ArticleBMC plant biology2015
Genome-wide analysis of the gene families of resistance gene analogues in cotton and their response to Verticillium wilt.
Article in BMC plant biology, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 42 papers.
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42 citing papers in PubMed.
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- Pan-genome of Citrullus genus highlights the extent of presence/absence variation during domestication and selection.BMC genomics · 2023Article
- Evolution of NLR genes in genus Arachis reveals asymmetric expansion of NLRome in wild and domesticated tetraploid species.Scientific reports · 2023Article
- Genome-wide association study of common resistance to rust species in tetraploid wheat.Frontiers in plant science · 2023Article
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- The Conservation of Long Intergenic Non-Coding RNAs and Their Response toInternational journal of molecular sciences · 2022Article
- Genome-Wide Analysis of theGenes · 2022Article
- Pangenomes as a Resource to Accelerate Breeding of Under-Utilised Crop Species.International journal of molecular sciences · 2022Review
- Identification of receptor-like proteins induced byFrontiers in plant science · 2022Article
- Smart breeding approaches in post-genomics era for developing climate-resilient food crops.Frontiers in plant science · 2022Review
- Pan-Genome Analysis Reveals the Abundant Gene Presence/Absence Variations Among Different Varieties of Melon and Their Influence on Traits.Frontiers in plant science · 2022Article
- Article
- Cotton CC-NBS-LRR GeneFrontiers in plant science · 2021Article
- In silico modelling and characterization of eight blast resistance proteins in resistant and susceptible rice cultivars.Journal, genetic engineering & biotechnology · 2020Article
- Characterization of disease resistance genes in the Brassica napus pangenome reveals significant structural variation.Plant biotechnology journal · 2020Article
- Transcriptome analysis of roots from resistant and susceptible rice varieties infected with Hirschmanniella mucronata.FEBS open bio · 2019Article
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10 authors.
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No grant is acknowledged in the PubMed record.
Abstract
backgroundGossypium raimondii is a Verticillium wilt-resistant cotton species whose genome encodes numerous disease resistance genes that play important roles in the defence against pathogens. However, the characteristics of resistance gene analogues (RGAs) and Verticillium dahliae response loci (VdRLs) have not been investigated on a global scale. In this study, the characteristics of RGA genes were systematically analysed using bioinformatics-driven methods. Moreover, the potential VdRLs involved in the defence response to Verticillium wilt were identified by RNA-seq and correlations with known resistance QTLs.
resultsThe G. raimondii genome encodes 1004 RGA genes, and most of these genes cluster in homology groups based on high levels of similarity. Interestingly, nearly half of the RGA genes occurred in 26 RGA-gene-rich clusters (Rgrcs). The homology analysis showed that sequence exchanges and tandem duplications frequently occurred within Rgrcs, and segmental duplications took place among the different Rgrcs. An RNA-seq analysis showed that the RGA genes play roles in cotton defence responses, forming 26 VdRLs inside in the Rgrcs after being inoculated with V. dahliae. A correlation analysis found that 12 VdRLs were adjacent to the known Verticillium wilt resistance QTLs, and that 5 were rich in NB-ARC domain-containing disease resistance genes.
conclusionsThe cotton genome contains numerous RGA genes, and nearly half of them are located in clusters, which evolved by sequence exchanges, tandem duplications and segmental duplications. In the Rgrcs, 26 loci were induced by the V. dahliae inoculation, and 12 are in the vicinity of known Verticillium wilt resistance QTLs.
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