Journal article
Improved pea reference genome and pan-genome highlight genomic features and evolutionary characteristics
Nature Genetics, Vol.54(10), pp.1553-1563
2022
Abstract
Complete and accurate reference genomes and annotations provide fundamental resources for functional genomics and crop breeding. Here we report a de novo assembly and annotation of a pea cultivar ZW6 with contig N50 of 8.98 Mb, which features a 243-fold increase in contig length and evident improvements in the continuity and quality of sequence in complex repeat regions compared with the existing one. Genome diversity of 118 cultivated and wild pea demonstrated that Pisum abyssinicum is a separate species different from P. fulvum and P. sativum within Pisum. Quantitative trait locus analyses uncovered two known Mendel’s genes related to stem length (Le/le) and seed shape (R/r) as well as some candidate genes for pod form studied by Mendel. A pan-genome of 116 pea accessions was constructed, and pan-genes preferred in P. abyssinicum and P. fulvum showed distinct functional enrichment, indicating the potential value of them as pea breeding resources in the future.
Details
- Title
- Improved pea reference genome and pan-genome highlight genomic features and evolutionary characteristics
- Authors/Creators
- T. Yang (Author/Creator) - Chinese Academy of Agricultural SciencesR. Liu (Author/Creator)Y. Luo (Author/Creator)S. Hu (Author/Creator)D. Wang (Author/Creator)C. Wang (Author/Creator)M.K. Pandey (Author/Creator)S. Ge (Author/Creator)Q. Xu (Author/Creator)N. Li (Author/Creator)G. Li (Author/Creator)Y. Huang (Author/Creator)R.K. Saxena (Author/Creator)Y. Ji (Author/Creator)M. Li (Author/Creator)X. Yan (Author/Creator)Y. He (Author/Creator)Y. Liu (Author/Creator)X. Wang (Author/Creator)C. Xiang (Author/Creator)R.K. Varshney (Author/Creator)H. Ding (Author/Creator)S. Gao (Author/Creator)X. Zong (Author/Creator)
- Publication Details
- Nature Genetics, Vol.54(10), pp.1553-1563
- Publisher
- Nature Publishing Group
- Identifiers
- 991005540857807891
- Murdoch Affiliation
- Centre for Crop and Food Innovation; State Agricultural Biotechnology Centre
- Language
- English
- Resource Type
- Journal article
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- Collaboration types
- Domestic collaboration
- International collaboration
- Citation topics
- 3 Agriculture, Environment & Ecology
- 3.4 Crop Science
- 3.4.96 QTL
- Web Of Science research areas
- Genetics & Heredity
- ESI research areas
- Molecular Biology & Genetics