家兔肌肉组织miRNA Solexa测序与生物信息学分析

doi:10.14088/j.cnki.issn0439-8114.2018.16.023

湖北农业科学 ›› 2018, Vol. 57 ›› Issue (16): 97-101.doi: 10.14088/j.cnki.issn0439-8114.2018.16.023

家兔肌肉组织miRNA Solexa测序与生物信息学分析

张翔宇, 邝良德, 李丛艳, 张翠霞, 郑洁, 杨超, 任永军, 郭志强, 唐丽, 邓晓东, 雷岷, 黄邓萍, 谢晓红

四川省畜牧科学研究院/动物遗传育种四川省重点实验室,成都 610066

收稿日期:2018-03-30 发布日期:2019-12-16
通讯作者: 谢晓红（1964-），女，四川成都人，研究员，主要从事家兔育种与养殖研究，（电话）028-84538766（电子信箱）928742851@qq.com。
作者简介:张翔宇（1981-）,男,四川西昌人,助理研究员,博士,主要从事家兔育种研究,（电话）028-84536166（电子信箱）zhangxiangyu757@163.com;
基金资助:
农业部国家现代农业产业技术体系项目（CARS-43-D-3）; 四川省畜牧科学研究院基本科研业务专项资金项目（2016YSKY0142）; 四川省应用基础研究项目（2017JY0079）

Solexa Sequencing and Bioinformatics Analysis on miRNA from Rabbit Muscle

ZHANG Xiang-yu, KUANG Liang-de, LI Cong-yan, ZHANG Cui-xia, ZHENG Jie, YANG Chao, REN Yong-jun, GUO Zhi-qiang, TANG Li, DENG Xiao-dong, LEI Min, HUANG Deng-ping, XIE Xiao-hong

Sichuan Animal Science Academy/Key Laboratory of Animal Genetics and Breeding in Sichuan Province,Chengdu 610066, China

Received:2018-03-30 Published:2019-12-16

摘要/Abstract

摘要： miRNA是一类长度约22 bp的小分子非编码RNA,在骨骼肌生长和肌细胞分化过程中起着重要的调控作用。利用Solexa测序技术对3只84日龄成年公兔的腿肌进行了miRNA测序,旨在评估高通量测序在发掘家兔miRNA中的数据质量以及解析家兔肌肉组织中miRNA的生物学特征。结果表明,除前4位碱基的错误率略高于0.5%外,其他位置的碱基错误率均低于0.5%,说明测序质量好、可信度高,获得的序列可用于后续miRNA的鉴定分析。纯净序列中其他类型RNA的比例仅占2.07%。肉兔肌肉中18~24 nt的小RNA首位碱基以U为主,其次为碱基A,具有很强的偏向性。miRNA序列长度主要分布在20~24 nt范围内,占纯净序列的90%以上。miRNA长度分布的不平衡和首位碱基的偏向性可能与miRNA的作用机理和具体生物学功能有关。

关键词: 家兔, 肌肉, 高通量测序, miRNA

Abstract: miRNA as a kind of micromolecule non-coding RNA with the length of about 22 bp plays an important regulatory role in skeletal muscle growth and muscle cell differentiation. This research uses Solexa sequencing technology to conduct miRNA sequencing on three eight-four-day-old adult male rabbits, aiming at evaluating the quality of high-throughput sequencing in meat-rabbit miRNA data mining, and exploring the biological characteristics of miRNA in meat-rabbit muscular tissues. Results show that, except for bases in first three positions with an error rate slightly higher than 0.5%, bases in other positions have an error rate of lower than 0.5%, which indicates good sequencing quality, high reliability, and the applicability of obtained sequence in subsequent miRNA identification and analysis. Other types of RNA in pure sequences only take up 2.07%. The 18~24 nt small RNA first base in meat-rabbit muscle is mainly U base, and A base for the second with strong directivity. miRNA sequence length is mainly within the range of 20~24 nt, which takes up more than 90% of pure sequences. miRNA sequence length imbalance and the directivity of first-place base may be related to the action mechanism and specific functions of miRNA.

Key words: rabbit, muscle, high throughput sequencing, miRNA

中图分类号:

S829.1

张翔宇, 邝良德, 李丛艳, 张翠霞, 郑洁, 杨超, 任永军, 郭志强, 唐丽, 邓晓东, 雷岷, 黄邓萍, 谢晓红. 家兔肌肉组织miRNA Solexa测序与生物信息学分析[J]. 湖北农业科学, 2018, 57(16): 97-101.

ZHANG Xiang-yu, KUANG Liang-de, LI Cong-yan, ZHANG Cui-xia, ZHENG Jie, YANG Chao, REN Yong-jun, GUO Zhi-qiang, TANG Li, DENG Xiao-dong, LEI Min, HUANG Deng-ping, XIE Xiao-hong. Solexa Sequencing and Bioinformatics Analysis on miRNA from Rabbit Muscle[J]. HUBEI AGRICULTURAL SCIENCES, 2018, 57(16): 97-101.

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家兔肌肉组织miRNA Solexa测序与生物信息学分析

Solexa Sequencing and Bioinformatics Analysis on miRNA from Rabbit Muscle

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