School of Minerals Processing and Bioengineering, Central South University, Changsha 410083, China; Department of Biological and Environmental Engineering, Changsha University, Changsha, 410003, China.
School of Minerals Processing and Bioengineering, Central South University, Changsha 410083, China.
Fish Shellfish Immunol. 2017 Jul;66:390-397. doi: 10.1016/j.fsi.2017.05.011. Epub 2017 May 4.
Danio fishes, a small type animal with short sexual cycles, are model vertebrate species. To investigate the genic evolution of this genus, the transcriptomes from Danio choprae and Danio albolineatus were sequenced by Illumina HiSeq 4000 platform. A total of 128,427,304 sequence reads from two Danio fishes were generated by Next Generation Sequencing. The resulting in two assemblies contained 88,682 and 88,029 unigenes in the Danio choprae and Danio albolineatus. Analysis of the orthologs from the Danio choprae and Danio albolineatus provided consistent evidence for the accelerated genic evolution in the Danio fishes. Several genes referring to immune functions under positive selection were identified by branch site model analysis, such as REL, GTF2E1, STAT6, MPG in Danio choprae and CYP17A1, ADORA2A, MYCN in Danio albolineatus. Our data provide novel insights into the adaptation in Danio fishes and is useful for understanding the genetic basis of adaptation in zebrafish.
斑马鱼是一种性周期短的小型动物，是一种典型的脊椎动物模式物种。为了研究该属的基因进化，我们利用 Illumina HiSeq 4000 平台对 Danio choprae 和 Danio albolineatus 的转录组进行了测序。通过新一代测序技术，从两种斑马鱼中共产生了 128427304 条序列读段。两个组装物在 Danio choprae 和 Danio albolineatus 中分别包含 88682 和 88029 个基因。Danio choprae 和 Danio albolineatus 的直系同源分析为斑马鱼中的基因进化提供了一致的证据。通过分支位点模型分析，鉴定出了几个受到正选择的免疫功能相关基因，如 Danio choprae 中的 REL、GTF2E1、STAT6 和 MPG，以及 Danio albolineatus 中的 CYP17A1、ADORA2A 和 MYCN。我们的数据为斑马鱼的适应提供了新的见解，有助于理解斑马鱼适应的遗传基础。
