Umeå University's logo

umu.sePublications
Change search
Link to record
Permanent link

Direct link
Publications (9 of 9) Show all publications
Curci, P. L., Zhang, J., Mähler, N., Seyfferth, C., Mannapperuma, C., Diels, T., . . . Vandepoele, K. (2022). Identification of growth regulators using cross-species network analysis in plants. Plant Physiology, 190(4), 2350-2365
Open this publication in new window or tab >>Identification of growth regulators using cross-species network analysis in plants
Show others...
2022 (English)In: Plant Physiology, ISSN 0032-0889, E-ISSN 1532-2548, Vol. 190, no 4, p. 2350-2365Article in journal (Refereed) Published
Abstract [en]

With the need to increase plant productivity, one of the challenges plant scientists are facing is to identify genes that play a role in beneficial plant traits. Moreover, even when such genes are found, it is generally not trivial to transfer this knowledge about gene function across species to identify functional orthologs. Here, we focused on the leaf to study plant growth. First, we built leaf growth transcriptional networks in Arabidopsis (Arabidopsis thaliana), maize (Zea mays), and aspen (Populus tremula). Next, known growth regulators, here defined as genes that when mutated or ectopically expressed alter plant growth, together with cross-species conserved networks, were used as guides to predict novel Arabidopsis growth regulators. Using an in-depth literature screening, 34 out of 100 top predicted growth regulators were confirmed to affect leaf phenotype when mutated or overexpressed and thus represent novel potential growth regulators. Globally, these growth regulators were involved in cell cycle, plant defense responses, gibberellin, auxin, and brassinosteroid signaling. Phenotypic characterization of loss-of-function lines confirmed two predicted growth regulators to be involved in leaf growth (NPF6.4 and LATE MERISTEM IDENTITY2). In conclusion, the presented network approach offers an integrative cross-species strategy to identify genes involved in plant growth and development.

Place, publisher, year, edition, pages
Oxford University Press, 2022
National Category
Botany Plant Biotechnology
Identifiers
urn:nbn:se:umu:diva-201619 (URN)10.1093/plphys/kiac374 (DOI)000844537500001 ()35984294 (PubMedID)2-s2.0-85143141934 (Scopus ID)
Funder
The Research Council of Norway, 287465
Available from: 2022-12-14 Created: 2022-12-14 Last updated: 2022-12-14Bibliographically approved
Seyfferth, C., Wessels, B., Vahala, J., Kangasjärvi, J., Delhomme, N., Hvidsten, T. R., . . . Lundberg-Felten, J. (2021). PopulusPtERF85 Balances Xylem Cell Expansion and Secondary Cell Wall Formation in Hybrid Aspen. Cells, 10(8), Article ID 1971.
Open this publication in new window or tab >>PopulusPtERF85 Balances Xylem Cell Expansion and Secondary Cell Wall Formation in Hybrid Aspen
Show others...
2021 (English)In: Cells, E-ISSN 2073-4409, Vol. 10, no 8, article id 1971Article in journal (Refereed) Published
Abstract [en]

Secondary growth relies on precise and specialized transcriptional networks that determine cell division, differentiation, and maturation of xylem cells. We identified a novel role for the ethylene-induced Populus Ethylene Response Factor PtERF85 (Potri.015G023200) in balancing xylem cell expansion and secondary cell wall (SCW) formation in hybrid aspen (Populus tremula x tremuloides). Expression of PtERF85 is high in phloem and cambium cells and during the expansion of xylem cells, while it is low in maturing xylem tissue. Extending PtERF85 expression into SCW forming zones of woody tissues through ectopic expression reduced wood density and SCW thickness of xylem fibers but increased fiber diameter. Xylem transcriptomes from the transgenic trees revealed transcriptional induction of genes involved in cell expansion, translation, and growth. The expression of genes associated with plant vascular development and the biosynthesis of SCW chemical components such as xylan and lignin, was down-regulated in the transgenic trees. Our results suggest that PtERF85 activates genes related to xylem cell expansion, while preventing transcriptional activation of genes related to SCW formation. The importance of precise spatial expression of PtERF85 during wood development together with the observed phenotypes in response to ectopic PtERF85 expression suggests that PtERF85 contributes to the transition of fiber cells from elongation to secondary cell wall deposition.

