The Key Laboratory of Mammalian Reproductive Biology and Biotechnology of the Ministry of Education, Inner Mongolia University, Hohhot, Inner Mongolia Autonomous Region 010021, China.
Int J Genomics. 2013;2013:269191. doi: 10.1155/2013/269191. Epub 2013 May 20.
Despite that goat is one of the best nonmodel systems for villus growth studies and hair biology, limited gene resources associated with skin or hair follicles are available. In the present study, using Illumina/Solexa sequencing technology, we de novo assembled 130 million mRNA-Seq reads into a total of 49,115 contigs. Searching public databases revealed that about 45% of the total contigs can be annotated as known proteins, indicating that some of the assembled contigs may have previously uncharacterized functions. Functional classification by KOG and GO showed that activities associated with metabolism are predominant in goat skin during anagen phase. Many signaling pathways was also created based on the mapping of assembled contigs to the KEGG pathway database, some of which have been previously demonstrated to have diverse roles in hair follicle and hair shaft formation. Furthermore, gene expression profiling of three skin types identified ~6,300 transcript-derived contigs that are differentially expressed. These genes mainly enriched in the functional cluster associated with cell cycle and cell division. The large contig catalogue as well as the genes which were differentially expressed in different skin types provide valuable candidates for further characterization of gene functions.
尽管山羊是研究绒毛生长和毛发生物学的最佳非模型系统之一，但与皮肤或毛囊相关的基因资源有限。在本研究中，我们使用 Illumina/Solexa 测序技术，从头组装了 1.3 亿个 mRNA-Seq reads，总共得到了 49115 个 contigs。在公共数据库中的搜索结果表明，大约 45%的总 contigs 可以被注释为已知蛋白质，这表明一些组装的 contigs 可能具有以前未被描述的功能。通过 KOG 和 GO 的功能分类表明，在山羊生长期，与代谢相关的活动占主导地位。许多信号通路也根据组装的 contigs 映射到 KEGG 通路数据库进行了构建，其中一些通路已经被证明在毛囊和毛干形成过程中具有多种作用。此外，对三种皮肤类型的基因表达谱分析确定了约 6300 个差异表达的转录衍生 contigs。这些基因主要富集在与细胞周期和细胞分裂相关的功能簇中。大量的 contig 目录以及不同皮肤类型中差异表达的基因，为进一步研究基因功能提供了有价值的候选基因。
