Female-specific genomic regions and molecular sex identification of the clearhead icefish (Protosalanx hyalocranius).
Female-specific genomic regions and molecular sex identification of the clearhead icefish (Protosalanx hyalocranius).
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透明头冰鱼（Protosalanx hyalocranius）的雌性特异性基因组区域和分子性别鉴定
DOI：
10.1186/s12864-021-07830-9
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发表时间：
2021-07-02
期刊：
影响因子：
4.4
通讯作者：
Liu JX
中科院分区：
文献类型：
--
作者：
Xing TF;Li YL;Liu JX
清头银鱼是中国地区重要的经济鱼类。自20世纪80年代以来，在中国北部的湖泊和水库中广泛引种透明对虾进行水产养殖。然而，缺乏一种基于性别特异遗传标记的快速、经济的性别鉴定方法，阻碍了性别决定机制的研究和育种应用。通过比较雄性和雌性的全基因组重测序数据，发现了雌性特有的基因组区域。确定了两个大于50kb的雌性特异基因组区域，其中一个(598hp)包含一个可能的foxi基因，该基因与另一个带有性别相关SNPs的foxi基因平行。这两个Foxi序列显示出明显的长度差异，总长度为230bp，有9个缺失。用传统的聚合酶链式反应和琼脂糖凝胶电泳法可以方便、有效地检测到这种缺失型结构变异，男性有一条569碱基的条带，女性有两条带(569和339碱基)，并在50名女性和40名男性的表型已知的性别中得到验证。这些结果为我们在前期研究中发现的透明对虾ZZ/ZW性别决定系统提供了结构基因组证据，并对SNPs进行了关联分析。此外，雌性特异标记和基于PCR的快速、经济的遗传性别鉴定方法将在该物种性别决定机制的进一步研究中得到应用。网上版载有补充材料，可在10.1186/s12864-021-07830-9查阅。
The clearhead icefish, Protosalanx hyalocranius, is an economically important fishery species in China. Since 1980s, P. hyalocranius was widely introduced into lakes and reservoirs of northern China for aquaculture. However, the lack of a rapid and cost-effective sex identification method based on sex specific genetic markers has hindered study on sex determination mechanisms and breeding applications. Female-specific genomic regions were discovered by comparing whole genome re-sequencing data of both males and females. Two female-specific genomic regions larger than 50 bp were identified, and one (598 bp) contained a putative FOXI gene, which was paralogous to another FOXI gene with sex-associated SNPs. The two FOXI sequences displayed significant length difference with nine deletions of total length of 230 bp. This deletion-type structural variation could be easily and efficiently detected by traditional PCR and agarose gel electrophoresis with one 569 bp band for males and two bands (569 and 339 bp) for females, which were validated in 50 females and 40 males with known phenotypic sexes. The results provided structural genomic evidence for the ZZ/ZW sex determination system in P. hyalocranius discovered in our previous study with association analysis of SNPs. Moreover, the female-specific markers and rapid and cost-effective PCR-based genetic sex identification method should have applications in further studies of sex determination mechanism for this species. The online version contains supplementary material available at 10.1186/s12864-021-07830-9.
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影响因子：
3.7
作者：
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