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Mishra, Yogesh
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Publications (8 of 8) Show all publications
Mishra, Y., Hall, M., Locmelis, R., Nam, K., Söderberg, C. A. G., Storm, P., . . . Sauer, U. H. (2017). Active-site plasticity revealed in the asymmetric dimer of AnPrx6 the 1-Cys peroxiredoxin and molecular chaperone from Anabaena sp. PCC 7120. Scientific Reports, 7, Article ID 17151.
Open this publication in new window or tab >>Active-site plasticity revealed in the asymmetric dimer of AnPrx6 the 1-Cys peroxiredoxin and molecular chaperone from Anabaena sp. PCC 7120
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2017 (English)In: Scientific Reports, ISSN 2045-2322, E-ISSN 2045-2322, Vol. 7, article id 17151Article in journal (Refereed) Published
Abstract [en]

Peroxiredoxins (Prxs) are vital regulators of intracellular reactive oxygen species levels in all living organisms. Their activity depends on one or two catalytically active cysteine residues, the peroxidatic Cys (C-P) and, if present, the resolving Cys (C-R). A detailed catalytic cycle has been derived for typical 2-Cys Prxs, however, little is known about the catalytic cycle of 1-Cys Prxs. We have characterized Prx6 from the cyanobacterium Anabaena sp. strain PCC7120 (AnPrx6) and found that in addition to the expected peroxidase activity, AnPrx6 can act as a molecular chaperone in its dimeric state, contrary to other Prxs. The AnPrx6 crystal structure at 2.3 angstrom resolution reveals different active site conformations in each monomer of the asymmetric obligate homo-dimer. Molecular dynamic simulations support the observed structural plasticity. A FSH motif, conserved in 1-Cys Prxs, precedes the active site PxxxTxxCp signature and might contribute to the 1-Cys Prx reaction cycle.

Place, publisher, year, edition, pages
Nature Publishing Group, 2017
National Category
Structural Biology
Identifiers
urn:nbn:se:umu:diva-143523 (URN)10.1038/s41598-017-17044-3 (DOI)000417354200004 ()29215017 (PubMedID)2-s2.0-85038074530 (Scopus ID)
Note

The original version of this Article contained an error in the title of the paper, where “Anabaena sp. PCC 7120” was incorrectly given as “Anabaena sp. PCC 7210”. This has now been corrected in the PDF and HTML versions of the Article, and in the accompanying Supplementary Information file.

Errata: Author Correction: Active-site plasticity revealed in the asymmetric dimer of AnPrx6 the 1-Cys peroxiredoxin and molecular chaperone from Anabaena sp. PCC 7120. Scientifc reports. 2018;8:8658. DOI: 10.1038/s41598-018-26715-8

Available from: 2018-01-04 Created: 2018-01-04 Last updated: 2018-06-15Bibliographically approved
Angelcheva, L., Mishra, Y., Antti, H., Kjellsen, T. D., Funk, C., Strimbeck, R. G. & Schröder, W. P. (2014). Metabolomic analysis of extreme freezing tolerance in Siberian spruce (Picea obovata). New Phytologist, 204(3), 545-555
Open this publication in new window or tab >>Metabolomic analysis of extreme freezing tolerance in Siberian spruce (Picea obovata)
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2014 (English)In: New Phytologist, ISSN 0028-646X, E-ISSN 1469-8137, Vol. 204, no 3, p. 545-555Article in journal (Refereed) Published
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.

Keywords
acclimation, cold, conifer, frost, GC-MS, metabolites, needles, Siberian spruce (Picea obovata)
National Category
Botany
Identifiers
urn:nbn:se:umu:diva-96810 (URN)10.1111/nph.12950 (DOI)000343869000014 ()
Note

Originally included in thesis in manuscript form.

Available from: 2014-12-10 Created: 2014-12-03 Last updated: 2018-06-07Bibliographically approved
Johansson Jänkänpää, H., Frenkel, M., Zulfugarov, I., Reichelt, M., Krieger-Liszkay, A., Mishra, Y., . . . Jansson, S. (2013). Non-photochemical quenching capacity in arabidopsis thaliana affects herbivore behaviour. PLoS ONE, 8(1), e53232
Open this publication in new window or tab >>Non-photochemical quenching capacity in arabidopsis thaliana affects herbivore behaviour
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2013 (English)In: PLoS ONE, ISSN 1932-6203, E-ISSN 1932-6203, Vol. 8, no 1, p. e53232-Article in journal (Refereed) Published
Abstract [en]

