ArticleGenome biology and evolution2017
Comprehensive Genome-Wide Classification Reveals That Many Plant-Specific Transcription Factors Evolved in Streptophyte Algae.
Article in Genome biology and evolution, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 49 papers.
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49 citing papers in PubMed, 118 citations in OpenAlex.
- Evolutionary shifts in plant adaptation mediated by phytohormones.Plant communications · 2026Review
- PharaohFUN: phylogenomic analysis for plant protein history and function elucidation.Molecular biology and evolution · 2026Article
- Transcription Factor Analysis of Rhodophytes Suggests Trihelix Transcription Factors Across the Florideophyceae.Plants (Basel, Switzerland) · 2025Article
- Many transcription factor families have evolutionarily conserved binding motifs in plants.Plant physiology · 2025Article
- Evolution of sexual systems and regressive evolution in Riccia.The New phytologist · 2025Article
- Time-resolved oxidative signal convergence across the algae-embryophyte divide.Nature communications · 2025Article
- Chromosome-level genomes of two Bracteacoccaceae highlight adaptations to biocrusts.Nature communications · 2025Article
- Enhanced sensitivity of TAPscan v4 enables comprehensive analysis of streptophyte transcription factor evolution.The Plant journal : for cell and molecular biology · 2025Article
- TIdeS: A Comprehensive Framework for Accurate Open Reading Frame Identification and Classification in Eukaryotic Transcriptomes.Genome biology and evolution · 2024Article
- Comprehensive analysis of computational approaches in plant transcription factors binding regions discovery.Heliyon · 2024Article
- Phylogeny and evolution of streptophyte algae.Annals of botany · 2024Review
- The ALOG domain defines a family of plant-specific transcription factors acting during Arabidopsis flower development.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Evolutionary Consequences of Functional and Regulatory Divergence of HD-Zip I Transcription Factors as a Source of Diversity in Protein Interaction Networks in Plants.Journal of molecular evolution · 2023Review
- PEATmoss: A Gene Expression Atlas for Bryophytes.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Divergent evolutionary trajectories of bryophytes and tracheophytes from a complex common ancestor of land plants.Nature ecology & evolution · 2022Article
- Diversification of heat shock transcription factors expanded thermal stress responses during early plant evolution.The Plant cell · 2022Article
- ABERRANT PANICLE ORGANIZATION2 controls multiple steps in panicle formation through common direct-target genes.Plant physiology · 2022Article
- Evolution of meristem zonation by CLE gene duplication in land plants.Nature plants · 2022Review
- Trafficking and localization ofCommunicative & integrative biology · 2022Article
- Quantitative imaging of RNA polymerase II activity in plants reveals the single-cell basis of tissue-wide transcriptional dynamics.Nature plants · 2021Article
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4 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Plant genomes encode many lineage-specific, unique transcription factors. Expansion of such gene families has been previously found to coincide with the evolution of morphological complexity, although comparative analyses have been hampered by severe sampling bias. Here, we make use of the recently increased availability of plant genomes. We have updated and expanded previous rule sets for domain-based classification of transcription associated proteins (TAPs), comprising transcription factors and transcriptional regulators. The genome-wide annotation of these protein families has been analyzed and made available via the novel TAPscan web interface. We find that many TAP families previously thought to be specific for land plants actually evolved in streptophyte (charophyte) algae; 26 out of 36 TAP family gains are inferred to have occurred in the common ancestor of the Streptophyta (uniting the land plants-Embryophyta-with their closest algal relatives). In contrast, expansions of TAP families were found to occur throughout streptophyte evolution. 17 out of 76 expansion events were found to be common to all land plants and thus probably evolved concomitant with the water-to-land-transition.
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