conserved in the VNI2 orthologs contributed to effective repression of the transcriptional activation activity of VND7. Observation of transgenic plants ectopically expressing VNI2 showed that the identified 10 amino acid sequence strongly affected xylem vessel formation and plant growth. These data indicated that the 10 amino acid sequence of VNI2 has an important role in its transcriptional repression activity and negative regulation of xylem vessel formation.

  • 7. Aksmann, Anna
    et al.
    Shutova, Tatiana
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC). Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik.
    Samuelsson, Göran
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC). Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik.
    Tukaj, Zbigniew
    The mechanism of anthracene interaction with photosynthetic apparatus: A study using intact cells, thylakoid membranes and PS II complexes isolated from Chlamydomonas reinhardtii2011Ingår i: Aquatic Toxicology, ISSN 0166-445X, E-ISSN 1879-1514, Vol. 104, nr 3-4, s. 205-210Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Intact cells of Chlamydomonas reinhardtii as well as isolated thylakoid membranes and photosystem II complexes were used to examine a possible mechanism of anthracene (ANT) interaction with the photosynthetic apparatus. Since ANT concentrations above 1 mM were required to significantly inhibit the rate of oxygen evolution in PS II membrane fragments it may indicate that the toxicant did not directly interact with this photosystem. On the other hand, stimulation of oxygen uptake by ANT-treated thylakoids suggested that ANT could either act as an artificial electron acceptor in the photosynthetic electron transport chain or function as an uncoupler. Electron transfer from excited chlorophyll to ANT is impossible due to the very low reduction potential of ANT and therefore we propose that toxic concentrations of ANT increase the thylakoid membrane permeability and thereby function as an uncoupler, enhancing electron transport in vitro. Hence, its unspecific interference with photosynthetic membranes in vitro suggests that the inhibitory effect observed on intact cell photosynthesis is caused by uncoupling of phosphorylation. 

  • 8.
    Alallaq, Sanaria
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Characterization of adventitious root formation in Populus species and Norway spruce2021Doktorsavhandling, sammanläggning (Övrigt vetenskapligt)
    Abstract [en]

    Adventitious root (AR) formation is a form of post-embryonic development and is a key adaptive trait in plants. De novo adventitious root regeneration represents an elegant evolutionary innovation that allows many plant species to multiply through vegetative propagation; it is widely used in forestry and horticulture to multiply elite genotypes. However, several tree species with high economic and ecological value are difficult to root, and the genetic and molecular bases underlying AR regeneration remain largely elusive. Recently our laboratory showed that jasmonate (JA) and cytokinins (CK) act cooperatively to repress AR initiation (ARI) in Arabidopsishypocotyls, while auxin positively controls ARI by repressing this negative effect. With the recent availability of the reference genomes of Populus spp. and Norway spruce (Picea abies), the aim of this thesis is to explore the molecular and mechanistic foundations of AR formation in woody species and check whether or not there is conservation of the molecular mechanisms identified in Arabidopsis. First, physiological, molecular and hormonic approaches coupled with extensive anatomical analysis were combined to explore the role of light spectral quality in the control of ARI in P. abies de-rooted seedlings. We showed that constant red light (cRL) promotes ARI by reducing the content of the wound-induced phytohormones JA and JA-isoleucine and repressing the accumulation of the isopentyl-adenine-type cytokinins. These results suggest that the cooperative role of JA and CK signaling in the repression of ARI is evolutionarily conserved.Next we compared transcriptomic data from the cambium tissue of woody stem cuttings of the hybrid aspen T89, which is difficult-to-root, and from the hybrid poplar OP42, which is easy-to-root, under hydroponic conditions. The analyses revealed high transcriptional activity in OP42, with twice as many transcription factors differentially expressed in OP42 24 hours after cutting compared to T89. Although we did not observe significant differences in the expression of Auxin response factor (ARF) genes between the two genotypes, the production of transgenic plants downregulating or over-expressing ARF6, 8 or 17 confirmed that PtARF6 and PtARF8 positively and PtARF17 negatively regulate AR development in transgenic hybrid aspen T89. Interestingly, the expression of MYC2 orthologs as well as the expression of several genes involved in JA signaling increased more in T89 than in OP42, suggesting that JA could be a negative regulator of ARI in Populus spp. We also showed that overexpressing PtMYC2 led to a reduced number of ARs in hybrid aspen T89 cuttings. In addition, many genes encoding ROS scavenging proteins such as peroxidases or GSTs were significantly differentially expressed in OP42 24 h after cutting but not in T89, which is interesting since peroxidase activity has often been positively correlated with ARI. In parallel to this research, we characterized the rooting phenotype of clones from the Swedish Aspen (SwAsp) collection usingin vitro cuttings. We observed a significant variation in the rooting ability as well as different root system establishment between the clones. We analyzed the expression of some genes known to be involved in AR development in selected clones with contrasting AR phenotypes but could not identify any correlation between gene expression and rooting phenotype. A transcriptomic analysis of selected clones, with contrasting AR phenotypes, could be a useful tool in the identification of marker genes, which can be used for future selection of the best rooting clones of Populus or other economically important trees in breeding programs.

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  • 9.
    Alallaq, Sanaria
    et al.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC). Department of Biology, College of Science for Women, Baghdad University, Baghdad, Iraq.
    Ranjan, Alok
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Brunoni, Federica
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Novak, Ondrej
    Lakehal, Abdellah
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Bellini, Catherine
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC). Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Institut Jean-Pierre Bourgin, INRAE, AgroParisTech, Universite´ Paris-Saclay, Versailles, France.
    Red Light Controls Adventitious Root Regeneration by Modulating Hormone Homeostasis in Picea abies Seedlings2020Ingår i: Frontiers in Plant Science, E-ISSN 1664-462X, Vol. 11, artikel-id 586140Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Vegetative propagation relies on the capacity of plants to regeneratede novoadventitious roots (ARs), a quantitative trait controlled by the interaction of endogenous factors, such as hormones and environmental cues among which light plays a central role. However, the physiological and molecular components mediating light cues during AR initiation (ARI) remain largely elusive. Here, we explored the role of red light (RL) on ARI in de-rooted Norway spruce seedlings. We combined investigation of hormone metabolism and gene expression analysis to identify potential signaling pathways. We also performed extensive anatomical characterization to investigate ARI at the cellular level. We showed that in contrast to white light, red light promoted ARI likely by reducing jasmonate (JA) and JA-isoleucine biosynthesis and repressing the accumulation of isopentyl-adenine-type cytokinins. We demonstrated that exogenously applied JA and/or CK inhibit ARI in a dose-dependent manner and found that they possibly act in the same pathway. The negative effect of JA on ARI was confirmed at the histological level. We showed that JA represses the early events of ARI. In conclusion, RL promotes ARI by repressing the accumulation of the wound-induced phytohormones JA and CK.

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  • 10.
    Albrectsen, Benedicte Riber
    et al.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Siddique, Abu Bakar
    Ernst-Moritz-Arndt Universität Greifswald, Institut für Botanik und Landschaftsökologie, Greifswald, Germany.
    Decker, Vicki Huizu Guo
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC). Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik.
    Unterseher, Martin
    Robinson, Kathryn M
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Both plant genotype and herbivory shape aspen endophyte communities2018Ingår i: Oecologia, ISSN 0029-8549, E-ISSN 1432-1939, Vol. 187, nr 2, s. 535-545Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Salicinoid phenolic glycosides are common defence substances in salicaceous trees and specialist leaf beetles use these compounds for their own defence against predators. Salicinoids vary qualitatively and qualitatively in aspen (Populus tremula) and this variation has a genetic basis. The foliar endophyte mycobiome is plentiful and we hypothesised that it is related to plant genotype, potentially mediated by salicinoid composition, and that interactions with the leaf beetle Chrysomela tremula may alter this relationship. We studied these three-way interactions in controlled greenhouse experiments. Endophytic fungi were isolated from sterilised leaf tissues with and without beetle damage, and from beetles. We confirmed that endophyte composition was influenced by host genotype. Beetle activity added generalist morphs to the mycobiome that overrode the initial host association. Yeast-like genera (Cryptococcus and Rhodotorula) were isolated only from beetle-damaged tissues and from beetles, whereas fast-growing filamentous fungi dominated beetle-free control plants. Competition experiments between filamentous fungi of plant origin and beetle-related yeasts suggested interaction of both stimulating and inhibiting modes of action amongst the fungi. As a result, we detected examples of amensalism, commensalism, parasitism and competition between the morphs tested, but we found no evidence of mutualism, and consequently no co-evolutionary relationship could be demonstrated, between yeasts carried by beetles, host genotype and associated filamentous morphs. Endophyte studies are method-dependent and high-throughput sequencing technology best define the fungal mycobiome, culturing however continues to be a cheap way to provide fundamental ecological insights and it is also required for experimental studies.

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  • 11. Ali, Qasim
    et al.
    Haider, Muhammad Zulqurnain
    Iftikhar, Wasif
    Jamil, Sidra
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC). Department of Botany, Faculty of Science and Technology, Government College University, Faisalabad, Pakistan.
    Javed, M. Tariq
    Noman, Ali
    Iqbal, Muhammad
    Perveen, Rashida
    Drought tolerance potential of Vigna mungo L. lines as deciphered by modulated growth, antioxidant defense, and nutrient acquisition patterns2016Ingår i: Revista Brasileira de Botânica, ISSN 0100-8404, E-ISSN 1806-9959, Vol. 39, nr 3, s. 801-812Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Water shortage is one of the major environmental constraints that hamper the crop productivity worldwide. The present study was aimed to examine the drought tolerance potential of seven cultivars/lines of Vigna mungo L. depending upon their germination behavior, seedling growth, antioxidative defense mechanism, and nutrient acquisition. An experiment was conducted in the growth chamber using petri-plates and laid out in a completely randomized design (CRD). Hoagland's nutrient solution supplemented with 12 % PEG-8000 (drought treatment) or without PEG-800 (control) was used. Drought stress significantly altered the germination attributes as well as biomass production of all the studied cultivars/lines. Least adversative effects of drought stress were recorded in lines M-01001-1 and M-6036-21, respectively. The studied cultivars/lines exhibited differential response for various biochemical attributes under drought stress. The maximum increase in MDA and SOD activities and protein content was recorded in line M-603621, while the maximum AsA was recorded in line M-01001-1. Drought stress resulted in a significant reduction of plant N, P, K, Ca, and Mg contents, while the plant iron (Fe) contents remained unaffected. Results revealed that cultivars/lines M-01001-1 and M-6036-21 exhibited enhanced performance in terms of nutrient acquisition when stressed by drought. Based upon seed germination behavior, plant biomass production, biochemical attributes and mineral elements, the cultivars/lines M-01001-1 and M-6036-21 were identified as drought tolerant, while M-97 and Arroj-II were identified as drought sensitive.

