Lu Jianguo, Luan Peixian, Zhang Xiaofeng, Xue Shuqun, Peng Lina, Mahbooband Shahid, Sun Xiaowen
Heilongjiang River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Harbin, Peoples Republic of China; School of Computer Science and Technology, Harbin Institute of Technology, Harbin, China; National and Local United Engineering Lab for Freshwater Fish Breeding, Harbin, Peoples Republic of China;
Heilongjiang River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Harbin, Peoples Republic of China; National and Local United Engineering Lab for Freshwater Fish Breeding, Harbin, Peoples Republic of China;
Physiol Genomics. 2014 Nov 1;46(21):798-807. doi: 10.1152/physiolgenomics.00088.2014. Epub 2014 Sep 2.
Yellow catfish (Pelteobagrus fulvidraco) has been recognized as a vital freshwater aquaculture species in East and Southeast Asia. In addition to its commercial interest, it is also attracted much attention because of its value in studying sex-determination mechanisms. A comprehensive gonadal transcriptome analysis is believed to provide a resource for genome annotation, candidate gene identification, and molecular marker development. Herein, we performed a de novo assembly of yellow catfish gonad transcriptome by high-throughput Illumina sequencing. A total of 82,123 contigs were obtained, ranging from 351 to 21,268 bp, and N50 of 2,329 bp. Unigenes of 21,869 in total were identified. Of these, 229 and 1,188 genes were found to be specifically expressed in XY gonad tissue for 1 yr and 2 yr old yellow catfish, respectively; correspondingly, 51 and 40 genes were identified in XX gonad tissue at those two stages. Gene ontology and KEGG analysis were conducted and classified all contigs into different categories. A large number of unigenes involved in sex determination were identified, as well as microsatellites and SNP variants. The expression patterns of sex-related genes were then validated by quantitative real-time PCR (qRT-PCR) suggesting the high reliability of RNA-Seq results. In this study, the transcriptome of yellow catfish gonad was first sequenced, assembled, and characterized; it provides a valuable genomic resource for better understanding of yellow catfish sex determination as well as development of molecular markers, thereby assisting in the production of monosex yellow catfish for aquaculture.
黄颡鱼（Pelteobagrus fulvidraco）已被公认为东亚和东南亚重要的淡水养殖品种。除了其商业价值外，它还因其在研究性别决定机制方面的价值而备受关注。全面的性腺转录组分析被认为可为基因组注释、候选基因鉴定和分子标记开发提供资源。在此，我们通过高通量Illumina测序对黄颡鱼性腺转录组进行了从头组装。共获得82,123个重叠群，长度从351到21,268 bp不等，N50为2,329 bp。总共鉴定出21,869个单基因。其中，分别在1龄和2龄黄颡鱼的XY性腺组织中发现229个和1,188个基因特异性表达；相应地，在这两个阶段的XX性腺组织中分别鉴定出51个和40个基因。进行了基因本体论和KEGG分析，并将所有重叠群分类到不同类别中。鉴定出大量参与性别决定的单基因，以及微卫星和SNP变体。然后通过定量实时PCR（qRT-PCR）验证了性别相关基因的表达模式，表明RNA-Seq结果具有高度可靠性。在本研究中，首次对黄颡鱼性腺转录组进行了测序、组装和表征；它为更好地理解黄颡鱼性别决定以及分子标记开发提供了宝贵的基因组资源，从而有助于水产养殖中单性黄颡鱼的生产。
