扇贝“渤海红”与墨西哥湾扇贝转录组SSR信息分析及unigene功能注释  

SSR Information Analysis and Unigene Functional Annotation of Transcriptome from Argopecten irradians “Bohaihong” and Argopecten irradians concentricus

作　　者：谭杰[1,2] 姚高友 刘志刚 刘付少梅[3] 陶雅晋 Tan Jie;Yao Gaoyou;Liu Zhigang;Liu Fushaomei;Tao Yajin(College of Fisheries, Guangdong Ocean University, Zhanjiang,524088;Guangdong Engineering Research Center for Healthy Breeding of Economic Invertebrates in the South China Sea, Zhanjiang,524088;Zhanjiang Silverwave Marine Biotechnology Co. Ltd., Zhanjiang,524022)

机构地区：[1]广东海洋大学,水产学院,湛江524088 [2]广东省南海经济无脊椎动物健康养殖工程研究中心,湛江524088 [3]湛江银浪海洋生物技术有限公司,湛江524022

出　　处：《基因组学与应用生物学》2018年第12期5242-5250,共9页Genomics and Applied Biology

基　　金：广东省南海经济无脊椎动物健康养殖工程技术研究中心项目资助

摘　　要：墨西哥湾扇贝是中国南方海域养殖的重要经济贝类,由于连续累代养殖,种质退化严重,扇贝“渤海红”为山东省近几年培育的国家级新品种,性状优势明显。课题组从北方引进扇贝“渤海红”拟与南方墨西哥湾扇贝进行育成杂交,创新墨西哥湾扇贝种质资源。本研究利用MISA软件对两种扇贝转录组测序获得的unigene序列进行检索,开发SSR标记,同时对SSR位点的生物学信息进行分析,对含SSR的unigene进行功能和KEGG代谢通路注释,并利用primer5软件设计SSR引物。结果显示:扇贝“渤海红”转录组中平均8.27kb出现1个SSR,出现频率为0.11,检索到的11512个SSR分布于9681条unigene上,涉及到137种重复基元,二核苷酸SSR数最多(5469),占比为46.66%,其次是单核苷酸(4039),占比为34.46%。墨西哥湾扇贝转录组中,共发现12241个SSR位点,分布于10362条unigene序列上,平均8.78kb出现1个SSR,出现频率为0.10,共包含140种重复基元,SSR重复类型以二核苷酸为主,占SSR总数的45.61%。两种扇贝转录组SSR的重复次数主要集中在5~10次。A/T、AT和ATC/ATG分别是单核苷酸、二核苷酸和三核苷酸的优势重复基元。两种扇贝转录组中共筛选出33个含SSR的生长相关unigene,且被注释到KEGG代谢通路的含特异SSR的unigene全部富集在新陈代谢和遗传信息处理两大一级通路中。两种扇贝SSR标记的开发,为杂交双亲遗传差异分析、杂交子代鉴定和杂种优势预测等奠定了分子辅助育种基础。Argopecten irradians concentricus is an important economic shellfish cultured in southern sea area of China, Due to continuous multi-generation culture, its germplasm is degenerating seriously. Argopecten irradians “Bohaihong”is a national new variety cultivated in Shandong Province recently with obvious advantages of traits. The research group introduced A. i.“Bohaihong”from the north of China to hybridize with the southern A. i. concentricus for the innovation of A. i. concentricus germplasm resource. In this study, MISA software was used to retrieve unigene sequences obtained by sequencing transcriptome of two scallops and to develop SSR markers.Meanwhile, the biological information of SSR loci was analyzed, the function of unigene containing SSR and KEGG metabolic pathway were annotated, and SSR primers were designed with primer 5 software.. The results showed that an average of 8.27 kb appeared 1 SSR and the occurrence frequency was 0.11 in A. i.“Bohaihong” transcriptome. The retrieved 11 512 SSRs were distributed on 9 681 unigenes, involving 137 repeating motifs. The number of di-nucleotide SSRswere the largest (5 469), accounting for 46.66%, followed by mono-nucleotide (4039), accounting for 34.46%. In A. i. concentricus transcriptome, a total of 12 241 SSRs loci were found, distributed on 10 362 unigene sequences, an average of 8.78 kb appeared 1 SSR and the occurrence frequency was 0.10. A total of 140 repeating motifs were included, and the major type was di-nucleotide SSR, accounting for 45.61%. SSR repeats were mainly concentrated in 5~10 times in two scallops. A/T, AT and ATC/ATG were the dominant repeating motifs of mono-nucleotide, di-nucleotide and tri-nucleotide, respectively. A total of 33 growth-related unigenes containing SSR were screened in two scallops transcriptome. The unigenes with specific SSR annotated into the KEGG metabolic pathway were enriched in the primary pathways of metabolism and genetic information processing. The development of SSR markers of two scallops would l

关 键 词：转录组 SSR 墨西哥湾扇贝 扇贝“渤海红” 功能注释 

分 类 号：S917.4[农业科学—水产科学]