  • 12.
    Allahverdiyeva, Yagut
    et al.
    Molecular Plant Biology, Department of Life Technologies, University of Turku, Turku, Finland.
    Aro, Eva-Mari
    Molecular Plant Biology, Department of Life Technologies, University of Turku, Turku, Finland.
    van Bavel, Bert
    Section of Environmental Pollutants, Norwegian Institute for Water Research, Oslo, Norway.
    Escudero, Carlos
    Section of Environmental Pollutants, Norwegian Institute for Water Research, Oslo, Norway; Institute for Energy Technology, Kjeller, Norway.
    Funk, Christiane
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Kemiska institutionen.
    Heinonen, Jarna
    Department of Management and Entrepreneurship, School of Economics, University of Turku, Turku, Finland.
    Herfindal, Lars
    Centre for Pharmacy, Department of Clinical Science, University of Bergen, Bergen, Norway.
    Lindblad, Peter
    Microbial Chemistry, Department of Chemistry-Ångström, Ångström Laboratory, Uppsala University, Uppsala, Sweden.
    Mäkinen, Sari
    Department of Production Systems, Natural Resources Institute Finland, Jokioinen, Finland.
    Penttilä, Merja
    Devision of Industrial Biotechnology and Food Solutions, VTT Technical Research Centre of Finland Ltd, Espoo, Finland.
    Sivonen, Kaarina
    Department of Microbiology, University of Helsinki, Helsinki, Finland.
    Skogen Chauton, Matilde
    Department of Fisheries and New Biomarine Industry, SINTEF Ocean, Trondheim, Norway.
    Skomedal, Hanne
    Division of Biotechnology and Plant Health, NIBIO, Ås, Norway.
    Skjermo, Jorunn
    Department of Fisheries and New Biomarine Industry, SINTEF Ocean, Trondheim, Norway.
    NordAqua, a Nordic Center of Excellence to develop an algae-based photosynthetic production platform2021Ingår i: Physiologia Plantarum, ISSN 0031-9317, E-ISSN 1399-3054, Vol. 173, nr 2, s. 507-513Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    NordAqua is a multidisciplinary Nordic Center of Excellence funded by NordForsk Bioeconomy program (2017–2022). The research center promotes Blue Bioeconomy and endeavours to reform the use of natural resources in a environmentally sustainable way. In this short communication, we summarize particular outcomes of the consortium. The key research progress of NordAqua includes (1) improving of photosynthetisis, (2) developing novel photosynthetic cell factories that function in a “solar-driven direct CO2 capture to target bioproducts” mode, (3) promoting the diversity of Nordic cyanobacteria and algae as an abundant and resilient alternative for less sustainable forest biomass and for innovative production of biochemicals, and (4) improving the bio-based wastewater purification and nutrient recycling technologies to provide new tools for integrative circular economy platforms.

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  • 13. Allakhverdiev, Suleyman I.
    et al.
    Zharmukhamedov, Sergey K.
    Rodionova, Margarita V.
    Shuvalov, Vladimir A.
    Dismukes, Charles
    Shen, Jian-Ren
    Barber, James
    Samuelsson, Göran
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Govindjee,
    Vyacheslav (Slava) Klimov (1945-2017): A scientist par excellence, a great human being, a friend, and a Renaissance man2018Ingår i: Photosynthesis Research, ISSN 0166-8595, E-ISSN 1573-5079, Vol. 136, nr 1, s. 1-16Artikel i tidskrift (Övrigt vetenskapligt)
    Abstract [en]

    Vyacheslav Vasilevich (V.V.) Klimov (or Slava, as most of us called him) was born on January 12, 1945 and passed away on May 9, 2017. He began his scientific career at the Bach Institute of Biochemistry of the USSR Academy of Sciences (Akademy Nauk (AN) SSSR), Moscow, Russia, and then, he was associated with the Institute of Photosynthesis, Pushchino, Moscow Region, for about 50 years. He worked in the field of biochemistry and biophysics of photosynthesis. He is known for his studies on the molecular organization of photosystem II (PSII). He was an eminent scientist in the field of photobiology, a well-respected professor, and, above all, an outstanding researcher. Further, he was one of the founding members of the Institute of Photosynthesis in Pushchino, Russia. To most, Slava Klimov was a great human being. He was one of the pioneers of research on the understanding of the mechanism of light energy conversion and of water oxidation in photosynthesis. Slava had many collaborations all over the world, and he is (and will be) very much missed by the scientific community and friends in Russia as well as around the World. We present here a brief biography and some comments on his research in photosynthesis. We remember him as a friendly and enthusiastic person who had an unflagging curiosity and energy to conduct outstanding research in many aspects of photosynthesis, especially that related to PSII.

  • 14.
    Alling, Teodor
    et al.
    Department of Forest Biomaterials and Technology, Swedish University of Agricultural Sciences, Umeå, Sweden; Department of Biology, Lund University, Lund, Sweden.
    Funk, Christiane
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Kemiska institutionen.
    Gentili, Francesco G.
    Department of Forest Biomaterials and Technology, Swedish University of Agricultural Sciences, Umeå, Sweden.
    Nordic microalgae produce biostimulant for the germination of tomato and barley seeds2023Ingår i: Scientific Reports, E-ISSN 2045-2322, Vol. 13, nr 1, artikel-id 3509Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Microalgal biomass may have biostimulating effects on plants and seeds due to its phytohormonal content, and harnessing this biostimulating effect could contribute to sustainable agriculture. Two Nordic strains of freshwater microalgae species Chlorella vulgaris and Scenedesmus obliquus were each cultivated in a photobioreactor receiving untreated municipal wastewater. The algal biomass and the supernatant after algal cultivation were tested on tomato and barley seeds for biostimulating effects. Intact algal cells, broken cells, or harvest supernatant were applied to the seeds, and germination time, percentage and germination index were evaluated. Seeds treated with C. vulgaris, in particular intact cells or supernatant, had up to 25 percentage units higher germination percentage after 2 days and an overall significantly faster germination time (germinated on average between 0.5 and 1 day sooner) than seeds treated with S. obliquus or the control (water). The germination index was higher in C. vulgaris treatments than in the control for both tomato and barley, and this was observed for both broken and intact cells as well as supernatant. The Nordic strain of C. vulgaris cultivated in municipal wastewater thus shows potential for use as biostimulant in agriculture, adding novel economic and sustainability benefits.

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  • 15. Amstutz, Cynthia L.
    et al.
    Fristedt, Rikard
    Schultink, Alex
    Merchant, Sabeeha S.
    Niyogi, Krishna K.
    Malnoë, Alizée
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC). Howard Hughes Medical Institute, University of California, Berkeley, CA, USA; Department of Plant and Microbial Biology, University of California, Berkeley, CA, USA; Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
    An atypical short-chain dehydrogenase–reductase functions in the relaxation of photoprotective qH in Arabidopsis2020Ingår i: Nature Plants, ISSN 2055-026X, Vol. 6, s. 154-166Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Photosynthetic organisms experience wide fluctuations in light intensity and regulate light harvesting accordingly to prevent damage from excess energy. The antenna quenching component qH is a sustained form of energy dissipation that protects the photosynthetic apparatus under stress conditions. This photoprotective mechanism requires the plastid lipocalin LCNP and is prevented by SUPPRESSOR OF QUENCHING1 (SOQ1) under non-stress conditions. However, the molecular mechanism of qH relaxation has yet to be resolved. Here, we isolated and characterized RELAXATION OF QH1 (ROQH1), an atypical short-chain dehydrogenase–reductase that functions as a qH-relaxation factor in Arabidopsis. The ROQH1 gene belongs to the GreenCut2 inventory specific to photosynthetic organisms, and the ROQH1 protein localizes to the chloroplast stroma lamellae membrane. After a cold and high-light treatment, qH does not relax in roqh1 mutants and qH does not occur in leaves overexpressing ROQH1. When the soq1 and roqh1 mutations are combined, qH can neither be prevented nor relaxed and soq1 roqh1 displays constitutive qH and light-limited growth. We propose that LCNP and ROQH1 perform dosage-dependent, antagonistic functions to protect the photosynthetic apparatus and maintain light-harvesting efficiency in plants.

  • 16.
    Andersson, Jenny
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik.
    Dissecting the photosystem II light-harvesting antenna2003Doktorsavhandling, sammanläggning (Övrigt vetenskapligt)
    Abstract [en]

    In photosynthesis, sunlight is converted into chemical energy that is stored mainly as carbohydrates and supplies basically all life on Earth with energy.

    In order to efficiently absorb the light energy, plants have developed the outer light harvesting antenna, which is composed of ten different protein subunits (LHC) that bind chlorophyll a and b as well as different carotenoids. In addition to the light harvesting function, the antenna has the capacity to dissipate excess energy as heat (feedback de-excitation or qE), which is crucial to avoid oxidative damage under conditions of high excitation pressure. Another regulatory function in the antenna is the state transitions in which the distribution of the trimeric LHC II between photosystem I (PS I) and II is controlled. The same ten antenna proteins are conserved in all higher plants and based on evolutionary arguments this has led to the suggestion that each protein has a specific function.

    I have investigated the functions of individual antenna proteins of PS II (Lhcb proteins) by antisense inhibition in the model plant Arabidopsis thaliana. Four antisense lines were obtained, in which the target proteins were reduced, in some cases beyond detection level, in other cases small amounts remained.

    The results show that CP29 has a unique function as organising the antenna. CP26 can form trimers that substitute for Lhcb1 and Lhcb2 in the antenna structure, but the trimers that accumulate as a response to the lack of Lhcb1 and Lhcb2 cannot take over the LHC II function in state transitions. It has been argued that LHC II is essential for grana stacking, but antisense plants without Lhcb1 and Lhcb2 do form grana. Furthermore, LHC II is necessary to maintain growth rates in very low light.

    Numerous biochemical evidences have suggested that CP29 and/or CP26 were crucial for feedback de-excitation. Analysis of two antisense lines each lacking one of these proteins clearly shows that there is no direct involvement of either CP29 or CP26 in this process. Investigation of the other antisense lines shows that no Lhcb protein is indispensable for qE. A model for feedback de-excitation is presented in which PsbS plays a major role.

    The positions of the minor antenna proteins in the PS II supercomplex were established by comparisons of transmission electron micrographs of supercomplexes from the wild type and antisense plants.

