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A MYB Transcription Factor Atlas Provides Insights into the Evolution of Environmental Adaptations in Plants

The MYB transcription factor superfamily includes key regulators of plant development and responses to environmental changes. The diversity of lifestyles and morphological characteristics exhibited by plants are potentially associated with the genomic dynamics of the MYB superfamily. With the releas...

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Autores principales: Zhang, Chaofan, Jiao, Chen, Sun, Xuepeng, Li, Xiaolong
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9916579/
https://www.ncbi.nlm.nih.gov/pubmed/36768888
http://dx.doi.org/10.3390/ijms24032566
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author Zhang, Chaofan
Jiao, Chen
Sun, Xuepeng
Li, Xiaolong
author_facet Zhang, Chaofan
Jiao, Chen
Sun, Xuepeng
Li, Xiaolong
author_sort Zhang, Chaofan
collection PubMed
description The MYB transcription factor superfamily includes key regulators of plant development and responses to environmental changes. The diversity of lifestyles and morphological characteristics exhibited by plants are potentially associated with the genomic dynamics of the MYB superfamily. With the release of the plant genomes, a comprehensive phylogenomic analysis of the MYB superfamily across Viridiplantae is allowed. The present study performed phylogenetic, phylogenomic, syntenic, horizontal gene transfer, and neo/sub-functionalization analysis of the MYB superfamily to explore the evolutionary contributions of MYB members to species diversification, trait formation, and environmental adaptation in 437 different plant species. We identified major changes in copy number variation and genomic context within subclades across lineages. Multiple MYB subclades showed highly conserved copy number patterns and synteny across flowering plants, whereas others were more dynamic and showed lineage-specific patterns. As examples of lineage-specific morphological divergence, we hypothesize that the gain of a MYB orthogroup associated with flower development and environmental responses and an orthogroup associated with auxin and wax biosynthesis in angiosperms were correlated with the emergence of flowering plants, unbiased neo-/sub-functionalization of gene duplicates contributed to environmental adaptation, and species-specific neo-/sub-functionalization contributed to phenotype divergence between species. Transposable element insertion in promoter regions may have facilitated the sub-/neo-functionalization of MYB genes and likely played a tissue-specific role contributing to sub-/neo-functionalization in plant root tissues. This study provides new insights into the evolutionary divergence of the MYB superfamily across major flowering and non-flowering lineages and emphasizes the need for lineage-/tissue-specific characterization to further understand trait variability and environmental adaptation.
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spelling pubmed-99165792023-02-11 A MYB Transcription Factor Atlas Provides Insights into the Evolution of Environmental Adaptations in Plants Zhang, Chaofan Jiao, Chen Sun, Xuepeng Li, Xiaolong Int J Mol Sci Article The MYB transcription factor superfamily includes key regulators of plant development and responses to environmental changes. The diversity of lifestyles and morphological characteristics exhibited by plants are potentially associated with the genomic dynamics of the MYB superfamily. With the release of the plant genomes, a comprehensive phylogenomic analysis of the MYB superfamily across Viridiplantae is allowed. The present study performed phylogenetic, phylogenomic, syntenic, horizontal gene transfer, and neo/sub-functionalization analysis of the MYB superfamily to explore the evolutionary contributions of MYB members to species diversification, trait formation, and environmental adaptation in 437 different plant species. We identified major changes in copy number variation and genomic context within subclades across lineages. Multiple MYB subclades showed highly conserved copy number patterns and synteny across flowering plants, whereas others were more dynamic and showed lineage-specific patterns. As examples of lineage-specific morphological divergence, we hypothesize that the gain of a MYB orthogroup associated with flower development and environmental responses and an orthogroup associated with auxin and wax biosynthesis in angiosperms were correlated with the emergence of flowering plants, unbiased neo-/sub-functionalization of gene duplicates contributed to environmental adaptation, and species-specific neo-/sub-functionalization contributed to phenotype divergence between species. Transposable element insertion in promoter regions may have facilitated the sub-/neo-functionalization of MYB genes and likely played a tissue-specific role contributing to sub-/neo-functionalization in plant root tissues. This study provides new insights into the evolutionary divergence of the MYB superfamily across major flowering and non-flowering lineages and emphasizes the need for lineage-/tissue-specific characterization to further understand trait variability and environmental adaptation. MDPI 2023-01-29 /pmc/articles/PMC9916579/ /pubmed/36768888 http://dx.doi.org/10.3390/ijms24032566 Text en © 2023 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Zhang, Chaofan
Jiao, Chen
Sun, Xuepeng
Li, Xiaolong
A MYB Transcription Factor Atlas Provides Insights into the Evolution of Environmental Adaptations in Plants
title A MYB Transcription Factor Atlas Provides Insights into the Evolution of Environmental Adaptations in Plants
title_full A MYB Transcription Factor Atlas Provides Insights into the Evolution of Environmental Adaptations in Plants
title_fullStr A MYB Transcription Factor Atlas Provides Insights into the Evolution of Environmental Adaptations in Plants
title_full_unstemmed A MYB Transcription Factor Atlas Provides Insights into the Evolution of Environmental Adaptations in Plants
title_short A MYB Transcription Factor Atlas Provides Insights into the Evolution of Environmental Adaptations in Plants
title_sort myb transcription factor atlas provides insights into the evolution of environmental adaptations in plants
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9916579/
https://www.ncbi.nlm.nih.gov/pubmed/36768888
http://dx.doi.org/10.3390/ijms24032566
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