Place, publisher, year, edition, pages
MDPI, 2021
Keywords
cell wall thickness, ERF85 (CRF4), lignin, ribosome biogenesis, wood development, xylem expansion
National Category
Botany
Identifiers
urn:nbn:se:umu:diva-187903 (URN)10.3390/cells10081971 (DOI)000689001900001 ()34440740 (PubMedID)2-s2.0-85115043021 (Scopus ID)
Funder
Swedish Research Council, 213-2011-1148Swedish Research Council, 239-2011-1915The Kempe Foundations, SMK-1649The Kempe Foundations, SMK-1533Swedish Research Council Formas, 2018-01611Knut and Alice Wallenberg Foundation, 2016.0341Knut and Alice Wallenberg Foundation, 2016.0352Vinnova, 2016-00504
Available from: 2021-09-24 Created: 2021-09-24 Last updated: 2021-09-24Bibliographically approved
Zhang, B., Sztojka, B., Seyfferth, C., Escamez, S., Miskolczi, P., Chantreau, M., . . . Tuominen, H. (2020). The chromatin-modifying protein HUB2 is involved in the regulation of lignin composition in xylem vessels. Journal of Experimental Botany, 71(18), 5484-5494
Open this publication in new window or tab >>The chromatin-modifying protein HUB2 is involved in the regulation of lignin composition in xylem vessels
Show others...
2020 (English)In: Journal of Experimental Botany, ISSN 0022-0957, E-ISSN 1460-2431, Vol. 71, no 18, p. 5484-5494Article in journal (Refereed) Published
Abstract [en]

PIRIN2 (PRN2) was earlier reported to suppress syringyl (S)-type lignin accumulation of xylem vessels of Arabidopsis thaliana. In the present study, we report yeast two-hybrid results supporting the interaction of PRN2 with HISTONE MONOUBIQUITINATION2 (HUB2) in Arabidopsis. HUB2 has been previously implicated in several plant developmental processes, but not in lignification. Interaction between PRN2 and HUB2 was verified by β-galactosidase enzymatic and co-immunoprecipitation assays. HUB2 promoted the deposition of S-type lignin in the secondary cell walls of both stem and hypocotyl tissues, as analysed by pyrolysis-GC/MS. Chemical fingerprinting of individual xylem vessel cell walls by Raman and Fourier transform infrared microspectroscopy supported the function of HUB2 in lignin deposition. These results, together with a genetic analysis of the hub2 prn2 double mutant, support the antagonistic function of PRN2 and HUB2 in deposition of S-type lignin. Transcriptome analyses indicated the opposite regulation of the S-type lignin biosynthetic gene FERULATE-5-HYDROXYLASE1 by PRN2 and HUB2 as the underlying mechanism. PRN2 and HUB2 promoter activities co-localized in cells neighbouring the xylem vessel elements, suggesting that the S-type lignin-promoting function of HUB2 is antagonized by PRN2 for the benefit of the guaiacyl (G)-type lignin enrichment of the neighbouring xylem vessel elements.

Place, publisher, year, edition, pages
Oxford University Press, 2020
Keywords
Arabidopsis, cell wall chemistry, HUB2, lignin, PIRIN2, syringyl-type lignin, xylem vessels
National Category
Botany
Identifiers
urn:nbn:se:umu:diva-176306 (URN)10.1093/jxb/eraa264 (DOI)000577073500017 ()32479638 (PubMedID)2-s2.0-85096472238 (Scopus ID)
Available from: 2020-11-05 Created: 2020-11-05 Last updated: 2023-03-24Bibliographically approved
Wessels, B., Seyfferth, C., Escamez, S., Vain, T., Antos, K., Vahala, J., . . . Tuominen, H. (2019). An AP2/ERF transcription factor ERF139 coordinates xylem cell expansion and secondary cell wall deposition. New Phytologist, 224(4), 1585-1599
Open this publication in new window or tab >>An AP2/ERF transcription factor ERF139 coordinates xylem cell expansion and secondary cell wall deposition
Show others...
2019 (English)In: New Phytologist, ISSN 0028-646X, E-ISSN 1469-8137, Vol. 224, no 4, p. 1585-1599Article in journal (Refereed) Published
Abstract [en]

Differentiation of xylem elements involves cell expansion, secondary cell wall (SCW) deposition and programmed cell death. Transitions between these phases require strict spatiotemporal control.

The function of Populus ERF139 (Potri.013G101100) in xylem differentiation was characterized in transgenic overexpression and dominant repressor lines of ERF139 in hybrid aspen (Populus tremula × tremuloides). Xylem properties, SCW chemistry and downstream targets were analyzed in both types of transgenic trees using microscopy techniques, Fourier transform‐infrared spectroscopy, pyrolysis‐GC/MS, wet chemistry methods and RNA sequencing.

