Construction of a high-density linkage map and QTL detection of growth and sex in blotched snakehead (Channa maculata)
Construction of a high-density linkage map and QTL detection of growth and sex in blotched snakehead (Channa maculata)
复制标题
斑鳢高密度连锁图谱构建及生长性别QTL检测
DOI：
10.1016/j.aquaculture.2021.736541
复制
发表时间：
2021-02
期刊：
影响因子：
4.5
通讯作者：
Zhao Jian
中科院分区：
文献类型：
--
作者：
LiuHaiyang;Chen Kunci;Luo Qing;Ou Mi;Liu Lan;Gao D;an;Wu Y;uo;Zhu Xinping;Zhao Jian
高密度遗传连锁图谱广泛应用于家畜的数量性状位点（QTL）定位、性状相关基因鉴定、标记辅助选择、基因组组装和比较基因组分析。斑鳢是我国及东南亚重要的水产养殖品种，但由于缺乏基因组信息，遗传改良一直滞后。本研究利用2b-RAD测序技术首次构建了斑鳢的高密度遗传连锁图谱。共有图谱由6352个单核苷酸多态性（SNP）标记组成，分布于21个连锁群（LGs），平均标记间距为0.34 cM，总长度为2143.7 cM。比较基因组分析表明，斑点黑鱼的长链与青鳉、欧洲鲈鱼和北方黑鱼的染色体之间存在1：1和1：2的同线关系。在3个长粒群体中共检测到9个与体重相关的染色体QTL，解释表型变异的9.8%~ 11.9%。推测的候选基因的生长速度，如骨形态发生蛋白6（BMP 6），被确定为邻近的QTL。在LG 2中发现了一个与性别紧密连锁的主基因座，解释了98.8-100%的表型变异，其中4个标记在雄性中为异配型，在雌性中为同配型。验证了位于性别QTL区域的一个性别特异性SNP标记，可用于斑点鳢性别的实际验证。这些结果表明，LG 2可能是斑鳢的一条性别相关染色体，也可能是斑鳢的一个XX/XY染色体性别决定系统。高密度连锁图谱和QTL定位为斑鳢基因组进化研究、经济性状QTL精细定位和性别控制育种提供了基础。
High-density genetic linkage maps are comprehensively used in quantitative trait loci (QTLs) mapping, trait-related genes identification, marker-assisted selection, genome assembly and comparative genomic analysis in domestic species. The blotched snakehead (Channamaculata) is an important aquaculture species in China and Southeast Asia, but the genetic improvement was lagged by lacking of genomic information. In this study, the first high-density genetic linkage map was constructed for blotched snakehead using 2b-RAD sequencing technology. The consensus map consists of 6352 single nucleotide polymorphism (SNP) markers that are assigned to 21 linkage groups (LGs) and spanning 2143.7 cM with an average marker interval of 0.34 cM. Comparative genomic analysis revealed 1:1 and/or 1:2 syntenic relationships between blotched snakehead LGs and chromosomes of medaka, European seabass and northern snakehead separately. Nine chromosome-wide QTLs associated with body weight were identified in three LGs, explaining 9.8–11.9% of the phenotypic variation. Putative candidate genes for growth rate, such as bone morphogenetic protein 6 (BMP 6), were identified adjacent to the QTLs. A single major locus tightly linked to sex was identified in LG2 that explained 98.8–100% of the phenotypic variation.Four markers within the sex-linked locus were found to be heterogametic in males and homogametic in females. One sex-specific SNP marker located in the sex QTL region was validated for practical verification of sex in blotched snakehead. Those results suggest that the LG2 may be a sex-related chromosome in blotched snakehead and an XX/XY chromosomal sex determination system in this species. The high-density linkage map and QTLs supply a basis for genome evolutionary studies, QTL fine mapping of economic traits and sex-control breeding in blotched snakehead.
登录
查看更多内容
RADtyping：用于在人群作图中准确进行 De Novo 共显性和显性 RAD 基因分型的集成包
影响因子：
3.7
作者：
Fu X;Dou J;Mao J;Su H;Jiao W;Zhang L;Hu X;Huang X;Wang S;Bao Z
通讯作者：
Bao Z
影响因子：
3.3
作者：
A. Chakravarti;Laura K. Lasher;Jillian E. Reefer
通讯作者：
A. Chakravarti;Laura K. Lasher;Jillian E. Reefer
影响因子：
3.7
作者：
Joshi R;Árnyasi M;Lien S;Gjøen HM;Alvarez AT;Kent M
通讯作者：
Kent M
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：
4.4
作者：
Lin K;Zhang N;Severing EI;Nijveen H;Cheng F;Visser RG;Wang X;de Ridder D;Bonnema G
通讯作者：
Bonnema G