ArticleGenome biology2017
New reference genome sequences of hot pepper reveal the massive evolution of plant disease-resistance genes by retroduplication.
Article in Genome biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 143 papers.
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143 citing papers in PubMed.
- Unlocking the future of crop improvement with crop wild relatives.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Review
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- Next-Generation Metabolic Engineering of Capsaicinoids Biosynthesis in Chilli Pepper: Bridging Genomic Insights to Biotechnological Applications.Biotech (Basel (Switzerland)) · 2026Review
- Novel insights into retrogene evolution and cold adaptation in the alpine plant Crucihimalaya himalaica (Brassicaceae).BMC biology · 2026Article
- An NLR-transposase fusion gene from rye provides broadly effective resistance to stripe rust in wheat.Nature plants · 2026Article
- Allelic Variation in Maize Malate Dehydrogenase 7 Shapes Promoter Methylation and Banded Leaf and Sheath Blight Resistance.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- QTL mapping and identification of linked markers for anthracnose fruit rot resistance inFrontiers in plant science · 2026Article
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- The Landscape of Integrated Domains of Angiosperm NLR Genes Reveals Continuous Architecture Evolution of Plant Intracellular Immune Receptors.Plants (Basel, Switzerland) · 2025Article
- Three Novel Genomes Broaden the Wild Side of thePlant direct · 2025Article
- Local gene duplications drive extensive NLR copy number variation across multiple genotypes of Theobroma cacao.G3 (Bethesda, Md.) · 2025Article
- Powdery Mildew Caused by Leveillula taurica (Synonym: Phyllactinia taurica): A Global Challenge for Pepper Production.Molecular plant pathology · 2025Review
- Epigenome profiling reveals distinctive regulatory features and cis-regulatory elements in pepper.Genome biology · 2025Article
- Chromosome-level genome assembly of Pontederia cordata L. provides insights into its rapid adaptation and variation of flower colours.DNA research : an international journal for rapid publication of reports on genes and genomes · 2025Article
- Phased T2T genome assemblies facilitate the mining of disease-resistance genes inHorticulture research · 2025Article
- Transposon proliferation drives genome architecture and regulatory evolution in wild and domesticated peppers.Nature plants · 2025Article
- Resistify: A Novel NLR Classifier That Reveals Helitron-Associated NLR Expansion in Solanaceae.Bioinformatics and biology insights · 2025Article
- The landscape of sequence variations between resistant and susceptible hot peppers to predict functional candidate genes against bacterial wilt disease.BMC plant biology · 2024Article
- Haplotype-resolved genome assembly and resequencing analysis provide insights into genome evolution and allelic imbalance in Pinus densiflora.Nature genetics · 2024Article
- NRC Immune receptor networks show diversified hierarchical genetic architecture across plant lineages.The Plant cell · 2024Article
83 more citing papers are in PubMed but not listed here.
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40 authors.
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Abstract
backgroundTransposable elements are major evolutionary forces which can cause new genome structure and species diversification. The role of transposable elements in the expansion of nucleotide-binding and leucine-rich-repeat proteins (NLRs), the major disease-resistance gene families, has been unexplored in plants.
resultsWe report two high-quality de novo genomes (Capsicum baccatum and C. chinense) and an improved reference genome (C. annuum) for peppers. Dynamic genome rearrangements involving translocations among chromosomes 3, 5, and 9 were detected in comparison between C. baccatum and the two other peppers. The amplification of athila LTR-retrotransposons, members of the gypsy superfamily, led to genome expansion in C. baccatum. In-depth genome-wide comparison of genes and repeats unveiled that the copy numbers of NLRs were greatly increased by LTR-retrotransposon-mediated retroduplication. Moreover, retroduplicated NLRs are abundant across the angiosperms and, in most cases, are lineage-specific.
conclusionsOur study reveals that retroduplication has played key roles for the massive emergence of NLR genes including functional disease-resistance genes in pepper plants.
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