    A fitness experiment was conducted where the antisense plants were grown in the field and seed production was used to estimate the fitness of the different genotypes. Based on the results from this experiment it is concluded that each Lhcb protein is important, because all antisense lines show reduced fitness in the field.

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    FULLTEXT01
  • 17.
    Andersson-Gunnerås, Sara
    et al.
    Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå.
    Hellgren, Jenny M
    Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå.
    Björklund, Simon
    Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå.
    Regan, Sharon
    Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå.
    Moritz, Thomas
    Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå.
    Sundberg, Björn
    Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå.
    Asymmetric expression of a poplar ACC oxidase controls ethylene production during gravitational induction of tension wood2003Ingår i: The Plant Journal, ISSN 0960-7412, E-ISSN 1365-313X, Vol. 34, nr 3, s. 339-349Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Ethylene is produced in wood-forming tissues, and when applied exogenously, it has been shown to cause profound effects on the pattern and rate of wood development. However, the molecular regulation of ethylene biosynthesis during wood formation is poorly understood. We have characterised an abundant 1-aminocyclopropane-1-carboxylic acid (ACC) oxidase gene (PttACO1) in the wood-forming tissues of Populus tremula (L.) × P. tremuloides (Michx). PttACO1 is primarily expressed in developing secondary xylem, and is specifically upregulated during secondary wall formation. Nevertheless, according to GC–MS analysis combined with tangential cryosectioning, the distribution of ACC was found to be fairly uniform across the cambial-region tissues. Gravitational stimulation, which causes tension wood to form on the upper side of the stem, resulted in a strong induction of PttACO1 expression and ACC oxidase activity in the tension wood-forming tissues. The ACC levels increased in parallel to the PttACO1 expression. However, the increase on the upper (tension wood) side was only minor, whereas large amounts of both ACC and its hydrolysable conjugates accumulated on the lower (opposite) side of the stem. This suggests that the relatively low level of ACC on the tension wood side is a result of its conversion to ethylene by the highly upregulated PttACO1, and the concurrent accumulation of ACC on the opposite side of the wood is because of the low PttACO1 levels. We conclude that PttACO1 and ACC oxidase activity, but not ACC availability, are important in the control of the asymmetric ethylene production within the poplar stem when tension wood is induced by gravitational stimulation.

  • 18.
    André, Domenique
    et al.
    Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå, Sweden.
    Marcon, Alice
    Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå, Sweden.
    Lee, Keh Chien
    Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå, Sweden.
    Goretti, Daniela
    Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå, Sweden.
    Zhang, Bo
    Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå, Sweden.
    Delhomme, Nicolas
    Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå, Sweden.
    Schmid, Markus
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Nilsson, Ove
    Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå, Sweden.
    FLOWERING LOCUS T paralogs control the annual growth cycle in Populus trees2022Ingår i: Current Biology, ISSN 0960-9822, E-ISSN 1879-0445, Vol. 32, nr 13, s. 2988-2996.e4Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    In temperate and boreal regions, perennials adapt their annual growth cycle to the change of seasons. These adaptations ensure survival in harsh environmental conditions, allowing growth at different latitudes and altitudes, and are therefore tightly regulated. Populus tree species cease growth and form terminal buds in autumn when photoperiod falls below a certain threshold.1 This is followed by establishment of dormancy and cold hardiness over the winter. At the center of the photoperiodic pathway in Populus is the gene FLOWERING LOCUS T2 (FT2), which is expressed during summer and harbors significant SNPs in its locus associated with timing of bud set.1–4 The paralogous gene FT1, on the other hand, is hyper-induced in chilling buds during winter.3,5 Even though its function is so far unknown, it has been suggested to be involved in the regulation of flowering and the release of winter dormancy.3,5 In this study, we employ CRISPR-Cas9-mediated gene editing to individually study the function of the FT-like genes in Populus trees. We show that while FT2 is required for vegetative growth during spring and summer and regulates the entry into dormancy, expression of FT1 is absolutely required for bud flush in spring. Gene expression profiling suggests that this function of FT1 is linked to the release of winter dormancy rather than to the regulation of bud flush per se. These data show how FT duplication and sub-functionalization have allowed Populus trees to regulate two completely different and major developmental control points during the yearly growth cycle.

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  • 19.
    Angelcheva, Liudmila
    et al.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Kemiska institutionen.
    Mishra, Yogesh
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Kemiska institutionen. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Antti, Henrik
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Kemiska institutionen.
    Kjellsen, Trygve D.
    Department of Biology, Norwegian University of Science and Technology.
    Funk, Christiane
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Kemiska institutionen. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Strimbeck, Richard G.
    Department of Biology, Norwegian University of Science and Technology.
    Schröder, Wolfgang P.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Kemiska institutionen. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Metabolomic analysis of extreme freezing tolerance in Siberian spruce (Picea obovata)2014Ingår i: New Phytologist, ISSN 0028-646X, E-ISSN 1469-8137, Vol. 204, nr 3, s. 545-555Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Siberian spruce (Picea obovata) is one of several boreal conifer species that can survive at extremely low temperatures (ELTs). When fully acclimated, its tissues can survive immersion in liquid nitrogen. Relatively little is known about the biochemical and biophysical strategies of ELT survival. We profiled needle metabolites using gas chromatography coupled with mass spectrometry (GC-MS) to explore the metabolic changes that occur during cold acclimation caused by natural temperature fluctuations. In total, 223 metabolites accumulated and 52 were depleted in fully acclimated needles compared with pre-acclimation needles. The metabolite profiles were found to develop in four distinct phases, which are referred to as pre-acclimation, early acclimation, late acclimation and fully acclimated. Metabolite changes associated with carbohydrate and lipid metabolism were observed, including changes associated with increased raffinose family oligosaccharide synthesis and accumulation, accumulation of sugar acids and sugar alcohols, desaturation of fatty acids, and accumulation of digalactosylglycerol. We also observed the accumulation of protein and nonprotein amino acids and polyamines that may act as compatible solutes or cryoprotectants. These results provide new insight into the mechanisms of freezing tolerance development at the metabolite level and highlight their importance in rapid acclimation to ELT in P.obovata.

  • 20. Anoman, Armand D.
    et al.
    Flores-Tornero, Maria
    Benstein, Ruben M.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC). Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Biocenter–Botanical Institute II, University of Cologne, Cologne, Germany.
    Blau, Samira
    Rosa-Tellez, Sara
    Braeutigam, Andrea
    Fernie, Alisdair R.
    Munoz-Bertomeu, Jesus
    Schilasky, Soeren
    Meyer, Andreas J.
    Kopriva, Stanislav
    Segura, Juan
    Krueger, Stephan
    Ros, Roc
    Deficiency in the Phosphorylated Pathway of Serine Biosynthesis Perturbs Sulfur Assimilation2019Ingår i: Plant Physiology, ISSN 0032-0889, E-ISSN 1532-2548, Vol. 180, nr 1, s. 153-170Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Although the plant Phosphorylated Pathway of L-Ser Biosynthesis (PPSB) is essential for embryo and pollen development, and for root growth, its metabolic implications have not been fully investigated. A transcriptomics analysis of Arabidopsis (Arabidopsis thaliana) PPSB-deficient mutants at night, when PPSB activity is thought to be more important, suggested interaction with the sulfate assimilation process. Because sulfate assimilation occurs mainly in the light, we also investigated it in PPSB-deficient lines in the day. Key genes in the sulfate starvation response, such as the adenosine 5'phosphosulfate reductase genes, along with sulfate transporters, especially those involved in sulfate translocation in the plant, were induced in the PPSB-deficient lines. However, sulfate content was not reduced in these lines as compared with wild-type plants; besides the glutathione (GSH) steady-state levels in roots of PPSB-deficient lines were even higher than in wild type. This suggested that PPSB deficiency perturbs the sulfate assimilation process between tissues/organs. Alteration of thiol distribution in leaves from different developmental stages, and between aerial parts and roots in plants with reduced PPSB activity, provided evidence supporting this idea. Diminished PPSB activity caused an enhanced flux of S-35 into thiol biosynthesis, especially in roots. GSH turnover also accelerated in the PPSB-deficient lines, supporting the notion that not only biosynthesis, but also transport and allocation, of thiols were perturbed in the PPSB mutants. Our results suggest that PPSB is required for sulfide assimilation in specific heterotrophic tissues and that a lack of PPSB activity perturbs sulfur homeostasis between photosynthetic and nonphotosynthetic tissues.