Under natural conditions, plants have to cope with numerous stresses, including light-stress and herbivory. This raises intriguing questions regarding possible trade-offs between stress defences and growth. As part of a program designed to address these questions we have compared herbivory defences and damage in wild type Arabidopsis thaliana and two "photoprotection genotypes", npq4 and oePsbS, which respectively lack and overexpress PsbS (a protein that plays a key role in qE-type non-photochemical quenching). In dual-choice feeding experiments both a specialist (Plutella xylostella) and a generalist (Spodoptera littoralis) insect herbivore preferred plants that expressed PsbS most strongly. In contrast, although both herbivores survived equally well on each of the genotypes, for oviposition female P. xylostella adults preferred plants that expressed PsbS least strongly. However, there were no significant differences between the genotypes in levels of the 10 most prominent glucosinolates; key substances in the Arabidopsis anti-herbivore chemical defence arsenal. After transfer from a growth chamber to the field we detected significant differences in the genotypes' metabolomic profiles at all tested time points, using GC-MS, but no consistent "metabolic signature'' for the lack of PsbS. These findings suggest that the observed differences in herbivore preferences were due to differences in the primary metabolism of the plants rather than their contents of typical "defence compounds". A potentially significant factor is that superoxide accumulated most rapidly and to the highest levels under high light conditions in npq4 mutants. This could trigger changes in planta that are sensed by herbivores either directly or indirectly, following its dismutation to H2O2.

National Category
Ecology
Identifiers
urn:nbn:se:umu:diva-66410 (URN)10.1371/journal.pone.0053232 (DOI)000313320900069 ()
Available from: 2013-02-21 Created: 2013-02-19 Last updated: 2018-06-08Bibliographically approved
Mishra, Y., Johansson Jankanpää, H., Kiss, A. Z., Funk, C., Schröder, W. P. & Jansson, S. (2012). Arabidopsis plants grown in the field and climate chambers significantly differ in leaf morphology and photosystem components. BMC Plant Biology, 12, 6
Open this publication in new window or tab >>Arabidopsis plants grown in the field and climate chambers significantly differ in leaf morphology and photosystem components
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2012 (English)In: BMC Plant Biology, ISSN 1471-2229, E-ISSN 1471-2229, Vol. 12, p. 6-Article in journal (Refereed) Published
Abstract [en]

Background:Plants exhibit phenotypic plasticity and respond to differences in environmental conditions by acclimation. We have systematically compared leaves of Arabidopsis thaliana plants grown in the field and under controlled low, normal and high light conditions in the laboratory to determine their most prominent phenotypic differences.

Results: Compared to plants grown under field conditions, the "indoor plants" had larger leaves, modified leaf shapes and longer petioles. Their pigment composition also significantly differed; indoor plants had reduced levels of xanthophyll pigments. In addition, Lhcb1 and Lhcb2 levels were up to three times higher in the indoor plants, but differences in the PSI antenna were much smaller, with only the low-abundance Lhca5 protein showing altered levels. Both isoforms of early-light-induced protein (ELIP) were absent in the indoor plants, and they had less non-photochemical quenching (NPQ). The field-grown plants had a high capacity to perform state transitions. Plants lacking ELIPs did not have reduced growth or seed set rates, but their mortality rates were sometimes higher. NPQ levels between natural accessions grown under different conditions were not correlated.

Conclusion: Our results indicate that comparative analysis of field-grown plants with those grown under artificial conditions is important for a full understanding of plant plasticity and adaptation.

Place, publisher, year, edition, pages
BioMed Central, 2012
Keywords
Arabidopsis thaliana, Carotenoids, Chlorophyll fluorescence, Early light inducible proteins (ELIPs), Field Plants, Indoor Plants, Light harvesting proteins (LHCs)
National Category
Biological Sciences
Identifiers
urn:nbn:se:umu:diva-51175 (URN)10.1186/1471-2229-12-6 (DOI)
Note
Published: 11 January 2012Available from: 2012-01-12 Created: 2012-01-12 Last updated: 2018-06-08Bibliographically approved
Johansson Jänkänpää, H., Mishra, Y., Schröder, W. P. & Jansson, S. (2012). Metabolic profiling reveals metabolic shifts in Arabidopsis plants grown under different light conditions. Plant, Cell and Environment, 35(10), 1824-1836
Open this publication in new window or tab >>Metabolic profiling reveals metabolic shifts in Arabidopsis plants grown under different light conditions
2012 (English)In: Plant, Cell and Environment, ISSN 0140-7791, E-ISSN 1365-3040, Vol. 35, no 10, p. 1824-1836Article in journal (Refereed) Published
Abstract [en]

