期刊
ANNUAL REVIEW OF PLANT BIOLOGY, VOL 72, 2021
卷 72, 期 -, 页码 411-435出版社
ANNUAL REVIEWS
DOI: 10.1146/annurev-arplant-080720-105454
关键词
pan-genome; population genetics; structural variation; sequence graph; natural variation
资金
- Office of Science of the US DOE [DE-AC02-05CH11231]
A plant pan-genome is typically larger than the genome of any individual plant, with many genes present in only some genomes. Constructing and interpreting plant pan-genomes is challenging due to the large size and repetitive content of plant genomes. Focus is often on nontransposable element protein coding genes, but noncoding and repetitive DNA also play important roles in genome evolution and phenotype determination.
A pan-genome is the nonredundant collection of genes and/or DNA sequences in a species. Numerous studies have shown that plant pan-genomes are typically much larger than the genome of any individual and that a sizable fraction of the genes in any individual are present in only some genomes. The construction and interpretation of plant pan-genomes are challenging due to the large size and repetitive content of plant genomes. Most pan-genomes are largely focused on nontransposable element protein coding genes because they are more easily analyzed and defined than noncoding and repetitive sequences. Nevertheless, noncoding and repetitive DNA play important roles in determining the phenotype and genome evolution. Fortunately, it is now feasible to make multiple high-quality genomes that can be used to construct high-resolution pan-genomes that capture all the variation. However, assembling, displaying, and interacting with such high-resolution pan-genomes will require the development of new tools.
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