  • 21. Aronsson, Mora
    et al.
    Black-Samuelsson, Sanna
    Edqvist, Margareta
    Persson, Erik
    Nordiskt Genresurscenter (NordGen) och SLU.
    Ståhlberg, David
    Weibull, Jens
    Kulturväxtsläktingar: något att bry sig om2012Ingår i: Svensk Botanisk Tidskrift, ISSN 0039-646X, Vol. 106, s. 309-318Artikel i tidskrift (Refereegranskat)
  • 22.
    Arshad, Rameez
    et al.
    Department of Biophysics, Centre of the Region Haná for Biotechnological and Agricultural Research, Faculty of Science, Palacký University, Olomouc, Czech Republic; Electron microscopy group, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, Groningen, The Netherlands.
    Saccon, Francesco
    Queen Mary University of London, School of Biological and Behavioural Sciences, London, UK.
    Bag, Pushan
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Biswas, Avratanu
    Department of Physics and Astronomy and LaserLaB, Faculty of Science, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands.
    Calvaruso, Claudio
    Institute for Molecular Biosciences,Goethe University of Frankfurt, Frankfurt, Germany.
    Bhatti, Ahmad Farhan
    Laboratory of Biophysics, Wageningen University, Wageningen, the Netherlands.
    Grebe, Steffen
    Department of Life Technologies, MolecularPlant Biology, University of Turku, Turku, Finland.
    Mascoli, Vincenzo
    Department of Physics and Astronomy and LaserLaB, Faculty of Science, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands.
    Mahbub, Moontaha
    Queen Mary University of London, School of Biological and Behavioural Sciences, London, UK; Department of Botany, Jagannath University, Dhaka, Bangladesh.
    Muzzopappa, Fernando
    Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Université Paris-Sud, Université Paris-Saclay, Gif sur Yvette, France.
    Polyzois, Alexandros
    Université de Paris, Faculté de pharmacie de Paris, CiTCoM UMR 8038 CNRS, Paris, France.
    Schiphorst, Christo
    Dipartimento di Biotecnologie, Università di Verona, Verona, Italy.
    Sorrentino, Mirella
    Photon Systems Instruments, spol. s.r.o., Drásov, Czechia; Department of Agricultural Sciences, University of Naples Federico II, Napoli, Italy.
    Streckaité, Simona
    Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Université Paris-Sud, Université Paris-Saclay, Gif sur Yvette, France.
    van Amerongen, Herbert
    Laboratory of Biophysics, Wageningen University, Wageningen, the Netherlands.
    Aro, Eva-Mari
    Department of Life Technologies, MolecularPlant Biology, University of Turku, Turku, Finland.
    Bassi, Roberto
    Dipartimento di Biotecnologie, Università di Verona, Verona, Italy.
    Boekema, Egbert J.
    Electron microscopy group, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, Groningen, The Netherlands.
    Croce, Roberta
    Department of Physics and Astronomy and LaserLaB, Faculty of Science, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands.
    Dekker, Jan
    Department of Physics and Astronomy and LaserLaB, Faculty of Science, Vrije Universiteit Amsterdam, De Boelelaan 1081, 1081 HV Amsterdam, The Netherlands.
    van Grondelle, Rienk
    Department of Physics and Astronomy and LaserLaB, Faculty of Science, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands.
    Jansson, Stefan
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC). Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik.
    Kirilovsky, Diana
    Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Université Paris-Sud, Université Paris-Saclay, Gif sur Yvette, France.
    Kouřil, Roman
    Department of Biophysics, Centre of the Region Haná for Biotechnological and Agricultural Research, Faculty of Science, Palacký University, Olomouc, Czech Republic.
    Michel, Sylvie
    Université de Paris, Faculté de pharmacie de Paris, CiTCoM UMR 8038 CNRS, Paris, France.
    Mullineaux, Conrad W.
    Queen Mary University of London, School of Biological and Behavioural Sciences, London, UK.
    Panzarová, Klára
    Photon Systems Instruments, spol. s.r.o., Drásov, Czechia.
    Robert, Bruno
    Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Université Paris-Sud, Université Paris-Saclay, Gif sur Yvette, France.
    Ruban, Alexander V.
    Queen Mary University of London, School of Biological and Behavioural Sciences, London, UK.
    van Stokkum, Ivo
    Department of Physics and Astronomy and LaserLaB, Faculty of Science, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands.
    Wientjes, Emilie
    Laboratory of Biophysics, Wageningen University, Wageningen, the Netherlands.
    Büchel, Claudia
    Institute for Molecular Biosciences,Goethe University of Frankfurt, Frankfurt, Germany.
    A kaleidoscope of photosynthetic antenna proteins and their emerging roles2022Ingår i: Plant Physiology, ISSN 0032-0889, E-ISSN 1532-2548, Vol. 189, nr 3, s. 1204-1219Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Photosynthetic light-harvesting antennae are pigment-binding proteins that perform one of the most fundamental tasks on Earth, capturing light and transferring energy that enables life in our biosphere. Adaptation to different light environments led to the evolution of an astonishing diversity of light-harvesting systems. At the same time, several strategies have been developed to optimize the light energy input into photosynthetic membranes in response to fluctuating conditions. The basic feature of these prompt responses is the dynamic nature of antenna complexes, whose function readily adapts to the light available. High-resolution microscopy and spectroscopic studies on membrane dynamics demonstrate the crosstalk between antennae and other thylakoid membrane components. With the increased understanding of light-harvesting mechanisms and their regulation, efforts are focusing on the development of sustainable processes for effective conversion of sunlight into functional bio-products. The major challenge in this approach lies in the application of fundamental discoveries in light-harvesting systems for the improvement of plant or algal photosynthesis. Here, we underline some of the latest fundamental discoveries on the molecular mechanisms and regulation of light harvesting that can potentially be exploited for the optimization of photosynthesis.

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  • 23.
    Ashelford, Kevin
    et al.
    School of Biological Sciences, University of Liverpool, Liverpool, UK.
    Eriksson, Maria E
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Allen, Christopher M
    Applied Biosystems, part of Life Technologies, Warrington, UK.
    D’Amore, Linda
    School of Biological Sciences, University of Liverpool, Liverpool, UK.
    Johansson, Mikael
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Gould, Peter
    School of Biological Sciences, University of Liverpool, Liverpool, UK.
    Kay, Susanne
    School of Biological Sciences, University of Liverpool, Liverpool, UK.
    Millar, Andrew J.
    Institute of Molecular Plant Sciences, School of Biological Sciences, University of Edinburgh, Edinburgh, UK.
    Hall, Neil
    School of Biological Sciences, University of Liverpool, Liverpool, UK.
    Hall, Anthony
    School of Biological Sciences, University of Liverpool, Liverpool, UK.
    Full genome re-sequencing reveals a novel circadian clock mutationin Arabidopsis2011Ingår i: Genome Biology, ISSN 1465-6906, E-ISSN 1474-760X, Vol. 12, s. R28-Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Background: Map based cloning in Arabidopsis thaliana can be a difficult and time-consuming process,specifically if the phenotype is subtle and scoring labour intensive. An alternative to map basedcloning would be to directly sequence the whole genome of a mutant to uncover the mutationresponsible for the phenotype.

    Results: Here, we have re-sequenced the 120 Mb genome of a novel Arabidopsis clock mutant earlybird (ebi-1), using massively parallel sequencing by ligation. This process was further complicated by the fact that ebi-1 is in Wassilewskija (Ws-2), not the reference accession ofArabidopsis. The approach reveals evidence of DNA strand bias in the ethyl methanesulfonate(EMS) mutation process. We have demonstrated the utility of sequencing a backcrossed line andusing gene expression data to limit the number of SNP considered. Using new SNP informationwe have excluded a previously identified clock gene, PRR7. Finally, we have identified a SNPin the gene AtNFXL-2 as the likely cause of the ebi-1 phenotype and validated this bycharacterising a further allele.

    Conclusion: In Arabidopsis, as in other organisms, the (EMS) mutation load can be high. Here wedescribe how sequencing a backcrossed line, using functional genomics and analysing new SNPinformation can be used to reduce the number EMS mutations for consideration. Moreover, theapproach we describe here does not require out-crossing and scoring F2 mapping populations, anapproach which can be compromised by background effects. The strategy has broad utility andwill be an extremely useful tool to identify causative SNP in other organisms.

  • 24.
    Askaner, Jennifer
    Umeå universitet, Humanistiska fakulteten, Institutionen för kultur- och medievetenskaper.
    Att återta kunskap, att återta kraft: En etnobotanisk studie om hur traditionell kunskap om jämtländska läkeväxter tolkas, brukas och förs vidare idag2021Självständigt arbete på avancerad nivå (magisterexamen), 10 poäng / 15 hpStudentuppsats (Examensarbete)
    Abstract [en]

    To regain knowledge, to regain power: An ethnobotanical study of how traditional knowledge about medicinal plants in Jämtland is interpreted, used and passed on today is an essay that explores different meanings of people's relationships with plants, traditional knowledge, trade, sustainability and local identity. It does this through the knowledge and stories shared by six persons with a common interest in medicinal plants in county Jämtland, Sweden. The interviewees illustrate different aspects of their relationships with plants. Through this, the thesis demonstrates how the knowledge about the medicinal plants is incorporated into the participants in the form of a doing. It also explores how this knowledge is traded and how trade includes various aspects of learning where the traditional knowledge is formed based on personal context and in relation to nature. How humans and nature interact and how nature gives man peace and health through continuous relationships is also prominent. The value of preserving this knowledge and how examples, such as the importance of sustainability, become a valued interpretation in a contemporary context. This is also true in regards to how nature can affect people's identity creation and how local identity can be linked to plants. 

    Keywords: medicinal plants, traditional knowledge, local identity, sustainability, trade, ethnobotany. 

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    Att återta kunskap, att återta kraft
  • 25. Aubry, Emilie
    et al.
    Dinant, Sylvie
    Vilaine, Francoise
    Bellini, C
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Le Hir, Rozenn
    Lateral Transport of Organic and Inorganic Solutes2019Ingår i: PLANTS, E-ISSN 2223-7747, Vol. 8, nr 1, artikel-id 20Artikel, forskningsöversikt (Refereegranskat)
    Abstract [en]

    Organic (e.g., sugars and amino acids) and inorganic (e.g., K+, Na+, PO42−, and SO42−) solutes are transported long-distance throughout plants. Lateral movement of these compounds between the xylem and the phloem, and vice versa, has also been reported in several plant species since the 1930s, and is believed to be important in the overall resource allocation. Studies of Arabidopsis thaliana have provided us with a better knowledge of the anatomical framework in which the lateral transport takes place, and have highlighted the role of specialized vascular and perivascular cells as an interface for solute exchanges. Important breakthroughs have also been made, mainly in Arabidopsis, in identifying some of the proteins involved in the cell-to-cell translocation of solutes, most notably a range of plasma membrane transporters that act in different cell types. Finally, in the future, state-of-art imaging techniques should help to better characterize the lateral transport of these compounds on a cellular level. This review brings the lateral transport of sugars and inorganic solutes back into focus and highlights its importance in terms of our overall understanding of plant resource allocation.

