Genomic signatures and candidate genes of lint yield and fibre quality improvement in Upland cotton in Xinjiang.
Genomic signatures and candidate genes of lint yield and fibre quality improvement in Upland cotton in Xinjiang.
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新疆陆地棉皮棉产量和纤维品质改良的基因组特征及候选基因
DOI：
10.1111/pbi.13356
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发表时间：
2020-10
影响因子：
13.8
通讯作者：
Zhang T
中科院分区：
文献类型：
--
作者：
Han Z;Hu Y;Tian Q;Cao Y;Si A;Si Z;Zang Y;Xu C;Shen W;Dai F;Liu X;Fang L;Chen H;Zhang T
新疆是我国乃至世界上最大、最高产的棉花产区。新疆高地棉花品种的改良是通过系谱选择和/或来自前苏联和中国其他产棉区的优良等位基因的杂交进行的。但目前尚不清楚基础父母的基因组构成是如何被选择和遗传的。在这里，我们对七个历史基础亲本进行了深度测序，包括四个从前苏联引进的品种（108 nanoes，C1470，611 nanoes和KK 1543）和三个来自美国和非洲的品种（DPL 15，STV 2B和UGDM），并对69个新疆现代品种进行了重新测序。对200多万个高质量单核苷酸多态性的系统发育分析将其分为两大类，表明新疆高地棉品种不仅起源于108号、C1470、611号和KK 1543，而且与DPL 15、STV 2B和UGDM有较近的亲缘关系。值得注意的是，血统同一性（IBD）追踪表明，前苏联品种为新疆现代品种改良做出了巨大贡献。总共确定了156次选择性扫描。其中，凋亡拮抗转录因子基因（GhAATF 1）和线粒体转录终止因子家族蛋白基因（GhmTERF 1）与衣分的决定密切相关。此外，生长素反应因子基因（GhARF 3）位于108和611 IBD遗传片段与纤维品质高度相关。这些结果为人工选择的基因组学提供了深入的见解，以提高棉花产量，并促进棉花和其他作物的下一代精确育种。
Xinjiang has been the largest and highest yield cotton production region not only in China, but also in the world. Improvements in Upland cotton cultivars in Xinjiang have occurred via pedigree selection and/or crossing of elite alleles from the former Soviet Union and other cotton producing regions of China. But it is unclear how genomic constitutions from foundation parents have been selected and inherited. Here, we deep‐sequenced seven historic foundation parents, comprising four cultivars introduced from the former Soviet Union (108Ф, C1470, 611Б and KK1543) and three from United States and Africa (DPL15, STV2B and UGDM), and re‐sequenced sixty‐nine Xinjiang modern cultivars. Phylogenetic analysis of more than 2 million high‐quality single nucleotide polymorphisms allowed their classification two groups, suggesting that Xinjiang Upland cotton cultivars were not only spawned from 108Ф, C1470, 611Б and KK1543, but also had a close kinship with DPL15, STV2B and UGDM. Notably, identity‐by‐descent (IBD) tracking demonstrated that the former Soviet Union cultivars have made a huge contribution to modern cultivar improvement in Xinjiang. A total of 156 selective sweeps were identified. Among them, apoptosis‐antagonizing transcription factor gene (GhAATF1) and mitochondrial transcription termination factor family protein gene (GhmTERF1) were highly involved in the determination of lint percentage. Additionally, the auxin response factor gene (GhARF3) located in inherited IBD segments from 108Ф and 611Б was highly correlated with fibre quality. These results provide an insight into the genomics of artificial selection for improving cotton production and facilitate next‐generation precision breeding of cotton and other crops.
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影响因子：
4.6
作者：
Chen S;Lin Z;Zhou D;Wang C;Li H;Yu R;Deng H;Tang X;Zhou S;Wang Deng X;He H
通讯作者：
He H
影响因子：
7.2
作者：
Meskauskiene, Rasa;Wuersch, Marco;Apel, Klaus
通讯作者：
Apel, Klaus
影响因子：
30.8
作者：
Jiao, Yinping;Zhao, Hainan;Lai, Jinsheng
通讯作者：
Lai, Jinsheng
树突镜：大型系统发育树的互动观众。
影响因子：
3
作者：
Huson, Daniel H.;Richter, Daniel C.;Rausch, Christian;Dezulian, Tobias;Franz, Markus;Rupp, Regula
通讯作者：
Rupp, Regula
影响因子：
30.8
作者：
Hu, Yan;Chen, Jiedan;Zhang, Tianzhen
通讯作者：
Zhang, Tianzhen