A High-Density Genetic Map Enables Genome Synteny and QTL Mapping of Vegetative Growth and Leaf Traits in Gardenia.
A High-Density Genetic Map Enables Genome Synteny and QTL Mapping of Vegetative Growth and Leaf Traits in Gardenia.
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DOI：
10.3389/fgene.2021.802738
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发表时间：
2021
影响因子：
3.7
通讯作者：
Wang X
中科院分区：
文献类型：
--
作者：
Cui Y;Fan B;Xu X;Sheng S;Xu Y;Wang X
栀子是我国传统的药用园艺植物，但其分子遗传学研究一直很滞后。在这里，我们构建了一个F1群体与200个真正的杂交个体。使用基因分型测序方法，高密度的性别平均遗传图谱，包含4,249个SNPs的总长度为1956.28 cM和平均遗传距离为0.46 cM。我们开发了17个基于SNP的竞争性等位基因特异性PCR标记，发现15个SNP被成功分型，其中13个单核苷酸多态性基因型的96个F1个体显示与GBS挖掘的基因型一致。对栀子与茜草科植物小粒咖啡（Coffea arabica）、中粒咖啡（Coffea canephora）和矮蛇根草（Ophiorrhiza pumila）的基因组共线性分析表明，LG 11分别与NC_039，919.1、HG 974438.1和Bliw01000011.1具有较强的保守性。最后，通过2019、2020和2021年3个时间点的QTL分析，共检测到18个生长相关性状的QTL和31个叶片相关性状的QTL，其中qBSBN 7 -1、qCD 8和qLNP 2 -1可重复检测。另外还观察到5个具有潜在多效性的QTL区域（qCD 8和qSBD 8、qBSBN 7和qSI 7、qCD 4 -1和qLLLS 4、qLNP 10和qSLWS 10 -2、qSBD 10和qLLLS 10）。本研究为栀子早期生长发育性状的分子遗传学研究提供了新的思路，为进一步的基因克隆和分子标记辅助选择奠定了基础。
The gardenia is a traditional medicinal horticultural plant in China, but its molecular genetic research has been largely hysteretic. Here, we constructed an F1 population with 200 true hybrid individuals. Using the genotyping-by-sequencing method, a high-density sex-average genetic map was generated that contained 4,249 SNPs with a total length of 1956.28 cM and an average genetic distance of 0.46 cM. We developed 17 SNP-based Kompetitive Allele-Specific PCR markers and found that 15 SNPs were successfully genotyped, of which 13 single-nucleotide polymorphism genotypings of 96 F1 individuals showed genotypes consistent with GBS-mined genotypes. A genomic collinearity analysis between gardenia and the Rubiaceae species Coffea arabica, Coffea canephora and Ophiorrhiza pumila showed the relativity strong conservation of LG11 with NC_039,919.1, HG974438.1 and Bliw01000011.1, respectively. Lastly, a quantitative trait loci analysis at three phenotyping time points (2019, 2020, and 2021) yielded 18 QTLs for growth-related traits and 31 QTLs for leaf-related traits, of which qBSBN7-1, qCD8 and qLNP2-1 could be repeatably detected. Five QTL regions (qCD8 and qSBD8, qBSBN7 and qSI7, qCD4-1 and qLLLS4, qLNP10 and qSLWS10-2, qSBD10 and qLLLS10) with potential pleiotropic effects were also observed. This study provides novel insight into molecular genetic research and could be helpful for further gene cloning and marker-assisted selection for early growth and development traits in the gardenia.
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影响因子：
4.4
作者：
Berlin S;Lagercrantz U;von Arnold S;Ost T;Rönnberg-Wästljung AC
通讯作者：
Rönnberg-Wästljung AC
影响因子：
3.7
作者：
Baird NA;Etter PD;Atwood TS;Currey MC;Shiver AL;Lewis ZA;Selker EU;Cresko WA;Johnson EA
通讯作者：
Johnson EA
影响因子：
5.6
作者：
Ji F;Wei W;Liu Y;Wang G;Zhang Q;Xing Y;Zhang S;Liu Z;Cao Q;Qin L
通讯作者：
Qin L
影响因子：
2.4
作者：
Hanley, S. J.;Mallott, M. D.;Karp, A.
通讯作者：
Karp, A.
影响因子：
1.6
作者：
Deng, Shao-yong;Wang, Xian-rong;Yang, Chun-xia
通讯作者：
Yang, Chun-xia