Tempo and Mode of Diversification in Plant Evolution

A special issue of Plants (ISSN 2223-7747). This special issue belongs to the section "Plant Molecular Biology".

Deadline for manuscript submissions: 31 August 2025 | Viewed by 1167

Special Issue Editors


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Guest Editor
Programa de Pós-Graduação em Botânica, Departamento de Botânica, Universidade Federal do Rio Grande do Sul, Av. Bento Gonçalves nº. 9500, Porto Alegre 91501-970, RS, Brazil
Interests: molecular systematics; Iridaceae; Poaceae; plant evolution; plant conservation

E-Mail Website
Guest Editor
Programa de Pós-Graduação em Botânica, Departamento de Botânica, Universidade Federal do Rio Grande do Sul, Av. Bento Gonçalves nº. 9500, Porto Alegre 91501-970, RS, Brazil
Interests: population genetics and genomics; phylogeography; molecular ecology; plant evolution and conservation

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Guest Editor
Programa de Pós-Graduação em Botânica, Departamento de Botânica, Instituto de Biociências, Universidade Federal do Rio Grande do Sul, Porto Alegre, RS, Brazil
Interests: molecular systematics; phylogenomics; biogeography; macroevolution; taxonomy

Special Issue Information

Dear Colleagues,

In the last few years, omics approaches in plant evolution have enabled a comprehensive analysis of genomes, transcriptomes, proteomes, and metabolomes, yielding significant insights into the genetic and molecular mechanisms that drive evolutionary adaptations and diversification in plant species. High-throughput omics approaches have been adopted to reconstruct phylogenetic trees and to study relationships at the intraspecific level in plants. The ultimate goal when using the large datasets obtained with these technologies is to estimate relationships at different taxonomic levels, not only with good support, but with information from different genomic regions. The availability of universal genomic probe sets has made target sequencing capture a promising approach for macroevolution studies, while the restriction-site associated DNA sequencing technique has been revolutionizing species-level studies. Classifications of major plant lineages are being revisited through the light of genomic data, while this information gives the opportunity to bring new insights into the patterns of diversification and distribution of different groups. High-quality information on plant diversity is extremely important for the conservation and policy-making of the world flora. In addition to the importance of obtaining genomic data, biogeographic and ecological evidence has provided a better understanding of the evolution of plant lineages.

This Special Issue aims to unite articles that make use of omics tools to investigate plant diversification at macro and micro scales and use integrative analyses to understand tempo and mode of species distribution, evolution of morphological characters and other taxonomic traits, such as cytology, genome size, anatomy, biochemistry, ecology, etc.

Prof. Dr. Tatiana Teixeira de Sousa-Chies
Prof. Dr. Caroline Turchetto
Prof. Dr. Verônica Aydos Thode
Guest Editors

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Keywords

  • diversity
  • diversification
  • distribution
  • biogeography
  • biodiversity
  • conservation
  • climate change
  • population genomics

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Published Papers (1 paper)

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Research

15 pages, 5847 KiB  
Article
Integrative Analysis Provides Insights into Genes Encoding LEA_5 Domain-Containing Proteins in Tigernut (Cyperus esculentus L.)
by Zhi Zou, Xiaowen Fu, Xiaoping Yi, Chunqiang Li, Jiaquan Huang and Yongguo Zhao
Plants 2025, 14(5), 762; https://doi.org/10.3390/plants14050762 - 1 Mar 2025
Cited by 1 | Viewed by 858
Abstract
LEA_5 domain-containing proteins constitute a small family of late embryogenesis-abundant proteins that are essential for seed desiccation tolerance and dormancy. However, their roles in non-seed storage organs such as underground tubers are largely unknown. This study presents the first genome-scale analysis of the [...] Read more.
LEA_5 domain-containing proteins constitute a small family of late embryogenesis-abundant proteins that are essential for seed desiccation tolerance and dormancy. However, their roles in non-seed storage organs such as underground tubers are largely unknown. This study presents the first genome-scale analysis of the LEA_5 family in tigernut (Cyperus esculentus L.), a Cyperaceae plant producing desiccation-tolerant tubers. Four LEA_5 genes identified from the tigernut genome are twice of two present in model plants Arabidopsis thaliana and Oryza sativa. A comparison of 86 members from 34 representative plant species revealed the monogenic origin and lineage-specific family evolution in Poales, which includes the Cyperaceae family. CeLEA5 genes belong to four out of five orthogroups identified in this study, i.e., LEA5a, LEA5b, LEA5c, and LEA5d. Whereas LEA5e is specific to eudicots, LEA5b and LEA5d appear to be Poales-specific and LEA5c is confined to families Cyperaceae and Juncaceae. Though no syntenic relationship was observed between CeLEA5 genes, comparative genomics analyses indicated that LEA5b and LEA5c are more likely to arise from LEA5a via whole-genome duplication. Additionally, local duplication, especially tandem duplication, also played a role in the family expansion in Juncus effuses, Joinvillea ascendens, and most Poaceae plants examined in this study. Structural variation (e.g., fragment insertion) and expression divergence of LEA_5 genes were also observed. Whereas LEA_5 genes in A. thaliana, O. sativa, and Zea mays were shown to be preferentially expressed in seeds/embryos, CeLEA5 genes have evolved to be predominantly expressed in tubers, exhibiting seed desiccation-like accumulation during tuber maturation. Moreover, CeLEA5 orthologs in C. rotundus showed weak expression in various stages of tuber development, which may explain the difference in tuber desiccation tolerance between these two close species. These findings highlight the lineage-specific evolution of the LEA_5 family, which facilitates further functional analysis and genetic improvement in tigernut and other species. Full article
(This article belongs to the Special Issue Tempo and Mode of Diversification in Plant Evolution)
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