ArticleScientific reports2019
Development and Application of InDel Markers for Capsicum spp. Based on Whole-Genome Re-Sequencing.
Article in Scientific reports, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed.
- TP-ARMS: A Cost-Effective PCR-Based Genotyping System for Precision Breeding of Small InDels in Crops.International journal of molecular sciences · 2026Article
- Genome-Wide Identification and Functional Evolution of NLR Gene Family inCurrent issues in molecular biology · 2025Article
- InDel Markers for Identifying Interspecific Hybrid Offspring of Apple and Pear.Plants (Basel, Switzerland) · 2025Article
- Genome-Wide Identification and Characterization of SNPs and InDels ofPlants (Basel, Switzerland) · 2024Article
- Genetic Variation Study of Several Romanian Pepper (International journal of molecular sciences · 2024Article
- Comparative analysis of jujube and sour jujube gave insight into their difference in genetic diversity and suitable habitat.Frontiers in genetics · 2024Article
- Genetic diversity between local landraces and current breeding lines of pepper in China.Scientific reports · 2023Article
- Vegetable biology and breeding in the genomics era.Science China. Life sciences · 2023Review
- Genetic diversity analysis and development of molecular markers for the identification of largemouth bass (Frontiers in genetics · 2022Article
- Agarose-resolvable InDel markers based on whole genome re-sequencing in cucumber.Scientific reports · 2021Article
- Non-Ablative Chemotherapy Followed by HLA-Mismatched Allogeneic CD3Frontiers in oncology · 2021Article
- Application of genome-wide insertion/deletion markers on genetic structure analysis and identity signature of Malus accessions.BMC plant biology · 2020Article
- A cost-effective barcode system for maize genetic discrimination based on bi-allelic InDel markers.Plant methods · 2020Article
- Target sequencing reveals genetic diversity, population structure, core-SNP markers, and fruit shape-associated loci in pepper varieties.BMC plant biology · 2019Article
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Authors and funding
10 authors.
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Abstract
Genome-wide identification of Insertion/Deletion polymorphisms (InDels) in Capsicum spp. was performed through comparing whole-genome re-sequencing data from two Capsicum accessions, C. annuum cv. G29 and C. frutescens cv. PBC688, with the reference genome sequence of C. annuum cv. CM334. In total, we identified 1,664,770 InDels between CM334 and PBC688, 533,523 between CM334 and G29, and 1,651,856 between PBC688 and G29. From these InDels, 1605 markers of 3-49 bp in length difference between PBC688 and G29 were selected for experimental validation: 1262 (78.6%) showed polymorphisms, 90 (5.6%) failed to amplify, and 298 (18.6%) were monomorphic. For further validation of these InDels, 288 markers were screened across five accessions representing five domesticated species. Of these assayed markers, 194 (67.4%) were polymorphic, 87 (30.2%) monomorphic and 7 (2.4%) failed. We developed three interspecific InDels, which associated with three genes and showed specific amplification in five domesticated species and clearly differentiated the interspecific hybrids. Thus, our novel PCR-based InDel markers provide high application value in germplasm classification, genetic research and marker-assisted breeding in Capsicum species.
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