Zhu ZhiMing, Miao ZhongWei, Chen HongPing, Xin QingWu, Li Li, Lin RuLong, Huang QinLou, Zheng NenZhu
Institute of Animal Husbandry and Veterinary Medicine, Fujian Academy of Agricultural Sciences, Fuzhou 350013, China.
Longyan Original Breeder's Farm of Shan Ma Duck, LongYan 364000, China.
Asian-Australas J Anim Sci. 2017 Sep;30(9):1215-1224. doi: 10.5713/ajas.16.0470. Epub 2016 Dec 27.
To assess the differences in ovarian transcriptomes in Shan Ma ducks between their peak and late stages of egg production, and to obtain new transcriptomic data of these egg-producing ducks.
The Illumina HiSeq 2000 system was used for high throughput sequencing of ovarian transcriptomes from Shan Ma ducks at their peak or late stages of egg production.
Greater than 93% of the sequencing data had a base quality score (Q score) that was not less than 20 (Q20). From ducks at their peak stage of egg production, 42,782,676 reads were obtained, with 4,307,499,083 bp sequenced. From ducks at their late stage of egg production, 45,316,166 reads were obtained, with 4,562,063,363 bp sequenced. A comparison of the two datasets identified 2,002 differentially expressed genes, with 790 upregulated and 1,212 downregulated. Further analysis showed that 1,645 of the 2,002 differentially expressed genes were annotated in the non-redundant (NR) database, with 646 upregulated and 999 downregulated. Among the differentially expressed genes with annotations in the NR database, 696 genes were functionally annotated in the clusters of orthologous groups of proteins database, involving 25 functional categories. One thousand two hundred four of the differentially expressed genes with annotations in the NR database were functionally annotated in the gene ontology (GO) database, and could be divided into three domains and 56 categories. The three domains were cellular component, molecular function, and biological process. Among the genes identified in the GO database, 451 are involved in development and reproduction. Analysis of the differentially expressed genes with annotations in the NR database against the Kyoto encyclopedia of genes and genomes database revealed that 446 of the genes could be assigned to 175 metabolic pathways, of which the peroxisome proliferator-activated receptor signaling pathway, insulin signaling pathway, fructose and mannose metabolic pathways, gonadotropin releasing hormone signaling pathway and transforming growth factor beta signaling pathway were significantly enriched.
The differences in ovarian transcriptomes in Shan Ma ducks between their peak and late stages of egg production were elucidated, which greatly enriched the ovarian transcriptomic information of egg-producing ducks.
评估山麻鸭产蛋高峰期与产蛋后期卵巢转录组的差异，获取产蛋鸭新的转录组数据。
运用Illumina HiSeq 2000系统对处于产蛋高峰期或后期的山麻鸭卵巢转录组进行高通量测序。
超过93%的测序数据碱基质量得分（Q值）不低于20（Q20）。产蛋高峰期的鸭子获得42,782,676条 reads，测序长度为4,307,499,083 bp；产蛋后期的鸭子获得45,316,166条 reads，测序长度为4,562,063,363 bp。对两个数据集进行比较，鉴定出2,002个差异表达基因，其中790个上调，1,212个下调。进一步分析表明，2,002个差异表达基因中的1,645个在非冗余（NR）数据库中得到注释，其中646个上调，999个下调。在NR数据库中有注释的差异表达基因中，696个基因在蛋白质直系同源簇数据库中得到功能注释，涉及25个功能类别。在NR数据库中有注释的差异表达基因中的1,two hundred four个在基因本体（GO）数据库中得到功能注释，可分为三个领域和56个类别。这三个领域是细胞成分、分子功能和生物过程。在GO数据库中鉴定出的基因中，451个参与发育和繁殖。对在NR数据库中有注释的差异表达基因与京都基因与基因组百科全书数据库进行分析，发现其中446个基因可归入175条代谢途径，其中过氧化物酶体增殖物激活受体信号通路、胰岛素信号通路、果糖和甘露糖代谢途径、促性腺激素释放激素信号通路和转化生长因子β信号通路显著富集。
阐明了山麻鸭产蛋高峰期与产蛋后期卵巢转录组的差异，极大地丰富了产蛋鸭的卵巢转录组信息。
