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RNA-Seq analysis of yak ovary: improving yak gene structure information and mining reproduction-related genes

机译：牦牛卵巢的RNA-SEQ分析：改善牦牛基因结构信息和采矿生殖相关基因

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RNA-Seq, a high-throughput (HT) sequencing technique, has been used effectively in large-scale transcriptomic studies, and is particularly useful for improving gene structure information and mining of new genes. In this study, RNA-Seq HT technology was employed to analyze the transcriptome of yak ovary. After Illumina-Solexa deep sequencing, 26826516 clean reads with a total of 4828772880 bp were obtained from the ovary library. Alignment analysis showed that 16992 yak genes mapped to the yak genome and 3734 of these genes were involved in alternative splicing. Gene structure refinement analysis showed that 7340 genes that were annotated in the yak genome could be extended at the 5′ or 3′ ends based on the alignments been the transcripts and the genome sequence. Novel transcript prediction analysis identified 6321 new transcripts with lengths ranging from 180 to 14884 bp, and 2267 of them were predicted to code proteins. BLAST analysis of the new transcripts showed that 1200?4933 mapped to the non-redundant (nr), nucleotide (nt) and/or SwissProt sequence databases. Comparative statistical analysis of the new mapped transcripts showed that the majority of them were similar to genes in Bos taurus (41.4%), Bos grunniens mutus (33.0%), Ovis aries (6.3%), Homo sapiens (2.8%), Mus musculus (1.6%) and other species. Functional analysis showed that these expressed genes were involved in various Gene Ontology (GO) categories and Kyoto Encyclopedia of Genes and Genomes pathways. GO analysis of the new transcripts found that the largest proportion of them was associated with reproduction. The results of this study will provide a basis for describing the normal transcriptome map of yak ovary and for future studies on yak breeding performance. Moreover, the results confirmed that RNA-Seq HT technology is highly advantageous in improving gene structure information and mining of new genes, as well as in providing valuable data to expand the yak genome information.
机译：RNA-SEQ，一种高通量（HT）测序技术已经有效地在大规模转录组研究中使用，并且特别适用于改善基因结构信息和新基因的开采。在该研究中，使用RNA-SEQ HT技术分析牦牛卵巢的转录组。 Illumina-Solexa深度测序后，26826516在卵巢库中获得了总共4828772880 BP的清洁读数。对准分析表明，替代的剪接参与了映射到牦牛基因组的16992个牦牛基因和这些基因的3734个。基因结构细化分析表明，在牦牛基因组中注释的7340个基因可以在基于转录物和基因组序列的比赛的5'或3'末端延伸。新型转录性预测分析鉴定了6321个新的转录物，其长度为180至14884bp，预计它们的2267件被预测到代码蛋白。对新转录物的BLAST分析表明，1200？4933映射到非冗余（NR），核苷酸（NT）和/或Swissprot序列数据库。新型映射转录物的比较统计分析表明，其中大多数与Bos Taurus（41.4％）的基因相似（41.4％），Bos Grunniens Mutus（33.0％），卵巢（6.3％），Homo sapiens（2.8％），亩肌肉（1.6％）和其他物种。功能分析表明，这些表达基因涉及各种基因本体（GO）类别和基因和基因组途径的京都百科全书。去分析新成绩单发现它们的最大比例与繁殖有关。本研究的结果将为描述牦牛卵巢的正常转录组和牦牛育种性能研究提供依据。此外，结果证实，RNA-SEQ HT技术在改善基因结构信息和新基因采矿方面是非常有利的，以及提供有价值的数据以扩大牦牛基因组信息。

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