摘要
为发掘罗氏沼虾(Macrobrachiumrosenbergii)卵巢发育过程中的重要功能基因,采用IlluminaHiSeqTM4000高通量测序平台对罗氏沼虾卵巢发育四个时期卵巢组织进行转录组测序。所测序列经质控、组装后比对到NR、String、Swiss-prot、Pfam、GO、KEGG数据库中注释,并进行差异基因聚类分析。结果显示,四个样品共产生221580604个Cleanreads,拼接获得95379个Unigenes。分别对四个样品测序文库进行两两比较,共检测到6605个差异表达基因,其中显著上调基因2410个,显著下调基因4195个。GO功能分类显示,共有6422条unigenes可分为分子功能、细胞组分、生物学过程3大类59分支,差异基因主要涉及糖类转运、氨基酸合成、酶活性、细胞膜组成等。通过KEGG通路注释,共有8423条unigenes被注释,涉及184种代谢途径,有7个代谢通路与卵巢发育相关,差异基因的KEGG富集结果显示,药物代谢细胞色素P450通路、氨基丁酸神经元突触、鞘糖脂生物合成、氮素代谢等通路富集显著。此外,对SSR与SNP分子标记进行了鉴定。研究结果为进一步探索罗氏沼虾卵巢发育机制提供了基础信息。
To analyze important functional genes of Macrobrachium rosenbergii during ovarian development, we conducted the transcriptome sequencing by Illumina HiSeqTM 4000. After quality control and assembly, the sequences acquired were blasted against NR, String, Swiss-prot, Pfam, GO and KEGG databases, and then the cluster analysis was performed. In total, 221580604 clean reads and 89529 Unigenes were obtained, and 6605 genes were differentially expressed, among which 2410 were up-regulated and 4195 down-regulated. According to the results of gene ontology functional enrichment analysis, 6422 Unigenes in the transcriptome library could be divided into 3 categories (molecular function, cellular component and biological process) with 59 branches. Significant differently-expressed genes were mainly distributed in the pathways like carbohydrate transport, amino acid synthesis, enzyme activity and the composition of the cell membrane. KEGG pathway analysis showed that 8423 Unigenes were given the pathway annotations and related to 184 pathways, and 7 pathways were associated with ovarian development. Analysis of differentially expressed genes revealed that several pathways, such as Drug metabolism--cytochrome P450, GABAergic synapse, Glycosphingolipid biosynthesis--globo series and Nitrogen metabolism, were significantly enriched. In addition, SSR and SNP molecular markers were identified. The results provide basic information for further exploration of the ovary development mechanism of M. rosenbergii.
作者
陈雪峰
王春琳
顾志敏
徐宾朋
张宇飞
慎佩晶
程海华
彭菲
李喜莲
黄振远
CHEN Xue-Feng;WANG Chun-Lin;GU Zhi-Min;XU Bin-Peng;ZHANG Yu-Fei;SHEN Pei-Jing;CHENG Hai-Hua;PENG Fei;LI Xi-Lian;HUANG Zhen-Yuan(School of Marine Science, Ningbo University, Ningbo 315211, China;National Genetic Breeding Center for Macrobrachiumrosenbergii, Zhejiang Institute of Freshwater Fisheries, Huzhou 313001, China)
出处
《海洋与湖沼》
CAS
CSCD
北大核心
2019年第2期398-408,共11页
Oceanologia Et Limnologia Sinica
基金
浙江省农业(水产)新品种选育重大科技专项
2016C02055-2号
关键词
罗氏沼虾
转录组测序
卵巢发育
差异基因
Macrobrachium rosenbergii
transcriptome sequencing
ovarian development
differentially expressed genes