Plants have tremendous capacity to adjust their morphology, physiology and metabolism in response to changes in growing conditions. Thus, analysis solely of plants grown under constant conditions may give partial or misleading indications of their responses to the fluctuating natural conditions in which they evolved. To obtain data on growth-condition dependent differences in metabolite levels we compared leaf metabolite profiles of Arabidopsis thaliana growing under three constant laboratory light conditions: 30 (LL), 300 (NL) and 600 (HL) µmol photons m(-2) s(-1) . We also shifted plants to the field and followed their metabolite composition for three days. Numerous compounds showed light-intensity dependent accumulation, including: many sugars and sugar derivatives (fructose, sucrose, glucose, galactose and raffinose); tricarboxylic acid (TCA) cycle intermediates and amino acids (ca. 30% of which were more abundant under HL and 60% under LL). However, the patterns differed after shifting NL plants to field conditions. Levels of most identified metabolites (mainly amino acids, sugars and TCA cycle intermediates) rose after 2 h and peaked after 73 h, indicative of a "biphasic response" and "circadian" effects. The results provide new insight into metabolomic level mechanisms of plant acclimation, and highlight the role of known protectants under natural conditions.

Place, publisher, year, edition, pages
John Wiley & Sons, 2012
Keywords
GC-MS, laboratory and field-grown plants, metabolome analysis, metabolomics
National Category
Environmental Sciences Cell and Molecular Biology
Identifiers
urn:nbn:se:umu:diva-55086 (URN)10.1111/j.1365-3040.2012.02519.x (DOI)22497620 (PubMedID)
Available from: 2012-05-08 Created: 2012-05-08 Last updated: 2018-06-08Bibliographically approved
Mishra, Y., Hall, M., Chaurasia, N., Rai, L. C., Jansson, S., Schröder, W. P. & Sauer, U. H. (2011). Expression, purification, crystallization and preliminary X-ray crystallographic studies of alkyl hydroperoxide reductase (AhpC) from the cyanobacterium Anabaena sp. PCC 7120. Acta Crystallographica. Section F: Structural Biology and Crystallization Communications, 67(10), 1203-1206
Open this publication in new window or tab >>Expression, purification, crystallization and preliminary X-ray crystallographic studies of alkyl hydroperoxide reductase (AhpC) from the cyanobacterium Anabaena sp. PCC 7120
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2011 (English)In: Acta Crystallographica. Section F: Structural Biology and Crystallization Communications, ISSN 1744-3091, E-ISSN 1744-3091, Vol. 67, no 10, p. 1203-1206Article in journal (Refereed) Published
Abstract [en]

Alkyl hydroperoxide reductase (AhpC) is a key component of a large family of thiol-specific antioxidant (TSA) proteins distributed among prokaryotes and eukaryotes. AhpC is involved in the detoxification of reactive oxygen species (ROS) and reactive sulfur species (RSS). Sequence analysis of AhpC from the cyanobacterium Anabaena sp. PCC 7120 shows that this protein belongs to the 1-Cys class of peroxiredoxins (Prxs). It has recently been reported that enhanced expression of this protein in Escherichia coli offers tolerance to multiple stresses such as heat, salt, copper, cadmium, pesticides and UV-B. However, the structural features and the mechanism behind this process remain unclear. To provide insights into its biochemical function, AhpC was expressed, purified and crystallized by the hanging-drop vapour-diffusion method. Diffraction data were collected to a maximum d-spacing of 2.5 Å using synchrotron radiation. The crystal belonged to space group P212121, with unit-cell parameters a = 80, b = 102, c = 109.6 Å. The structure of AhpC from Anabaena sp. PCC 7120 was determined by molecular-replacement methods using the human Prx enzyme hORF6 (PDB entry1prx) as the template.