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  • 26.
    Aubry, Emilie
    et al.
    Institut Jean-Pierre Bourgin, AgroParisTech, Université Paris-Saclay, Versailles, France; Ecole Doctorale 567 Sciences du Végétal, Univ Paris-Sud, Univ Paris-Saclay ,bat 360, France.
    Hoffmann, Beate
    Institut Jean-Pierre Bourgin, AgroParisTech, Université Paris-Saclay, Versailles, France.
    Vilaine, Françoise
    Institut Jean-Pierre Bourgin, AgroParisTech, Université Paris-Saclay, Versailles, France.
    Gilard, Françoise
    Plateforme Métabolisme-Métabolome, Institute of Plant Sciences Paris-Saclay IPS2, CNRS, Univ Paris Sud, Univ Evry, Univ Paris-Diderot, Rue de Noetzlin, Sorbonne Paris-Cité ,Université Paris-Saclay ,Bâtiment 360, France.
    Klemens, Patrick A W
    Universität Kaiserslautern, Pflanzenphysiologie, Postfach 3049, Kaiserslautern, Germany.
    Guérard, Florence
    Plateforme Métabolisme-Métabolome, Institute of Plant Sciences Paris-Saclay IPS2, CNRS, Univ Paris Sud, Univ Evry, Univ Paris-Diderot, Rue de Noetzlin, Sorbonne Paris-Cité ,Université Paris-Saclay ,Bâtiment 360, France.
    Gakière, Bertrand
    Plateforme Métabolisme-Métabolome, Institute of Plant Sciences Paris-Saclay IPS2, CNRS, Univ Paris Sud, Univ Evry, Univ Paris-Diderot, Rue de Noetzlin, Sorbonne Paris-Cité ,Université Paris-Saclay ,Bâtiment 360, France.
    Neuhaus, H Ekkehard
    Universität Kaiserslautern, Pflanzenphysiologie, Postfach 3049, Kaiserslautern, Germany.
    Bellini, Catherine
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC). Institut Jean-Pierre Bourgin, AgroParisTech, Université Paris-Saclay, Versailles, France.
    Dinant, Sylvie
    Institut Jean-Pierre Bourgin, AgroParisTech, Université Paris-Saclay, Versailles, France.
    Le Hir, Rozenn
    Institut Jean-Pierre Bourgin, AgroParisTech, Université Paris-Saclay, Versailles, France.
    A vacuolar hexose transport is required for xylem development in the inflorescence stem2022Ingår i: Plant Physiology, ISSN 0032-0889, E-ISSN 1532-2548, Vol. 188, nr 2, s. 1229-1247Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    In Angiosperms, the development of the vascular system is controlled by a complex network of transcription factors. However, how nutrient availability in the vascular cells affects their development remains to be addressed. At the cellular level, cytosolic sugar availability is regulated mainly by sugar exchanges at the tonoplast through active and/or facilitated transport. In Arabidopsis (Arabidopsis thaliana), among the genes encoding tonoplastic transporters, SUGAR WILL EVENTUALLY BE EXPORTED TRANSPORTER 16 (SWEET16) and SWEET17 expression has been previously detected in the vascular system. Here, using a reverse genetics approach, we propose that sugar exchanges at the tonoplast, regulated by SWEET16, are important for xylem cell division as revealed in particular by the decreased number of xylem cells in the swt16 mutant and the accumulation of SWEET16 at the procambium-xylem boundary. In addition, we demonstrate that transport of hexoses mediated by SWEET16 and/or SWEET17 is required to sustain the formation of the xylem secondary cell wall. This result is in line with a defect in the xylem cell wall composition as measured by Fourier-transformed infrared spectroscopy in the swt16swt17 double mutant and by upregulation of several genes involved in secondary cell wall synthesis. Our work therefore supports a model in which xylem development partially depends on the exchange of hexoses at the tonoplast of xylem-forming cells.

  • 27.
    Augusti, Angela
    Umeå universitet, Teknisk-naturvetenskaplig fakultet, Fysiologisk botanik.
    Monitoring climate and plant physiology using deuterium isotopomers of carbohydrates2007Doktorsavhandling, sammanläggning (Övrigt vetenskapligt)
    Abstract [sv]

    Klimatet förändras och det är numera allmänt vedertaget att detta beror på människans aktiviteter. Halten av växthusgaser har stigit onormalt mycket under de senaste två århundradena och detta beror i största del på människans användning av fossila bränslen. Landbiosfären har hittills haft en buffrande effekt på klimatförändringen eftersom den tar upp och lagrar mycket av växthusgasen CO2. Det är dock osäkert om, och i så fall hur länge, denna effekt kvarstår. Detta gör det mycket svårt att förutsäga framtida klimatförändringar, och därmed hur mycket utsläppen av växthusgaser måste reduceras för att skydda klimatet.

    För att förstå växternas framtida förmåga att begränsa halten atmosfäriskt CO2 har man studerat effekten av förhöjda halter av CO2 på växters fotosyntes och produktivitet. Resultaten av dessa försök varierar i stor omfattning. Studier på träd odlade under höga halter CO2 indikerar att den initiala ökningen av en trädets produktivitet kan vara en temporär effekt som försvinner redan efter några år. Eftersom klimatförändringen sker under århundraden, måste även växternas anpassningar på förhöjd CO2 halt utforskas på denna tidsskala, men experiment som skulle ta tiotals år är opraktiska att utföra. Trädringar är ett bra sätt att studera sådana anpassningar, eftersom träd redan har upplevt de senaste två hundra årens ökning av koldioxid och dess trädringar därför kan innehålla information om en respons som redan skett.

    Denna avhandling visar att den intramolekylära fördelningen av den stabila väteisotopen deuterium i trädringar är en tillförlitlig metod för att studera växters anpassningsförmåga till långsiktiga klimatförändringar. Antagandet bakom denna strategi är att isotopfördelningen i trädringar beror på faktorer både från miljön och växtens fysiologi. Om båda faktorerna skulle kunna utvinnas från trädringar, skulle detta öppna en helt ny väg för parallell rekonstruktion av klimatet och växters anpassning till det. Avhandlingen presenterar den första tekniken för att mäta isotopfördelningen av deuterium i växtglukos. Resultaten visar att deuteriumfördelningen hos växtglukos påverkas av enzymers isotopeffekter, vilket möjliggör att regleringen av växternas metabolism kan kartläggas. I avhandlingen bevisas att halten deuterium i skilda intramolekylära positioner (isotopomerer) av glukos från trädringcellulosa bestäms av miljöfaktorer respektive trädets fysiologi. T.ex. påverkas deuteriumhalten i position 2 (D2 isotopomer) av glukosmolekylen huvudsakligen av miljön, vilket kan användas för att förbättra temperaturrekonstruktioner från trädringar. Å andra sidan är kvoten deuterium mellan två andra positioner (D6R och D6S) relaterat till halten atmosfäriskt koldioxid, och kvoten skulle kunna användas som mått för fotosyntesens effektivitet, dvs. förhållandet mellan fotorespiration och fotosyntes. Närvaron av denna relation i trädringar och annat växtmaterial i alla de växter vi hittills studerat, öppnar en helt ny möjlighet att studera växters anpassning till den ökande mängden CO2 i atmosfären under århundraden.

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  • 28.
    Bacete, Laura
    et al.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC). Institute for Biology, Faculty of Natural Sciences, Norwegian University of Science and Technology, 5 Høgskoleringen, Trondheim, Norway.
    Mélida, Hugo
    Área de Fisiología Vegetal, Departamento de Ingeniería y Ciencias Agrarias, Universidad de León, León, Spain.
    Dynamics and mechanics of plant cell walls: insights into plant growth, defence, and stress response2023Ingår i: Plant Molecular Biology, ISSN 0167-4412, E-ISSN 1573-5028, Vol. 113, nr 6, s. 329-330Artikel i tidskrift (Övrigt vetenskapligt)
  • 29. Bach, Lydia L.
    et al.
    Freer, Jennifer J.
    Kamenos, Nicholas A.
    School of Geographical and Earth Sciences, University of Glasgow, Glasgow, United Kingdom.
    In situ Response of Tropical Coralline Algae to a Novel Thermal Regime2017Ingår i: Frontiers in Marine Science, E-ISSN 2296-7745, Vol. 4, artikel-id 212Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Coralline algae provide important ecosystem services. In situ observations of how they respond to different environmental conditions can help us to understand (i) their ability to adapt to their local environment and (0 their capacity to acclimatize to a novel thermal regime. Here, individuals of the tropical coralline algae, Lithophyllum kotschyanum, were translocated on a coral reef from thermally stable areas to areas characterized by natural temperature variability. Changes in their photosynthetic efficiency were determined using pulse amplitude modulation (PAM) chlorophyll fluorescence. Despite an initial stress response, algae exposed to increases in thermal variation recovered within 24 hours, indicating a rapid, short-term acclimatization capacity. Algae naturally inhabiting thermally variable areas of the reef showed no change in photosynthetic efficiency throughout the study suggesting longer-term adaptation to living in a variable environment also occurs. However, coralline algae living in thermally stable reef areas were abundant and marginally larger, suggesting physiological trade-offs are used to survive in variable environments. Thus, our results suggest that while coralline algae can survive in environmentally variable conditions, there may be structural and ecosystem costs.

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  • 30. Baena-González, Elena
    et al.
    Hanson, Johannes
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik.
    Shaping plant development through the SnRK1–TOR metabolic regulators2017Ingår i: Current opinion in plant biology, ISSN 1369-5266, E-ISSN 1879-0356, Vol. 35, s. 152-157Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    SnRK1 (Snf1-related protein kinase 1) and TOR (target of rapamycin) are evolutionarily conserved protein kinases that lie at the heart of energy sensing, playing central and antagonistic roles in the regulation of metabolism and gene expression. Increasing evidence links these metabolic regulators to numerous aspects of plant development, from germination to flowering and senescence. This prompts the hypothesis that SnRK1 and TOR modify developmental programs according to the metabolic status to adjust plant growth to a specific environment. The aim of this review is to provide support to this hypothesis and to incentivize further studies on this topic by summarizing the work that establishes a genetic connection between SnRK1-TOR and plant development.

  • 31.
    Baez, Luis Alonso
    et al.
    Institute for Biology, Faculty of Natural Sciences, Norwegian University of Science and Technology, 5 Høgskoleringen, Trondheim, Norway.
    Bacete, Laura
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC). Institute for Biology, Faculty of Natural Sciences, Norwegian University of Science and Technology, 5 Høgskoleringen, Trondheim, Norway.
    Cell wall dynamics: novel tools and research questions2023Ingår i: Journal of Experimental Botany, ISSN 0022-0957, E-ISSN 1460-2431, Vol. 74, nr 21, s. 6448-6467Artikel, forskningsöversikt (Refereegranskat)
    Abstract [en]

    Years ago, a classic textbook would define plant cell walls based on passive features. For instance, a sort of plant exoskeleton of invariable polysaccharide composition, and probably painted in green. However, currently, this view has been expanded to consider plant cell walls as active, heterogeneous, and dynamic structures with a high degree of complexity. However, what do we mean when we refer to a cell wall as a dynamic structure? How can we investigate the different implications of this dynamism? While the first question has been the subject of several recent publications, defining the ideal strategies and tools needed to address the second question has proven to be challenging due to the myriad of techniques available. In this review, we will describe the capacities of several methodologies to study cell wall composition, structure, and other aspects developed or optimized in recent years. Keeping in mind cell wall dynamism and plasticity, the advantages of performing long-term non-invasive live-imaging methods will be emphasized. We specifically focus on techniques developed for Arabidopsis thaliana primary cell walls, but the techniques could be applied to both secondary cell walls and other plant species. We believe this toolset will help researchers in expanding knowledge of these dynamic/evolving structures.

