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...
| Main Authors: | , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2023-07-01
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| Series: | Frontiers in Plant Science |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/articles/10.3389/fpls.2023.1204016/full |
| _version_ | 1797778222415347712 |
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| author | Malika Chabi Estelle Goulas Dmitry Galinousky Anne-Sophie Blervacq Anca Lucau-Danila Godfrey Neutelings Sébastien Grec Arnaud Day Arnaud Day Brigitte Chabbert Katharina Haag Jörg Müssig Sandrine Arribat Sébastien Planchon Jenny Renaut Simon Hawkins |
| author_facet | Malika Chabi Estelle Goulas Dmitry Galinousky Anne-Sophie Blervacq Anca Lucau-Danila Godfrey Neutelings Sébastien Grec Arnaud Day Arnaud Day Brigitte Chabbert Katharina Haag Jörg Müssig Sandrine Arribat Sébastien Planchon Jenny Renaut Simon Hawkins |
| author_sort | Malika Chabi |
| collection | DOAJ |
| 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. |
| first_indexed | 2024-03-12T23:14:10Z |
| format | Article |
| id | doaj.art-1d158f23436241aaa8e878bcf0b6ec71 |
| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-03-12T23:14:10Z |
| publishDate | 2023-07-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Plant Science |
| spelling | doaj.art-1d158f23436241aaa8e878bcf0b6ec712023-07-17T13:03:17ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2023-07-011410.3389/fpls.2023.12040161204016Identification of new potential molecular actors related to fiber quality in flax through OmicsMalika Chabi0Estelle Goulas1Dmitry Galinousky2Anne-Sophie Blervacq3Anca Lucau-Danila4Godfrey Neutelings5Sébastien Grec6Arnaud Day7Arnaud Day8Brigitte Chabbert9Katharina Haag10Jörg Müssig11Sandrine Arribat12Sébastien Planchon13Jenny Renaut14Simon Hawkins15Université de Lille, CNRS, UMR 8576 - UGSF - Unité de Glycobiologie Structurale et Fonctionnelle, Lille, FranceUniversité de Lille, CNRS, UMR 8576 - UGSF - Unité de Glycobiologie Structurale et Fonctionnelle, Lille, FranceUniversité de Lille, CNRS, UMR 8576 - UGSF - Unité de Glycobiologie Structurale et Fonctionnelle, Lille, FranceUniversité de Lille, CNRS, UMR 8576 - UGSF - Unité de Glycobiologie Structurale et Fonctionnelle, Lille, FranceUniversité de Lille, UMRT 1158 BioEcoAgro, Institut Charles Viollette, Lille, FranceUniversité de Lille, CNRS, UMR 8576 - UGSF - Unité de Glycobiologie Structurale et Fonctionnelle, Lille, FranceUniversité de Lille, CNRS, UMR 8576 - UGSF - Unité de Glycobiologie Structurale et Fonctionnelle, Lille, FranceUniversité de Lille, CNRS, UMR 8576 - UGSF - Unité de Glycobiologie Structurale et Fonctionnelle, Lille, FranceFibres Recherche Développement, Technopole de l’Aube en Champagne – Hôtel de Bureaux 2, 2 rue Gustave Eiffel, CS 90601, Troyes, FranceUniversité de Reims Champagne-Ardenne, INRAE, FARE, UMR A 614, Reims, FranceFraunhofer-Institute for Manufacturing Technology and Advanced Materials IFAM, Bremen, GermanyThe Biological Materials Group, HSB – City University of Applied Sciences, Bremen, GermanyUniversité de Lille, CNRS, UMR 8576 - UGSF - Unité de Glycobiologie Structurale et Fonctionnelle, Lille, FranceDepartment of Environmental Research and Innovation, Luxembourg Institute of Science and Technology, Esch-sur-Alzette, LuxembourgDepartment of Environmental Research and Innovation, Luxembourg Institute of Science and Technology, Esch-sur-Alzette, LuxembourgUniversité de Lille, CNRS, UMR 8576 - UGSF - Unité de Glycobiologie Structurale et Fonctionnelle, Lille, FranceOne 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.https://www.frontiersin.org/articles/10.3389/fpls.2023.1204016/fullflax (Linum usitatissimum L.)proteomicstranscriptomicscell wallfiberretting |
| spellingShingle | Malika Chabi Estelle Goulas Dmitry Galinousky Anne-Sophie Blervacq Anca Lucau-Danila Godfrey Neutelings Sébastien Grec Arnaud Day Arnaud Day Brigitte Chabbert Katharina Haag Jörg Müssig Sandrine Arribat Sébastien Planchon Jenny Renaut Simon Hawkins Identification of new potential molecular actors related to fiber quality in flax through Omics Frontiers in Plant Science flax (Linum usitatissimum L.) proteomics transcriptomics cell wall fiber retting |
| 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 | flax (Linum usitatissimum L.) proteomics transcriptomics cell wall fiber retting |
| url | https://www.frontiersin.org/articles/10.3389/fpls.2023.1204016/full |
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