Genomic interrogation of a MAGIC population highlights genetic factors controlling fiber quality traits in cotton.
Genomic interrogation of a MAGIC population highlights genetic factors controlling fiber quality traits in cotton.
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DOI：
10.1038/s42003-022-03022-7
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发表时间：
2022-01-17
影响因子：
5.9
通讯作者：
Fang DD
中科院分区：
文献类型：
--
作者：
Wang M;Qi Z;Thyssen GN;Naoumkina M;Jenkins JN;McCarty JC;Xiao Y;Li J;Zhang X;Fang DD
棉花（Gossypium hirsutum L.）纤维是纺织工业最重要的天然和可再生纤维资源。然而，对控制纤维品质的遗传组分及其全基因组相互作用的理解仍然是零碎的。在这里，我们测序了一个多亲本的先进的世代间杂交（MAGIC）的人口，由550个个体之间的交叉创建11个创始人，并建立了镶嵌基因组图谱，通过追踪的单倍型的起源，共享身份的血统（IBD）。我们进行了两种互补的GWAS方法-基于SNP的GWAS（sGWAS）和基于IBD的单倍型GWAS（hGWAS）。共检测到25个与棉纤维品质相关的sQTL和14个hQTL，其中26个为新QTL。两种GWAS方法均检测到两个主效QTL，分别与纤维强度和纤维长度有关。编码MATE外排家族蛋白的基因Ghir_D11G020400（GhZF 14）被鉴定为一个新的纤维长度候选基因。除了加性QTL，我们发现普遍的上位性相互作用，有助于纤维品质的遗传，精确定位另一层的性状变异。本研究为今后上级纤维品质的分子设计育种提供了新的目标。Wang及其同事使用互补的GWAS方法来鉴定与棉花纤维品质相关的遗传位点。利用多亲本高代间杂交群体，共检测到26个与棉花纤维品质相关的新QTL。
Cotton (Gossypium hirsutum L.) fiber is the most important resource of natural and renewable fiber for the textile industry. However, the understanding of genetic components and their genome-wide interactions controlling fiber quality remains fragmentary. Here, we sequenced a multiple-parent advanced-generation inter-cross (MAGIC) population, consisting of 550 individuals created by inter-crossing 11 founders, and established a mosaic genome map through tracing the origin of haplotypes that share identity-by-descent (IBD). We performed two complementary GWAS methods—SNP-based GWAS (sGWAS) and IBD-based haplotype GWAS (hGWAS). A total of 25 sQTLs and 14 hQTLs related to cotton fiber quality were identified, of which 26 were novel QTLs. Two major QTLs detected by both GWAS methods were responsible for fiber strength and length. The gene Ghir_D11G020400 (GhZF14) encoding the MATE efflux family protein was identified as a novel candidate gene for fiber length. Beyond the additive QTLs, we detected prevalent epistatic interactions that contributed to the genetics of fiber quality, pinpointing another layer for trait variance. This study provides new targets for future molecular design breeding of superior fiber quality. Wang and colleagues use a complementary GWAS approach to identify genetic loci associated with cotton fiber quality. Using a multiparent advanced-generation inter-cross population, 26 new QTLs related to cotton fiber quality were found.
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影响因子：
13.8
作者：
Huang C;Nie X;Shen C;You C;Li W;Zhao W;Zhang X;Lin Z
通讯作者：
Lin Z
影响因子：
4.4
作者：
Fang DD;Jenkins JN;Deng DD;McCarty JC;Li P;Wu J
通讯作者：
Wu J
DOI：
10.1186/1939-8433-6-11
发表时间：
2013-05-06
期刊：
Rice (New York, N.Y.)
影响因子：
--
作者：
Bandillo N;Raghavan C;Muyco PA;Sevilla MA;Lobina IT;Dilla-Ermita CJ;Tung CW;McCouch S;Thomson M;Mauleon R;Singh RK;Gregorio G;Redoña E;Leung H
通讯作者：
Leung H
影响因子：
30.8
作者：
Jiao, Yinping;Zhao, Hainan;Lai, Jinsheng
通讯作者：
Lai, Jinsheng
影响因子：
4.4
作者：
Islam MS;Thyssen GN;Jenkins JN;Zeng L;Delhom CD;McCarty JC;Deng DD;Hinchliffe DJ;Jones DC;Fang DD
通讯作者：
Fang DD