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    fulltext
  • 32.
    Bag, Pushan
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    How could Christmas trees remain evergreen?: photosynthetic acclimation of Scots pine and Norway spruce needles during winter2022Doktorsavhandling, sammanläggning (Övrigt vetenskapligt)
    Abstract [en]

    Plants and other green organisms harvest sunlight by green chlorophyll pigments and covertit to chemical energy (sugars) and oxygen in a process called photosynthesis providing the foundation for life on Earth. Although it is unanimously believed that oceanic phytoplanktons are the main contributors to the global photosynthesis, the contribution of coniferous boreal forests distributed across vast regions of the northern hemisphere cannot be undermined. Hence boreal forests account signifificantly for social, economical and environmental sustainability. Not only do conifers thrive in the tundra regions with extreme climate, but they also maintain their needles green over the boreal winter. A question remains; what makes them so resilient? In this respect, we aimed to understand the remarkable winter adaptation strategies in two dominant boreal coniferous species,i.e., Pinus sylvestris and Picea abies. First, we mapped the transcriptional landscape in Norway spruce (Picea abies) needles over the annual cycle. Transcriptional changes in the nascent needles reflflected a sequence of developmental processes and active vegetative growth during early summer and summer. Later after maturation, transcriptome reflflected activated defense against biotic factors and acclimationin response to abiotic environmental cues such as freezing temperatures during winter. Secondly, by monitoring the photosynthetic performance of Scot pine needles, we found that the trees face extreme stress during the early spring (Feb-Mar) when sub-zero temperatures are accompanied by high solar radiation. At this time, drastic changes occur in the thylakoid membranes of the chloroplast that allows the mixing of photosystem I and photosystem II that typically remain laterally segregated. This triggers direct energy transfer from PSII to PSI and thus protects PSII from damage. Furthermore, we found that this loss of lateral segregation may be a consequence of triple phosphorylationof Lhcb1 (Light harvesting complex1 of photosystem II). The structural changes in thylakoid membranes also lead to changes inthe thylakoid macro domain organisationand pigment protein composition. Furthermore, we discovered that while PSII is protected by direct energy transfer, the protection of PSI is provided through photoreduction of oxygen by flavodiiron proteins, which in turn allows P700 to stay in an oxidised state necessary for direct energy transfer. These coordinated cascades of changes concomitantly protect both PSI and PSII to maintain the needles green over the winter.

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  • 33.
    Bag, Pushan
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Light harvesting in fluctuating environments: Evolution and function of antenna proteins across photosynthetic lineage2021Ingår i: PLANTS, E-ISSN 2223-7747, Vol. 10, nr 6, artikel-id 1184Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Photosynthesis is the major natural process that can harvest and harness solar energy into chemical energy. Photosynthesis is performed by a vast number of organisms from single cellular bacteria to higher plants and to make the process efficient, all photosynthetic organisms possess a special type of pigment protein complex(es) that is (are) capable of trapping light energy, known as photosynthetic light-harvesting antennae. From an evolutionary point of view, simpler (unicellular) organisms typically have a simple antenna, whereas higher plants possess complex antenna systems. The higher complexity of the antenna systems provides efficient fine tuning of photosynthesis. This relationship between the complexity of the antenna and the increasing complexity of the organism is mainly related to the remarkable acclimation capability of complex organisms under fluctuating environmental conditions. These antenna complexes not only harvest light, but also provide photoprotection under fluctuating light conditions. In this review, the evolution, structure, and function of different antenna complexes, from single cellular organisms to higher plants, are discussed in the context of the ability to acclimate and adapt to cope under fluctuating environmental conditions.

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  • 34.
    Bag, Pushan
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Photosynthetic O2 consumption prevails over O2 evolution in conifer thylakoid during winterManuskript (preprint) (Övrigt vetenskapligt)
  • 35.
    Bag, Pushan
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Reorganisation of chloroplast macro and micro domains trigger ‘winter sustained quenching’ in conifersManuskript (preprint) (Övrigt vetenskapligt)
  • 36.
    Bag, Pushan
    et al.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Lihavainen, Jenna
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Delhomme, Nicolas
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC). Swedish University of Agricultural Sciences (SLU), Umeå, Sweden.
    Riquelme, Thomas
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Robinson, Kathryn M.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Jansson, Stefan
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    An atlas of the Norway spruce needle seasonal transcriptome2021Ingår i: The Plant Journal, ISSN 0960-7412, E-ISSN 1365-313X, Vol. 108, nr 6, s. 1815-1829Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Boreal conifers possess a tremendous ability to survive and remain evergreen during harsh winter conditions and resume growth during summer. This is enabled by coordinated regulation of major cellular functions at the level of gene expression, metabolism, and physiology. Here we present a comprehensive characterization of the annual changes in the global transcriptome of Norway spruce (Picea abies) needles as a resource to understand needle development and acclimation processes throughout the year. In young, growing needles (May 15 until June 30), cell walls, organelles, etc., were formed, and this developmental program heavily influenced the transcriptome, explained by over-represented Gene Ontology (GO) categories. Later changes in gene expression were smaller but four phases were recognized: summer (July–August), autumn (September–October), winter (November–February), and spring (March–April), where over-represented GO categories demonstrated how the needles acclimated to the various seasons. Changes in the seasonal global transcriptome profile were accompanied by differential expression of members of the major transcription factor families. We present a tentative model of how cellular activities are regulated over the year in needles of Norway spruce, which demonstrates the value of mining this dataset, accessible in ConGenIE together with advanced visualization tools.

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  • 37.
    Bag, Pushan
    et al.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Schröder, Wolfgang P.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Kemiska institutionen.
    Jansson, Stefan
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Farci, Domenica
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Kemiska institutionen.
    Solubilization method for isolation of photosynthetic mega- And super-complexes from conifer thylakoids2021Ingår i: Bio-protocol, E-ISSN 2331-8325, Vol. 11, nr 17, artikel-id e4144Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Photosynthesis is the main process by which sunlight is harvested and converted into chemical energy and has been a focal point of fundamental research in plant biology for decades. In higher plants, the process takes place in the thylakoid membranes where the two photosystems (PSI and PSII) are located. In the past few decades, the evolution of biophysical and biochemical techniques allowed detailed studies of the thylakoid organization and the interaction between protein complexes and cofactors. These studies have mainly focused on model plants, such as Arabidopsis, pea, spinach, and tobacco, which are grown in climate chambers even though significant differences between indoor and outdoor growth conditions are present. In this manuscript, we present a new mild-solubilization procedure for use with “fragile” samples such as thylakoids from conifers growing outdoors. Here, the solubilization protocol is optimized with two detergents in two species, namely Norway spruce (Picea abies) and Scots pine (Pinus sylvestris). We have optimized the isolation and characterization of PSI and PSII multimeric mega- and super-complexes in a close-to-native condition by Blue-Native gel electrophoresis. Eventually, our protocol will not only help in the characterization of photosynthetic complexes from conifers but also in understanding winter adaptation.

  • 38.
    Bag, Pushan
    et al.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Shutova, Tatiana
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Shevela, Dmitriy
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Kemiska institutionen.
    Lihavainen, Jenna
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Nanda, Sanchali
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Ivanov, Alexander G.
    Department of Biology, University of Western Ontario, ON, London, Canada; Institute of Biophysics and Biomedical Engineering, Bulgarian Academy of Sciences, Sofia, Bulgaria.
    Messinger, Johannes
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Kemiska institutionen. Department of Chemistry, Ångström laboratory, Uppsala University, Uppsala, Sweden.
    Jansson, Stefan
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Flavodiiron-mediated O2 photoreduction at photosystem I acceptor-side provides photoprotection to conifer thylakoids in early spring2023Ingår i: Nature Communications, E-ISSN 2041-1723, Vol. 14, nr 1, artikel-id 3210Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Green organisms evolve oxygen (O2) via photosynthesis and consume it by respiration. Generally, net O2 consumption only becomes dominant when photosynthesis is suppressed at night. Here, we show that green thylakoid membranes of Scots pine (Pinus sylvestris L) and Norway spruce (Picea abies) needles display strong O2 consumption even in the presence of light when extremely low temperatures coincide with high solar irradiation during early spring (ES). By employing different electron transport chain inhibitors, we show that this unusual light-induced O2 consumption occurs around photosystem (PS) I and correlates with higher abundance of flavodiiron (Flv) A protein in ES thylakoids. With P700 absorption changes, we demonstrate that electron scavenging from the acceptor-side of PSI via O2 photoreduction is a major alternative pathway in ES. This photoprotection mechanism in vascular plants indicates that conifers have developed an adaptative evolution trajectory for growing in harsh environments.

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  • 39. Bai, Bing
    et al.
    Novák, Ondrej
    Ljung, Karin
    Hanson, Johannes
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC). Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Molecular Plant Physiology, Institute of Environmental Biology, Utrecht University, 3584 CH Utrecht, the Netherlands.
    Bentsink, Leonie
    Combined transcriptome and translatome analyses reveal a role for tryptophan-dependent auxin biosynthesis in the control of DOG1-dependent seed dormancy2018Ingår i: New Phytologist, ISSN 0028-646X, E-ISSN 1469-8137, Vol. 217, nr 3, s. 1077-1085Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    The importance of translational regulation during Arabidopsis seed germination has been shown previously. Here the role of transcriptional and translational regulation during seed imbibition of the very dormant DELAY OF GERMINATION 1 (DOG1) near-isogenic line was investigated. Polysome profiling was performed on dormant and after-ripened seeds imbibed for 6 and 24 h in water and in the transcription inhibitor cordycepin. Transcriptome and translatome changes were investigated. Ribosomal profiles of after-ripened seeds imbibed in cordycepin mimic those of dormant seeds. The polysome occupancy of mRNA species is not affected by germination inhibition, either as a result of seed dormancy or as a result of cordycepin treatment, indicating the importance of the regulation of transcript abundance. The expression of auxin metabolism genes is discriminative during the imbibition of after-ripened and dormant seeds, which is confirmed by altered concentrations of indole-3-acetic acid conjugates and precursors.

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  • 40.
    Bai, Bing
    et al.
    Department of Molecular Plant Physiology, Utrecht University, 3584 CH Utrecht, the Netherlands; Wageningen Seed Laboratory, Laboratory of Plant Physiology, Wageningen University, 6708 PB Wageningen, the Netherlands.
    Peviani, Alessia
    van der Horst, Sjors
    Gamm, Magdalena
    Snel, Berend
    Bentsink, Leónie
    Hanson, Johannes
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Department of Molecular Plant Physiology, Utrecht University, 3584 CH Utrecht, the Netherlands.
    Extensive translational regulation during seed germination revealed by polysomal profiling2017Ingår i: New Phytologist, ISSN 0028-646X, E-ISSN 1469-8137, Vol. 214, nr 1, s. 233-244Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    This work investigates the extent of translational regulation during seed germination. The polysome occupancy of each gene is determined by genome-wide profiling of total mRNA and polysome-associated mRNA. This reveals extensive translational regulation during Arabidopsis thaliana seed germination. The polysome occupancy of thousands of individual mRNAs changes to a large extent during the germination process. Intriguingly, these changes are restricted to two temporal phases (shifts) during germination, seed hydration and germination. Sequence features, such as upstream open reading frame number, transcript length, mRNA stability, secondary structures, and the presence and location of specific motifs correlated with this translational regulation. These features differed significantly between the two shifts, indicating that independent mechanisms regulate translation during seed germination. This study reveals substantial translational dynamics during seed germination and identifies development-dependent sequence features and cis elements that correlate with the translation control, uncovering a novel and important layer of gene regulation during seed germination.

