State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, 20 Nan Xin Cun, Beijing 100093, China.
University of Chinese Academy of Sciences, Beijing 100049, China.
Genes (Basel). 2023 Jul 8;14(7):1412. doi: 10.3390/genes14071412.
Asian rice ( L.) has become a model for understanding gene functions and domestication in recent decades; however, its own diversification is still controversial. Although the division of and and five subgroups (, (), (), , and ) are broadly accepted, how they are phylogenetically related is not transparent. To clarify their relationships, a sample of 121 diverse genes was chosen here from 12 genomes (two parental and ten ()) in parallel to allow gene genealogy-based mutation (GGM) analysis. From the sample, 361 mutations were shared by two or more subgroups (referred to here as mutations) from 549 mutations identified at 51 loci. The GGM analysis and related tests indicates that diverged from at a time significantly earlier than when split from . The results also indicate that was selected from hybrid progeny of and and that all five subgroups share a significant number of the early mutations identified previously. The results suggest that , , and emerged sequentially within the most recent 4-5 millennia of rice domestication after the split of and .
近几十年来，亚洲稻（ L.）已成为研究基因功能和驯化的模式生物；然而，其自身的多样化仍存在争议。尽管广泛接受将分为 和五个亚组（、（）、（）、 和 ），但它们在系统发育上的关系并不明确。为了阐明它们的关系，本研究从 12 个基因组（两个亲本和十个 （））中平行选择了 121 个不同的基因作为样本，以进行基于基因谱系的突变（GGM）分析。从样本中，在 51 个基因座鉴定的 549 个突变中，有 361 个突变被两个或更多的亚组共享（这里称为 突变）。GGM 分析和相关测试表明， 与 相比，分化的时间明显早于 从 中分化出来的时间。结果还表明， 是从 和 的杂交后代中选择出来的，并且所有五个亚组都共享先前鉴定出的大量早期突变。结果表明，在 和 分离后，水稻驯化的最近 4-5 千年内， 、 和 依次出现。
