引用本文:	曹广勇,张志勇,张志伟,陈淑吟,祝斐,贾超峰,陈自强,曾海峰,汤晓建.黑鲷、真鲷及其杂交子代基因编码区微卫星序列及密码子偏好性分析.海洋与湖沼,2019,50(5):1108-1115.

【打印本页】【HTML】【下载PDF全文】【查看/发表评论】【下载PDF阅读器】【关闭】

过刊浏览高级检索

本文已被：浏览 2121次下载 1292次	码上扫一扫！
分享到：微信更多字体:加大+\|默认\|缩小-
黑鲷、真鲷及其杂交子代基因编码区微卫星序列及密码子偏好性分析
曹广勇^1,2, 张志勇², 张志伟², 陈淑吟², 祝斐², 贾超峰², 陈自强^1,2, 曾海峰², 汤晓建²
1.上海海洋大学水产与生命学院上海 201306;2.江苏省海洋水产研究所江苏省海水鱼类遗传育种重点实验室南通 226007

摘要:

本研究采用生物信息学方法分析比较了黑鲷、真鲷及其两种杂交子代基因编码区（Coding sequence，CDS）中微卫星序列（简单重复序列，SSR）的分布规律及密码子偏好性。结果表明：（1）黑鲷、真鲷及其两种杂交子代微卫星序列均以三碱基重复类型为主，其次为二碱基重复，片段长度大多数在12-20bp之间。（2）黑鲷与反交（黑鲷♀×真鲷♂）在三、五碱基中优势基元类型相同，真鲷与正交（真鲷♀×黑鲷♂）在三碱基中优势基元类型相同，而黑鲷与正交在四碱基中优势基元类型相同。（3）UUC、UAC等28个密码子为黑鲷、真鲷及其两种杂交子代基因编码区的偏好性密码子，偏爱使用以C或G结尾的密码子，且第三位密码子碱基的GC含量（GC3s）均高于基因编码区平均GC含量。（4）真鲷与正交的密码子使用的偏好性相似，一定程度上说明黑鲷、真鲷杂交子代偏母系遗传。分析结果将为研究鲷科鱼类微卫星标记、研究其群体遗传多样性、构建转基因表达系统和开展分子遗传育种提供理论基础。

关键词: 黑鲷真鲷 CDS序列微卫星密码子偏好性

DOI：10.11693/hyhz20190200038

分类号:Q953;S931

基金项目:江苏省重点研发计划（现代农业）项目，BE2016326号；江苏省农业科技自主创新资金项目，CX（17）2021号；江苏省农业重大新品种创制项目，PZCZ201744号；江苏省自然科学基金项目，BK20181202号。

附件

ANALYSIS OF THE MICROSATELLITE SEQUENCES AND CODON BIAS OF THE CODING SEQUENCE IN ACANTHOPAGRUS SCHLEGELII, PAGRUS MAJOR AND THEIR HYBRID PROGENIES

CAO Guang-Yong^1,2, ZHANG Zhi-Yong², ZHANG Zhi-Wei², CHEN Shu-Yin², ZHU Fei², JIA Chao-Feng², CHEN Zi-Qiang^1,2, ZENG Hai-Feng², TANG Xiao-Jian²

1.Fishery and Life Science College, Shanghai Ocean University, Shanghai 201306, China;2.Jiangsu Marine Fisheries Research Institute, Nantong 226007, China

Abstract:

The microsatellite sequences (simple sequence repeats, SSR) and codon bias in the coding regions (CDS) of black porgy (Acanthopagrus schlegelii), red porgy (Pagrus major), and their offspring (orthogonal and reciprocal ones) were analyzed and compared using the method of bio-informatics. The results are followed. The microsatellite sequence is mainly composed of the three-base repeat type, followed by the two-base repeat, and the most fragment length of repeat sequences is between 12bp and 20bp. The black porgy and the reciprocal cross (black porgy♀×red porgy ♂) have the same dominant primitive type in the three and five bases, and the red porgy and the orthogonal (red porgy♀×black porgy ♂) dominant base types in the three bases as well, while the black porgy and the orthogonal are the same in the four bases. Twenty-eight pieces of genetic codons such as UUC and UAC are the preferred codons in gene coding regions of the four sea bream species, preferring to use the codons ended in C or G, and the GC content of the third codon base (GC3s). Both are higher than the average GC content of the coding region of the gene. The preference of codon use of the red porgy and the orthogonal is similar, which to some degree shows that black porgy and red porgy hybrids are of maternal hereditary characteristics. This research may provide a theoretical basis for the study of microsatellite markers of sea bream, their population genetic diversity, the construction of a transgenic expression system, and molecular genetic breeding.

Key words: Acanthopagrus schlegelii Pagrus major coding sequence microsatellite codon usage bias