  • 41.
    Bai, Bing
    et al.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC). Wageningen Seed Science Centre, Laboratory of Plant Physiology, Wageningen University, Wageningen, Netherlands.
    Schiffthaler, Bastian
    Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå, Sweden.
    van der Horst, Sjors
    Department of Molecular Plant Physiology, Utrecht University, Utrecht, Netherlands.
    Willems, Leo
    Wageningen Seed Science Centre, Laboratory of Plant Physiology, Wageningen University, Wageningen, Netherlands.
    Vergara, Alexander
    Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå, Sweden.
    Karlström, Jacob
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Mähler, Niklas
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Delhomme, Nicolas
    Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå, Sweden.
    Bentsink, Leónie
    Wageningen Seed Science Centre, Laboratory of Plant Physiology, Wageningen University, Wageningen, Netherlands.
    Hanson, Johannes
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    SeedTransNet: a directional translational network revealing regulatory patterns during seed maturation and germination2023Ingår i: Journal of Experimental Botany, ISSN 0022-0957, E-ISSN 1460-2431, Vol. 74, nr 7, s. 2416-2432Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Seed maturation is the developmental process that prepares the embryo for the desiccated waiting period before germination. It is associated with a series of physiological changes leading to the establishment of seed dormancy, seed longevity, and desiccation tolerance. We studied translational changes during seed maturation and observed a gradual reduction in global translation during seed maturation. Transcriptome and translatome profiling revealed specific reduction in the translation of thousands of genes. By including previously published data on germination and seedling establishment, a regulatory network based on polysome occupancy data was constructed: SeedTransNet. Network analysis predicted translational regulatory pathways involving hundreds of genes with distinct functions. The network identified specific transcript sequence features suggesting separate translational regulatory circuits. The network revealed several seed maturation-associated genes as central nodes, and this was confirmed by specific seed phenotypes of the respective mutants. One of the regulators identified, an AWPM19 family protein, PM19-Like1 (PM19L1), was shown to regulate seed dormancy and longevity. This putative RNA-binding protein also affects the translational regulation of its target mRNA, as identified by SeedTransNet. Our data show the usefulness of SeedTransNet in identifying regulatory pathways during seed phase transitions.

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  • 42.
    Bai, Bing
    et al.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC). Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik.
    van der Horst, Sjors
    Cordewener, Jan H. G.
    America, Twan A. H. P.
    Hanson, Johannes
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Bentsink, Leonie
    Seed-Stored mRNAs that Are Specifically Associated to Monosomes Are Translationally Regulated during Germination2020Ingår i: Plant Physiology, ISSN 0032-0889, E-ISSN 1532-2548, Vol. 182, nr 1, s. 378-392Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    The life cycle of many organisms includes a quiescent stage, such as bacterial or fungal spores, insect larvae, or plant seeds. Common to these stages is their low water content and high survivability during harsh conditions. Upon rehydration, organisms need to reactivate metabolism and protein synthesis. Plant seeds contain many mRNAs that are transcribed during seed development. Translation of these mRNAs occurs during early seed germination, even before the requirement of transcription. Therefore, stored mRNAs are postulated to be important for germination. How these mRNAs are stored and protected during long-term storage is unknown. The aim of this study was to investigate how mRNAs are stored in dry seeds and whether they are indeed translated during seed germination. We investigated seed polysome profiles and the mRNAs and protein complexes that are associated with these ribosomes in seeds of the model organism Arabidopsis (Arabidopsis thaliana). We showed that most stored mRNAs are associated with monosomes in dry seeds; therefore, we focus on monosomes in this study. Seed ribosome complexes are associated with mRNA-binding proteins, stress granule, and P-body proteins, which suggests regulated packing of seed mRNAs. Interestingly, similar to 17% of the mRNAs that are specifically associated with monosomes are translationally up-regulated during seed germination. These mRNAs are transcribed during seed maturation, suggesting a role for this developmental stage in determining the translational fate of mRNAs during early germination.

  • 43.
    Bajhaiya, Amit K.
    et al.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Mandotra, S.K.
    Algology Laboratory, CSIR-National Botanical Research Institute, Rana Pratap Marg, Lucknow, Uttar Pradesh, India.
    Ansolia, Archana
    Department of Mechanical Engineering, Maulana Azad National Institute of Technology, Bhopal, India.
    Barsana, Amit
    Algology Laboratory, CSIR-National Botanical Research Institute, Rana Pratap Marg, Lucknow, Uttar Pradesh, India.
    Recent advances in improving ecophysiology of microalgae for biofuels2017Ingår i: Algal biofuels: recent advances and future prospects / [ed] Sanjay Kumar Gupta; Anushree Malik; Faizal Bux, Springer, 2017, s. 141-162Kapitel i bok, del av antologi (Refereegranskat)
    Abstract [en]

    Ability of microalgae for biofuel production has been intensively investigated. Microalgae are capable of acting as sunlight driven fuel factories, which can help to convert excess carbon dioxide (CO2) into lipid and starch-based biofuels. The merits of using algae as biofuel feedstock are that multiple biofuels can be produced from single biomass source. Studies have suggested that algae alone can produce more than 50,000 kg/acre/year of biomass, which could be utilized for biofuel production (Gimpel et al. 2013). In spite of many published reports on competitive strains and algal culture conditions, a wide scope still remains for understanding algal biodiversity and ecophysiological properties. Earlier studies have suggested that accumulation of energy reserves, their localization, and regulation inside the microalgal cell is governed by various external abiotic factors such as light intensity, temperature, pH, and supply of nitrogen and phosphorus. This chapter is aimed to give overall view of major environment stresses and approaches used to engineer microalgae for biofuel production. In depth engineering strategies and effect of abiotic factors on production of high energy yielding compounds (lipid and starch) have been discussed.

  • 44.
    Baladrón, Alejandro
    et al.
    CERIS, Civil Engineering Research and Innovation for Sustainability, Instituto Superior Técnico, University of Lisbon, Av. Rovisco Pais, Lisboa, Portugal.
    Bejarano, María Dolores
    Natural Resources Department, Universidad Politécnica de Madrid (UPM), Calle José Antonio Novais, 10, Madrid, Spain.
    Sarneel, Judith M.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för ekologi, miljö och geovetenskap.
    Boavida, Isabel
    CERIS, Civil Engineering Research and Innovation for Sustainability, Instituto Superior Técnico, University of Lisbon, Av. Rovisco Pais, Lisboa, Portugal.
    Trapped between drowning and desiccation: riverine plants under hydropeaking2022Ingår i: Science of the Total Environment, ISSN 0048-9697, E-ISSN 1879-1026, Vol. 829, artikel-id 154451Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Hydropeaking is part of hydropower production. The discontinuous release of turbined water during hydropeaking generates sudden rise and falls of the water levels, as well as extended droughts. These artificial flow fluctuations impose challenging growing conditions for riverine vegetation. In order to identify vulnerable/resistant plant species to hydropeaking and to evaluate the impact of contrasting hydropeaking scenarios (simplified (i.e., sudden deep floods, frequent soil saturation and drought) and real-life, power plant-induced scenarios), we measured germination, survival, and morphological and physiological attributes of a selection of 14 plant species commonly found along riparian areas. Species were subject to different hydropeaking scenarios during three months (vegetative period) in the field and in a greenhouse. Half of the species performed worse under hydropeaking in comparison to the control (e.g., less germination and biomass, lower growth rates, reduced stem and root length, physiological stress) but none of the tested hydropeaking scenarios was clearly more disruptive than others. Betula pubescens, Alnus incana and Filipendula ulmifolia showed the largest vulnerability to hydropeaking, while other species (e.g., Carex acuta) were resistant to it. Both in the field and in the greenhouse, plants in perturbed scenarios accumulated more 13C than in the control scenario indicating limited capacity to perform 13C isotope discrimination and evidencing plant physiological stress. The highest 13C abundances were found under drought or flooding conditions in the greenhouse, and under the highest hydropeaking intensities in the field (e.g., Betula pubescens). Our results suggest that any hydropeaking scheme can be equally detrimental in terms of plant performance. Hydropeaking schemes that combine periods of severe drought with long and frequent flooding episodes may create a hostile environment for riverine species. Further research on "hydropeaking-tolerant" plant traits is key to draw the boundaries beyond which riverine species can germinate, grow and complete their life cycle under hydropeaking.

  • 45.
    Bandau, Franziska
    et al.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Albrectsen, Benedicte Riber
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Robinson, Kathryn M.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Gundale, Michael J.
    Department of Forest Ecology and Management, Swedish University of Agricultural Sciences, Umeå, Sweden.
    European aspen with high compared to low constitutive tannin defenses grow taller in response to anthropogenic nitrogen enrichment2021Ingår i: Forest Ecology and Management, ISSN 0378-1127, E-ISSN 1872-7042, Vol. 487, artikel-id 118985Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Boreal forests receive nitrogen-(N)-enrichment via atmospheric deposition and industrial fertilization. While it is known that N-enrichment can intensify interactions with natural antagonists, it remains poorly understood how genetic variability in plant defense chemistry can affect biotic interactions and height growth in N-enriched environments. We grew replicates of five low- and high-tannin Populus tremula genotypes, respectively, under three N-treatments (ambient, 15, and 150 kg N ha−1 yr−1). We assessed shoot blight occurrence (i.e. symptoms caused by Venturia fungi) during four growing seasons, and tree height growth during the same period. Damage by Venturia spp. increased with N-addition during all years, likely due to enhanced foliar quality. Low–tannin plants showed higher incidences of Venturia infection than high-tannin plants, regardless of the N-input-level. Height responded to an N-by-tannin-group interaction, which occurred because high-tannin plants grew taller than low-tannin plants at the high N-treatment, but not under the other N-levels. This pattern indicates that innate resource investment into tannin production yields a positive effect on growth under N-enriched conditions. Given that N-deposition is increasing globally, our research suggests that further studies are needed to investigate how N-enrichment interacts with plant defense traits globally. Moreover, our research suggests that N-deposition may provide an advantage for well-defended, high-tannin plants; and further, that genetic diversity in plant defense may be a key mechanism by which plant populations respond to this change.