 

Place, publisher, year, edition, pages
International Union of Crystallography, 2011
Keywords
alkyl hydroperoxide reductase, AhpC, Anabaena sp. PCC 7120
National Category
Chemical Sciences
Identifiers
urn:nbn:se:umu:diva-47794 (URN)10.1107/S1744309111025747 (DOI)
Available from: 2011-09-29 Created: 2011-09-29 Last updated: 2018-06-08Bibliographically approved
Hall, M., Mishra, Y. & Schröder, W. P. (2011). Preparation of stroma, thylakoid membrane, and lumen fractions from arabidopsis thaliana chloroplasts for proteomic analysis. In: Paul Jarvis (Ed.), In Chloroplast Research in Arabidopsis: Methods and Protocols, Volume II. R. (pp. 207-222). Springer Science + Business Media, LLC 2011, 775(3)
Open this publication in new window or tab >>Preparation of stroma, thylakoid membrane, and lumen fractions from arabidopsis thaliana chloroplasts for proteomic analysis
2011 (English)In: In Chloroplast Research in Arabidopsis: Methods and Protocols, Volume II. R. / [ed] Paul Jarvis, Springer Science + Business Media, LLC 2011 , 2011, Vol. 775, no 3, p. 207-222Chapter in book (Refereed)
Abstract [en]

For many studies regarding important chloroplast processes such as oxygenic photosynthesis, fractionation of the total chloroplast proteome is a necessary first step. Here, we describe a method for isolating the stromal, the thylakoid membrane, and the thylakoid lumen subchloroplast fractions from Arabidopsis thaliana leaf material. All three fractions can be isolated sequentially from the same plant material in a single day preparation. The isolated fractions are suitable for various proteomic analyses such as simple mapping studies or for more complex experiments such as differential expression analysis using two-dimensional difference gel electrophoresis (2D-DIGE) or mass spectrometry (MS)-based techniques. Besides this, the obtained fractions can also be used for many other purposes such as immunological assays, enzymatic activity assays, and studies of protein complexes by native-polyacrylamide gel electrophoresis (native-PAGE).

Place, publisher, year, edition, pages
Springer Science + Business Media, LLC 2011, 2011
Series
Methods in molecular biology, ISSN 1064-3745 ; 775
Keywords
Arabidopsis thaliana, Lumen isolation, Thylakoid isolation, Stroma isolation, Yeda press
National Category
Chemical Sciences
Identifiers
urn:nbn:se:umu:diva-47798 (URN)10.1007/978-1-61779-237-3_11 (DOI)21863445 (PubMedID)9781617792366 (ISBN)
Available from: 2011-09-29 Created: 2011-09-29 Last updated: 2018-06-08Bibliographically approved
Misra, Y., Johansson Jänkänpää, H., Kiss, A. Z., Funk, C., Schröder, W. P. & Jansson, S.Arabidopsis Plants Grown in the Field and Climate Chambers Significantly Differ in Leaf Morphology and Photosystem Components.
Open this publication in new window or tab >>Arabidopsis Plants Grown in the Field and Climate Chambers Significantly Differ in Leaf Morphology and Photosystem Components
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(English)Manuscript (preprint) (Other academic)
Abstract [en]

Background:

Plants exhibit phenotypic plasticity and respond to differences in environmental conditions by acclimation. We have systematically compared leaves of Arabidopsis thaliana plants grown in the field and under controlled low, normal and high light conditions in the laboratory to determine their most prominent phenotypic differences.

Results:

Compared to plants grown under field conditions, the ―indoor plants‖ had larger leaves, modified leaf shapes and longer petioles. Their pigment composition also significantly differed; indoor plants had reduced levels of xanthophyll pigments. In addition, Lhcb1 and Lhcb2 levels were up to three times higher in the indoor plants, but differences in the PSI antenna were much smaller, with only the low-abundance Lhca5 protein showing altered levels. Both isoforms of early-light-induced protein (ELIP) were absent in the indoor plants, and they had less non-photochemical quenching (NPQ). The field-grown plants had a high capacity to perform state transitions. Plants lacking ELIPs did not have reduced growth or seed set rates, but their mortality rates were sometimes higher. NPQ levels between natural ecotypes grown under different conditions were not correlated.

Conclusion:

Our results indicate that comparative analysis of field-grown plants with those grown under artificial conditions is important for a full understanding of plant plasticity and adaptation.

Keywords
Arabidopsis thaliana, Carotenoids, Chlorophyll fluorescence, Early light inducible proteins (ELIPs), Field Plants, Indoor Plants, Light harvesting proteins (LHCs)
National Category
Biological Sciences
Research subject
Physiological Botany
Identifiers
urn:nbn:se:umu:diva-48561 (URN)
Funder
Swedish Research Council
Available from: 2011-10-24 Created: 2011-10-24 Last updated: 2018-06-08
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