Opposite phenotypes were observed in the secondary xylem vessel sizes and SCW chemistry in the two different types of transgenic trees, supporting the function of ERF139 in suppressing the radial expansion of vessel elements and stimulating accumulation of guaiacyl‐type lignin and possibly also xylan. Comparative transcriptomics identified genes related to SCW biosynthesis (LAC5, LBD15, MYB86) and salt and drought stress‐responsive genes (ANAC002, ABA1) as potential direct targets of ERF139.

The phenotypes of the transgenic trees and the stem expression profiles of ERF139potential target genes support the role of ERF139 as a transcriptional regulator of xylem cell expansion and SCW formation, possibly in response to osmotic changes of the cells.

Place, publisher, year, edition, pages
Wiley-Blackwell, 2019
Keywords
cell expansion, ethylene response factor (ERF), hybrid aspen, lignin, Populus, secondary growth, xylem development
National Category
Botany
Identifiers
urn:nbn:se:umu:diva-161696 (URN)10.1111/nph.15960 (DOI)000474107100001 ()31125440 (PubMedID)2-s2.0-85068612698 (Scopus ID)
Projects
Bio4Energy
Funder
Swedish Research Council Formas, 213-2011-1148Swedish Research Council Formas, 239-2011-1915The Kempe Foundations, SMK-1649The Kempe Foundations, SMK-1533Swedish Foundation for Strategic Research , RBP14-0011Knut and Alice Wallenberg Foundation, 2016-0341Bio4Energy
Available from: 2019-08-06 Created: 2019-08-06 Last updated: 2020-06-17Bibliographically approved
Seyfferth, C., Wessels, B. A., Gorzsás, A., Love, J. W., Rüggeberg, M., Delhomme, N., . . . Felten, J. (2019). Ethylene Signaling Is Required for Fully Functional Tension Wood in Hybrid Aspen. Frontiers in Plant Science, 10, Article ID 1101.
Open this publication in new window or tab >>Ethylene Signaling Is Required for Fully Functional Tension Wood in Hybrid Aspen
Show others...
2019 (English)In: Frontiers in Plant Science, E-ISSN 1664-462X, Vol. 10, article id 1101Article in journal (Refereed) Published
Abstract [en]

Tension wood (TW) in hybrid aspen trees forms on the upper side of displaced stems to generate a strain that leads to uplifting of the stem. TW is characterized by increased cambial growth, reduced vessel frequency and diameter, and the presence of gelatinous, cellulose-rich (G-)fibers with its microfibrils oriented parallel to the fiber cell axis. Knowledge remains limited about the molecular regulators required for the development of this special xylem tissue with its characteristic morphological, anatomical, and chemical features. In this study, we use transgenic, ethylene-insensitive (ETI) hybrid aspen trees together with time-lapse imaging to show that functional ethylene signaling is required for full uplifting of inclined stems. X-ray diffraction and Raman microspectroscopy of TW in ETI trees indicate that, although G-fibers form, the cellulose microfibril angle in the G-fiber S-layer is decreased, and the chemical composition of S- and G-layers is altered than in wild-type TW. The characteristic asymmetric growth and reduction of vessel density is suppressed during TW formation in ETI trees. A genome-wide transcriptome profiling reveals ethylene-dependent genes in TW, related to cell division, cell wall composition, vessel differentiation, microtubule orientation, and hormone crosstalk. Our results demonstrate that ethylene regulates transcriptional responses related to the amount of G-fiber formation and their properties (chemistry and cellulose microfibril angle) during TW formation. The quantitative and qualitative changes in G-fibers are likely to contribute to uplifting of stems that are displaced from their original position.

Place, publisher, year, edition, pages
Frontiers Media S.A., 2019
Keywords
xylem, wood, ethylene, tension wood, lignin, microfibril angle, Raman microspectroscopy, transcriptomics
National Category
Forest Science
Identifiers
urn:nbn:se:umu:diva-164043 (URN)10.3389/fpls.2019.01101 (DOI)000487981600001 ()2-s2.0-85073101017 (Scopus ID)
Projects
Bio4Energy
Funder
Bio4Energy
Available from: 2019-10-15 Created: 2019-10-15 Last updated: 2024-01-17Bibliographically approved
Seyfferth, C., Wessels, B., Jokipii-Lukkari, S., Sundberg, B., Delhomme, N., Felten, J. & Tuominen, H. (2018). Ethylene-Related Gene Expression Networks in Wood Formation. Frontiers in Plant Science, 9, Article ID 272.
Open this publication in new window or tab >>Ethylene-Related Gene Expression Networks in Wood Formation
Show others...
2018 (English)In: Frontiers in Plant Science, E-ISSN 1664-462X, Vol. 9, article id 272Article in journal (Refereed) Published
Abstract [en]

