ArticlePlant physiology2013
Comparative analysis of syntenic genes in grass genomes reveals accelerated rates of gene structure and coding sequence evolution in polyploid wheat.
Article in Plant physiology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 68 papers, 1 of them a synthesis that pooled it.
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68 citing papers in PubMed, 1 synthesis or guideline pooled it, 120 citations in OpenAlex.
- In silico analysis of the Seven IN Absentia (SINA) genes in bread wheat sheds light on their structure in plants.PloS one · 2023Pooled it
- Reactivation of a loss-of-function SlGLK2 allele by frame-restoring genome editing in tomato.Plant cell reports · 2026Article
- Association of hybridization and genome doubling with codon usage landscapes in the subgenomes of bread wheat.Frontiers in plant science · 2026Article
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- Recent duplications and rare structural variations revealed by comparative sequence analysis of low molecular weight glutenin subunits (LMW-GS) genes re-identified using LMWgsFinder in 26 genomes of the grass family.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- Comprehensive genomic exploration of class III peroxidase genes in guava unravels physiology, evolution, and postharvest storage responses.Scientific reports · 2024Article
- Identification and expression analysis of MAPK cascade gene family in foxtail millet (Plant signaling & behavior · 2023Article
- Genome-Wide Analysis of the Membrane Attack Complex and Perforin Genes and Their Expression Pattern under Stress in the Solanaceae.International journal of molecular sciences · 2023Article
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- Systematic identification and expression profiles of the BAHD superfamily acyltransferases in barley (Hordeum vulgare).Scientific reports · 2022Article
- Comparative genomics and evolutionary analysis of plant CNGCs.Biology methods & protocols · 2022Article
- Genome-wide identification, characterization, evolution, and expression pattern analyses of the typical thioredoxin gene family in wheat (Frontiers in plant science · 2022Article
- Male Fertility Genes in Bread Wheat (International journal of molecular sciences · 2021Review
- Genome-Wide Identification ofFrontiers in plant science · 2021Article
- Evolution and Expression of the Membrane Attack Complex and Perforin Gene Family in the Poaceae.International journal of molecular sciences · 2020Article
- Gradual polyploid genome evolution revealed by pan-genomic analysis of Brachypodium hybridum and its diploid progenitors.Nature communications · 2020Article
- Genome-wide characterization and expression analyses of the auxin/indole-3-acetic acid (Aux/IAA) gene family in barley (Hordeum vulgare L.).Scientific reports · 2020Article
- Article
- Adaptive strategy of allohexaploid wheat to long-term salinity stress.BMC plant biology · 2020Article
- Comparative analysis of chromosome 2A molecular organization in diploid and hexaploid wheat.Molecular biology reports · 2020Article
8 more citing papers are in PubMed but not listed here.
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Authors and funding
16 authors at 7 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Cycles of whole-genome duplication (WGD) and diploidization are hallmarks of eukaryotic genome evolution and speciation. Polyploid wheat (Triticum aestivum) has had a massive increase in genome size largely due to recent WGDs. How these processes may impact the dynamics of gene evolution was studied by comparing the patterns of gene structure changes, alternative splicing (AS), and codon substitution rates among wheat and model grass genomes. In orthologous gene sets, significantly more acquired and lost exonic sequences were detected in wheat than in model grasses. In wheat, 35% of these gene structure rearrangements resulted in frame-shift mutations and premature termination codons. An increased codon mutation rate in the wheat lineage compared with Brachypodium distachyon was found for 17% of orthologs. The discovery of premature termination codons in 38% of expressed genes was consistent with ongoing pseudogenization of the wheat genome. The rates of AS within the individual wheat subgenomes (21%-25%) were similar to diploid plants. However, we uncovered a high level of AS pattern divergence between the duplicated homeologous copies of genes. Our results are consistent with the accelerated accumulation of AS isoforms, nonsynonymous mutations, and gene structure rearrangements in the wheat lineage, likely due to genetic redundancy created by WGDs. Whereas these processes mostly contribute to the degeneration of a duplicated genome and its diploidization, they have the potential to facilitate the origin of new functional variations, which, upon selection in the evolutionary lineage, may play an important role in the origin of novel traits.
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