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Identification of new potential molecular actors related to fiber quality in flax through Omics
One of the biggest challenges for a more widespread utilization of plant fibers is to better understand the different molecular factors underlying the variability in fineness and mechanical properties of both elementary and scutched fibers. Accordingly, we analyzed genome-wide transcription profilin...
Autores principales: | , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Frontiers Media S.A.
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10390313/ https://www.ncbi.nlm.nih.gov/pubmed/37528984 http://dx.doi.org/10.3389/fpls.2023.1204016 |
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author | Chabi, Malika Goulas, Estelle Galinousky, Dmitry Blervacq, Anne-Sophie Lucau-Danila, Anca Neutelings, Godfrey Grec, Sébastien Day, Arnaud Chabbert, Brigitte Haag, Katharina Müssig, Jörg Arribat, Sandrine Planchon, Sébastien Renaut, Jenny Hawkins, Simon |
author_facet | Chabi, Malika Goulas, Estelle Galinousky, Dmitry Blervacq, Anne-Sophie Lucau-Danila, Anca Neutelings, Godfrey Grec, Sébastien Day, Arnaud Chabbert, Brigitte Haag, Katharina Müssig, Jörg Arribat, Sandrine Planchon, Sébastien Renaut, Jenny Hawkins, Simon |
author_sort | Chabi, Malika |
collection | PubMed |
description | One of the biggest challenges for a more widespread utilization of plant fibers is to better understand the different molecular factors underlying the variability in fineness and mechanical properties of both elementary and scutched fibers. Accordingly, we analyzed genome-wide transcription profiling from bast fiber bearing tissues of seven different flax varieties (4 spring, 2 winter fiber varieties and 1 winter linseed) and identified 1041 differentially expressed genes between varieties, of which 97 were related to cell wall metabolism. KEGG analysis highlighted a number of different enriched pathways. Subsequent statistical analysis using Partial Least-Squares Discriminant Analysis showed that 73% of the total variance was explained by the first 3 X-variates corresponding to 56 differentially expressed genes. Calculation of Pearson correlations identified 5 genes showing a strong correlation between expression and morphometric data. Two-dimensional gel proteomic analysis on the two varieties showing the most discriminant and significant differences in morphometrics revealed 1490 protein spots of which 108 showed significant differential abundance. Mass spectrometry analysis successfully identified 46 proteins representing 32 non-redundant proteins. Statistical clusterization based on the expression level of genes corresponding to the 32 proteins showed clear discrimination into three separate clusters, reflecting the variety type (spring-/winter-fiber/oil). Four of the 32 proteins were also highly correlated with morphometric features. Examination of predicted functions for the 9 (5 + 4) identified genes highlighted lipid metabolism and senescence process. Calculation of Pearson correlation coefficients between expression data and retted fiber mechanical measurements (strength and maximum force) identified 3 significantly correlated genes. The genes were predicted to be connected to cell wall dynamics, either directly (Expansin-like protein), or indirectly (NAD(P)-binding Rossmann-fold superfamily protein). Taken together, our results have allowed the identification of molecular actors potentially associated with the determination of both in-planta fiber morphometrics, as well as ex-planta fiber mechanical properties, both of which are key parameters for elementary fiber and scutched fiber quality in flax. |
format | Online Article Text |
id | pubmed-10390313 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-103903132023-08-01 Identification of new potential molecular actors related to fiber quality in flax through Omics Chabi, Malika Goulas, Estelle Galinousky, Dmitry Blervacq, Anne-Sophie Lucau-Danila, Anca Neutelings, Godfrey Grec, Sébastien Day, Arnaud Chabbert, Brigitte Haag, Katharina Müssig, Jörg Arribat, Sandrine Planchon, Sébastien Renaut, Jenny Hawkins, Simon Front Plant Sci Plant Science One of the biggest challenges for a more widespread utilization of plant fibers is to better understand the different molecular factors underlying the variability in fineness and mechanical properties of both elementary and scutched fibers. Accordingly, we analyzed genome-wide transcription profiling from bast fiber bearing tissues of seven different flax varieties (4 spring, 2 winter fiber varieties and 1 winter linseed) and identified 1041 differentially expressed genes between varieties, of which 97 were related to cell wall metabolism. KEGG analysis highlighted a number of different enriched pathways. Subsequent statistical analysis using Partial Least-Squares Discriminant Analysis showed that 73% of the total variance was explained by the first 3 X-variates corresponding to 56 differentially expressed genes. Calculation of Pearson correlations identified 5 genes showing a strong correlation between expression and morphometric data. Two-dimensional gel proteomic analysis on the two varieties showing the most discriminant and significant differences in morphometrics revealed 1490 protein spots of which 108 showed significant differential abundance. Mass spectrometry analysis successfully identified 46 proteins representing 32 non-redundant proteins. Statistical clusterization based on the expression level of genes corresponding to the 32 proteins showed clear discrimination into three separate clusters, reflecting the variety type (spring-/winter-fiber/oil). Four of the 32 proteins were also highly correlated with morphometric features. Examination of predicted functions for the 9 (5 + 4) identified genes highlighted lipid metabolism and senescence process. Calculation of Pearson correlation coefficients between expression data and retted fiber mechanical measurements (strength and maximum force) identified 3 significantly correlated genes. The genes were predicted to be connected to cell wall dynamics, either directly (Expansin-like protein), or indirectly (NAD(P)-binding Rossmann-fold superfamily protein). Taken together, our results have allowed the identification of molecular actors potentially associated with the determination of both in-planta fiber morphometrics, as well as ex-planta fiber mechanical properties, both of which are key parameters for elementary fiber and scutched fiber quality in flax. Frontiers Media S.A. 2023-07-17 /pmc/articles/PMC10390313/ /pubmed/37528984 http://dx.doi.org/10.3389/fpls.2023.1204016 Text en Copyright © 2023 Chabi, Goulas, Galinousky, Blervacq, Lucau-Danila, Neutelings, Grec, Day, Chabbert, Haag, Müssig, Arribat, Planchon, Renaut and Hawkins https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. |
spellingShingle | Plant Science Chabi, Malika Goulas, Estelle Galinousky, Dmitry Blervacq, Anne-Sophie Lucau-Danila, Anca Neutelings, Godfrey Grec, Sébastien Day, Arnaud Chabbert, Brigitte Haag, Katharina Müssig, Jörg Arribat, Sandrine Planchon, Sébastien Renaut, Jenny Hawkins, Simon Identification of new potential molecular actors related to fiber quality in flax through Omics |
title | Identification of new potential molecular actors related to fiber quality in flax through Omics |
title_full | Identification of new potential molecular actors related to fiber quality in flax through Omics |
title_fullStr | Identification of new potential molecular actors related to fiber quality in flax through Omics |
title_full_unstemmed | Identification of new potential molecular actors related to fiber quality in flax through Omics |
title_short | Identification of new potential molecular actors related to fiber quality in flax through Omics |
title_sort | identification of new potential molecular actors related to fiber quality in flax through omics |
topic | Plant Science |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10390313/ https://www.ncbi.nlm.nih.gov/pubmed/37528984 http://dx.doi.org/10.3389/fpls.2023.1204016 |
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