Thickening of tree stems is the result of secondary growth, accomplished by the meristematic activity of the vascular cambium. Secondary growth of the stem entails developmental cascades resulting in the formation of secondary phloem outwards and secondary xylem (i.e., wood) inwards of the stem. Signaling and transcriptional reprogramming by the phytohormone ethylene modifies cambial growth and cell differentiation, but the molecular link between ethylene and secondary growth remains unknown. We addressed this shortcoming by analyzing expression profiles and co-expression networks of ethylene pathway genes using the AspWood transcriptome database which covers all stages of secondary growth in aspen (Populus tremula) stems. ACC synthase expression suggests that the ethylene precursor 1-aminocyclopropane-1-carboxylic acid (ACC) is synthesized during xylem expansion and xylem cell maturation. Ethylene-mediated transcriptional reprogramming occurs during all stages of secondary growth, as deduced from AspWood expression profiles of ethylene-responsive genes. A network centrality analysis of the AspWood dataset identified EIN3D and 11 ERFs as hubs. No overlap was found between the co-expressed genes of the EIN3 and ERF hubs, suggesting target diversification and hence independent roles for these transcription factor families during normal wood formation. The EIN3D hub was part of a large co-expression gene module, which contained 16 transcription factors, among them several new candidates that have not been earlier connected to wood formation and a VND-INTERACTING 2 (VNI2) homolog. We experimentally demonstrated Populus EIN3D function in ethylene signaling in Arabidopsis thaliana. The ERF hubs ERF118 and ERF119 were connected on the basis of their expression pattern and gene co-expression module composition to xylem cell expansion and secondary cell wall formation, respectively. We hereby establish data resources for ethylene-responsive genes and potential targets for EIN3D and ERF transcription factors in Populus stem tissues, which can help to understand the range of ethylene targeted biological processes during secondary growth.

Place, publisher, year, edition, pages
Frontiers Media S.A., 2018
Keywords
ethylene signaling, secondary growth, wood development, co-expression network, EIN3, ERF
National Category
Bioinformatics and Systems Biology
Identifiers
urn:nbn:se:umu:diva-146209 (URN)10.3389/fpls.2018.00272 (DOI)000427359000001 ()29593753 (PubMedID)2-s2.0-85045454437 (Scopus ID)
Projects
Bio4Energy
Funder
Bio4Energy
Available from: 2018-05-14 Created: 2018-05-14 Last updated: 2024-01-17Bibliographically approved
Wessels, B., Seyfferth, C., Escamez, S., Vain, T., Antos, K., Vahala, J., . . . Tuominen, H.An AP/ERF transcription factor ERF139 affects growth and lignin deposition in hybrid aspen.
Open this publication in new window or tab >>An AP/ERF transcription factor ERF139 affects growth and lignin deposition in hybrid aspen
Show others...
(English)Manuscript (preprint) (Other academic)
National Category
Botany
Identifiers
urn:nbn:se:umu:diva-151831 (URN)
Available from: 2018-09-13 Created: 2018-09-13 Last updated: 2018-09-13
Wessels, B., Seyfferth, C., Vain, T., Antos, K., Felten, J. & Tuominen, H.Ethylene suppresses vessel element formation during the tension wood response of hybrid aspen.
Open this publication in new window or tab >>Ethylene suppresses vessel element formation during the tension wood response of hybrid aspen
Show others...
(English)Manuscript (preprint) (Other academic)
National Category
Botany
Identifiers
urn:nbn:se:umu:diva-151827 (URN)
Available from: 2018-09-13 Created: 2018-09-13 Last updated: 2018-09-13
Seyfferth, C., Wessels, B., Vahala, J., Kangasjärvi, J., Bauer, G., Tuominen, H., . . . Felten, J.Populus ERF85 mediates the transition between xylem cell expansion and secondary cell wall formation in hybrid aspen.
Open this publication in new window or tab >>Populus ERF85 mediates the transition between xylem cell expansion and secondary cell wall formation in hybrid aspen
Show others...
(English)Manuscript (preprint) (Other academic)
National Category
Botany
Identifiers
urn:nbn:se:umu:diva-151829 (URN)
Available from: 2018-09-13 Created: 2018-09-13 Last updated: 2018-09-13
Organisations
Identifiers
ORCID iD: ORCID iD iconorcid.org/0000-0002-8962-3778

Search in DiVA

Show all publications