  • 46.
    Bandau, Franziska
    et al.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC). Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik.
    Decker, Vicki Huizu Guo
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC). Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik.
    Gundale, Michael J.
    Department of Forest Ecology and Management, Swedish University of Agricultural Sciences, SE 90183 Umeå, Sweden.
    Albrectsen, Benedicte Riber
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC). Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Department of Plant and Environmental Sciences, University of Copenhagen, Thorvaldsensvej 40, DK 1871 Frederiksberg C, Denmark.
    Genotypic tannin levels in Populus tremula impact the way nitrogen enrichment affects growth and allocation responses for some traits and not for others2015Ingår i: PLOS ONE, E-ISSN 1932-6203, Vol. 10, nr 10, artikel-id e0140971Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Plant intraspecific variability has been proposed as a key mechanism by which plants adapt to environmental change. In boreal forests where nitrogen availability is strongly limited, nitrogen addition happens indirectly through atmospheric N deposition and directly through industrial forest fertilization. These anthropogenic inputs of N have numerous environmental consequences, including shifts in plant species composition and reductions in plant species diversity. However, we know less about how genetic differences within plant populations determine how species respond to eutrophication in boreal forests. According to plant defense theories, nitrogen addition will cause plants to shift carbon allocation more towards growth and less to chemical defense, potentially enhancing vulnerability to antagonists. Aspens are keystone species in boreal forests that produce condensed tannins to serve as chemical defense. We conducted an experiment using ten Populus tremula genotypes from the Swedish Aspen Collection that express extreme levels of baseline investment into foliar condensed tannins. We investigated whether investment into growth and phenolic defense compounds in young plants varied in response to two nitrogen addition levels, corresponding to atmospheric N deposition and industrial forest fertilization. Nitrogen addition generally caused growth to increase, and tannin levels to decrease; however, individualistic responses among genotypes were found for height growth, biomass of specific tissues, root: shoot ratios, and tissue lignin and N concentrations. A genotype's baseline ability to produce and store condensed tannins also influenced plant responses to N, although this effect was relatively minor. High-tannin genotypes tended to grow less biomass under low nitrogen levels and more at the highest fertilization level. Thus, the ability in aspen to produce foliar tannins is likely associated with a steeper reaction norm of growth responses, which suggests a higher plasticity to nitrogen addition, and potentially an advantage when adapting to higher concentrations of soil nitrogen.

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  • 47.
    Bannoud, Florencia
    et al.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Bellini, Catherine
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC). Institut Jean-Pierre Bourgin, INRAE, AgroParisTech, Université Paris-Saclay, Versailles, France.
    Adventitious Rooting in Populus Species: Update and Perspectives2021Ingår i: Frontiers in Plant Science, E-ISSN 1664-462X, Vol. 12, artikel-id 668837Artikel, forskningsöversikt (Refereegranskat)
    Abstract [en]

    Populus spp. are among the most economically important species worldwide. These trees are used not only for wood and fiber production, but also in the rehabilitation of degraded lands. Since they are clonally propagated, the ability of stem cuttings to form adventitious roots is a critical point for plant establishment and survival in the field, and consequently for the forest industry. Adventitious rooting in different Populus clones has been an agronomic trait targeted in breeding programs for many years, and many factors have been identified that affect this quantitative trait. A huge variation in the rooting capacity has been observed among the species in the Populus genus, and the responses to some of the factors affecting this trait have been shown to be genotype-dependent. This review analyses similarities and differences between results obtained from studies examining the role of internal and external factors affecting rooting of Populus species cuttings. Since rooting is the most important requirement for stand establishment in clonally propagated species, understanding the physiological and genetic mechanisms that promote this trait is essential for successful commercial deployment.

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  • 48.
    Barros, Jaime
    et al.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Serk, Henrik
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Granlund, Irene
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    Pesquet, Edouard
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).
    The cell biology of lignification in higher plants2015Ingår i: Annals of Botany, ISSN 0305-7364, E-ISSN 1095-8290, Vol. 115, nr 7, s. 1053-1074Artikel, forskningsöversikt (Refereegranskat)
    Abstract [en]

    Background Lignin is a polyphenolic polymer that strengthens and waterproofs the cell wall of specialized plant cell types. Lignification is part of the normal differentiation programme and functioning of specific cell types, but can also be triggered as a response to various biotic and abiotic stresses in cells that would not otherwise be lignifying.

    Scope Cell wall lignification exhibits specific characteristics depending on the cell type being considered. These characteristics include the timing of lignification during cell differentiation, the palette of associated enzymes and substrates, the sub-cellular deposition sites, the monomeric composition and the cellular autonomy for lignin monomer production. This review provides an overview of the current understanding of lignin biosynthesis and polymerization at the cell biology level.

    Conclusions The lignification process ranges from full autonomy to complete co-operation depending on the cell type. The different roles of lignin for the function of each specific plant cell type are clearly illustrated by the multiple phenotypic defects exhibited by knock-out mutants in lignin synthesis, which may explain why no general mechanism for lignification has yet been defined. The range of phenotypic effects observed include altered xylem sap transport, loss of mechanical support, reduced seed protection and dispersion, and/or increased pest and disease susceptibility.

  • 49.
    Barthelemy, Hélène
    et al.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för ekologi, miljö och geovetenskap.
    Stark, Sari
    Michelsen, Anders
    Olofsson, Johan
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för ekologi, miljö och geovetenskap.
    Urine is an important nitrogen source for plants irrespective of vegetation composition in an Arctic tundra: Insights from a N-15-enriched urea tracer experiment2018Ingår i: Journal of Ecology, ISSN 0022-0477, E-ISSN 1365-2745, Vol. 106, nr 1, s. 367-378Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    1. Mammalian herbivores can strongly influence nitrogen (N) cycling and herbivore urine could be a central component of the N cycle in grazed ecosystems. Despite its potential role for ecosystem productivity and functioning, the fate of N derived from urine has rarely been investigated in grazed ecosystems. 2. This study explored the fate of N-15-enriched urea in tundra sites that have been either lightly or intensively grazed by reindeer for more than 50years. We followed the fate of the N-15 applied to the plant canopy, at 2weeks and 1year after tracer addition, in the different ecosystem N pools. 3. N-15-urea was rapidly incorporated in cryptogams and in above-ground parts of vascular plants, while the soil microbial pool and plant roots sequestered only a marginal proportion. Furthermore, the litter layer constituted a large sink for the N-15-urea, at least in the short term, indicating a high biological activity in the litter layer and high immobilization in the first phases of organic matter decomposition. 4. Mosses and lichens still constituted the largest sink for the N-15-urea 1year after tracer addition at both levels of grazing intensity demonstrating their large ability to capture and retain N from urine. Despite large fundamental differences in their traits, deciduous and evergreen shrubs were just as efficient as graminoids in taking up the N-15-urea. The total recovery of N-15-urea was lower in the intensively grazed sites, suggesting that reindeer reduce ecosystem N retention. 5. Synthesis. The rapid incorporation of the applied N-15-urea indicates that arctic plants can take advantage of a pulse of incoming N from urine. In addition, N-15 values of all taxa in the heavily grazed sites converged towards the N-15 values for urine, bringing further evidence that urine is an important N source for plants in grazed tundra ecosystems.

  • 50.
    Bartholomew, David
    et al.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för ekologi, miljö och geovetenskap. College of Life and Environmental Sciences, University of Exeter, Exeter, United Kingdom.
    Banin, Lindsay F.
    UK Centre for Ecology & Hydrology, Midlothian, United Kingdom.
    Bittencourt, Paulo R. L.
    College of Life and Environmental Sciences, University of Exeter, Exeter, United Kingdom.
    Suis, Mohd Aminur Faiz
    Forest Research Centre, Sabah Forestry Department, Sabah, Malaysia.
    Mercado, Lina M.
    College of Life and Environmental Sciences, University of Exeter, Exeter, United Kingdom; UK Centre for Ecology & Hydrology, Wallingford, United Kingdom.
    Nilus, Reuben
    Forest Research Centre, Sabah Forestry Department, Sabah, Malaysia.
    Burslem, David F. R. P.
    School of Biological Sciences, University of Aberdeen, Aberdeen, United Kingdom.
    Rowland, Lucy
    College of Life and Environmental Sciences, University of Exeter, Exeter, United Kingdom.
    Differential nutrient limitation and tree height control leaf physiology, supporting niche partitioning in tropical dipterocarp forests2022Ingår i: Functional Ecology, ISSN 0269-8463, E-ISSN 1365-2435, Vol. 36, nr 8, s. 2084-2103Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    1. Revealing the mechanisms of environmental niche partitioning within lowland tropical forests is important for understanding the drivers of current species distributions and potential vulnerability to environmental change. Tropical forest structure and species composition change across edaphic gradients in Borneo over short distances. However, our understanding of how edaphic conditions affect tree physiology and whether these relationships drive niche partitioning within Bornean forests remains incomplete.

    2. This study evaluated how leaf physiological function changes with nutrient availability across a fine-scale edaphic gradient and whether these relationships vary according to tree height. Furthermore, we tested whether intraspecific leaf trait variation allows generalist species to populate a wider range of environments.

    3. We measured leaf traits of 218 trees ranging in height from 4 to 66 m from 13 dipterocarp species within four tropical forest types (alluvial, mudstone, sandstone and kerangas) occurring along an <5 km edaphic gradient in North Borneo. The traits measured included saturating photosynthesis (Asat), maximum photosynthetic capacity (Vcmax), leaf dark respiration (Rleaf), leaf mass per area (LMA), leaf thickness, minimum stomatal conductance (gdark) and leaf nutrient concentrations (N, P, Ca, K and Mg).

    4. Across all species, leaf traits varied consistently in response to soil nutrient availability across forest types except Rleaf_mass, [Mg]leaf and [Ca]leaf. Changes in photosynthesis and respiration rates were related to different leaf nutrients across forest types, with greater nutrient-use efficiency in more nutrient-poor environments. Generalist species partially or fully compensated reductions in mass-based photosynthesis through increasing LMA in more nutrient-poor environments.

    5. Leaf traits also varied with tree height, except Vcmax_mass, but only in response to height-related modifications of leaf morphology (LMA and leaf thickness). These height–trait relationships did not vary across the edaphic gradient, except for Asat, [N]leaf, [P]leaf and [K]leaf.

    6. Our results highlight that modification of leaf physiological function and morphology act as important adaptations for Bornean dipterocarps in response to edaphic and vertical environmental gradients. Meanwhile, multiple nutrients appear to contribute to niche partitioning and could drive species distributions and high biodiversity within Bornean forest landscapes. Read the free Plain Language Summary for this article on the Journal blog.

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