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Comparative analysis of de novo genomes reveals dynamic intra-species divergence of NLRs in pepper
DC Field | Value | Language |
---|---|---|
dc.contributor.author | Kim, Myung-Shin | - |
dc.contributor.author | Chae, Geun Young | - |
dc.contributor.author | Oh, Soohyun | - |
dc.contributor.author | Kim, Jihyun | - |
dc.contributor.author | Mang, Hyunggon | - |
dc.contributor.author | Kim, Seungill | - |
dc.contributor.author | Choi, Doil | - |
dc.date.accessioned | 2021-08-11T02:32:33Z | - |
dc.date.available | 2021-08-11T11:35:32Z | - |
dc.date.issued | 2021-05-31 | - |
dc.identifier.citation | BMC Plant Biology. 2021 May 31;21(1):247 | ko_KR |
dc.identifier.issn | 1471-2229 | - |
dc.identifier.uri | https://hdl.handle.net/10371/174779 | - |
dc.description.abstract | Background
Peppers (Capsicum annuum L.) containing distinct capsaicinoids are the most widely cultivated spices in the world. However, extreme genomic diversity among species represents an obstacle to breeding pepper. Results Here, we report de novo genome assemblies of Capsicum annuum Early Calwonder (non-pungent, ECW) and Small Fruit (pungent, SF) along with their annotations. In total, we assembled 2.9Gb of ECW and SF genome sequences, representing over 91% of the estimated genome sizes. Structural and functional annotation of the two pepper genomes generated about 35,000 protein-coding genes each, of which 93% were assigned putative functions. Comparison between newly and publicly available pepper gene annotations revealed both shared and specific gene content. In addition, a comprehensive analysis of nucleotide-binding and leucine-rich repeat (NLR) genes through whole-genome alignment identified five significant regions of NLR copy number variation (CNV). Detailed comparisons of those regions revealed that these CNVs were generated by intra-specific genomic variations that accelerated diversification of NLRs among peppers. Conclusions Our analyses unveil an evolutionary mechanism responsible for generating CNVs of NLRs among pepper accessions, and provide novel genomic resources for functional genomics and molecular breeding of disease resistance in Capsicum species. | ko_KR |
dc.description.sponsorship | This study was supported by a grant from the Agricultural Genome Center of the Next Generation BioGreen 21 Program of RDA (Project No. PJ013153) and the National Research Foundation of Korea (NRF) grant funded by the Korean government (No. 2018R1A5A1023599 [SRC]) to D.C., and by the 2020 Research Fund of the University of Seoul to S.K. Theses funding bodies had no role in the study design, data collection, analysis, and preparation of the manuscript. | ko_KR |
dc.language.iso | en | ko_KR |
dc.publisher | BMC | ko_KR |
dc.subject | Hot pepper | - |
dc.subject | Genome | - |
dc.subject | Disease resistance | - |
dc.subject | NLR evolution | - |
dc.subject | Copy number variation | - |
dc.title | Comparative analysis of de novo genomes reveals dynamic intra-species divergence of NLRs in pepper | ko_KR |
dc.type | Article | ko_KR |
dc.contributor.AlternativeAuthor | 김명신 | - |
dc.contributor.AlternativeAuthor | 채근영 | - |
dc.contributor.AlternativeAuthor | 오수현 | - |
dc.contributor.AlternativeAuthor | 김지현 | - |
dc.contributor.AlternativeAuthor | 맹형곤 | - |
dc.contributor.AlternativeAuthor | 김승일 | - |
dc.contributor.AlternativeAuthor | 최도일 | - |
dc.identifier.doi | 10.1186/s12870-021-03057-8 | - |
dc.citation.journaltitle | BMC Plant Biology | ko_KR |
dc.language.rfc3066 | en | - |
dc.rights.holder | The Author(s) | - |
dc.date.updated | 2021-06-06T03:12:02Z | - |
dc.citation.number | 1 | ko_KR |
dc.citation.startpage | 247 | ko_KR |
dc.citation.volume | 21 | ko_KR |
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