类乌齐牦牛全基因组RNA编辑位点预测及剖析

doi:10.11843/j.issn.0366-6964.2021.009

畜牧兽医学报 ›› 2021, Vol. 52 ›› Issue (1): 88-97.doi: 10.11843/j.issn.0366-6964.2021.009

类乌齐牦牛全基因组RNA编辑位点预测及剖析

王嘉博¹, 舒涛¹, 柴志欣¹, 王吉坤¹, 王会¹, 武志娟¹, 唐友², 钟金城^1*, 姬秋梅^3*

1. 西南民族大学青藏高原动物遗传资源保护与利用四川省、教育部重点实验室, 成都 610041;
2. 吉林农业科技学院, 长春 132309;
3. 大麦、牦牛种质资源与遗传改良国家重点实验室, 拉萨 850000

收稿日期:2020-06-09 出版日期:2021-01-23 发布日期:2021-01-19
通讯作者: 钟金城,主要从事动物遗传资源保护与利用研究,E-mail:zhongjincheng518@163.com;姬秋梅,主要从事牦牛遗传育种研究,E-mail:qiumei05@126.com
作者简介:王嘉博(1985-),男,黑龙江齐齐哈尔人,博士,主要从事利用现代生物信息学和统计遗传学探索牦牛关键遗传资源的研究,E-mail:wangjiaboyifeng@163.com
基金资助:
国家肉牛牦牛产业技术体系建设项目（CARS-37）；中央高校基本科研业务费专项基金项目（2020NQN26）

Prediction and Analysis of RNA Editing Sites in the Whole Genome of Leiwuqi Yaks

WANG Jiabo¹, SHU Tao¹, CHAI Zhixin¹, WANG Jikun¹, WANG Hui¹, WU Zhijuan¹, TANG You², ZHONG Jincheng^1*, JI Qiumei^3*

1. Key Laboratory of Qinghai-Tibetan Plateau Animal Genetic Resource Reservation and Utilization of Sichuan and Ministry of Education, Southwest Minzu University, Chengdu 610041, China;
2. Jilin Agricultural Science and Technology University, Changchun 132309, China;
3. State Key Laboratory of Hulless Barley and Yak Germplasm Resources and Genetic Improvement, Lhasa 850000, China

Received:2020-06-09 Online:2021-01-23 Published:2021-01-19

摘要/Abstract

摘要： 为揭示牦牛不同组织间受RNA编辑导致转录产物发生的差异变化，进而为牦牛的组织分化、系统遗传调控等研究提供候选基因。本研究以3头4.5岁类乌齐母牦牛的大脑、小脑、臀部脂肪以及肌肉组织作为试验材料，通过Illumina 4000测序平台对各组织表达产物进行扫描，利用SPRINT和JACUSA筛选差异的RNA编辑位点，分析RNA编辑位点的分类、注释以及变异风险评估等。结果发现了总计24 784个RNA编辑位点，其中在4个组织中均发现存在编辑事件的有4 015个位点；4个组织中的RNA编辑位点主要以A-G和T-C编辑类型为主；发现其中一个高风险编辑位点位于SON基因中，使该基因的翻译提前终止，这将导致该组织一些特定位点的RNA与DNA结合出现问题。本研究预测并分析了类乌齐牦牛大、小脑和臀部肌肉、脂肪组织中RNA编辑差异位点的类型和分布，为进一步研究牦牛组织分化和生长发育中重要的调控基因提供了新的参考。

关键词: 类乌齐牦牛, RNA编辑位点, SPRINT, JACUSA

Abstract: The study aimed to reveal the variation of transcription products at different RNA expression levels among yak tissues, and provide candidate genes for yak tissue differentiation, systematic genetic regulation and other studies. The cerebrum, cerebellum, buttock fat and buttock muscle tissues of 3 Leiwuqi Yaks with 4.5 years old were collected as experimental material. The expression products of each tissue were scaned through the Illumina 4000 sequencing platform, the SPRINT and JACUSA softwares were used to screen differential RNA editing sites, the classification, annotations and mutation risk assessment of RNA editing sites were analyzed. A total of 24 784 RNA editing sites were found, of which 4 015 sites with editing events were observed in the 4 tissues. The RNA editing sites in the 4 tissues were mainly A-G and T-C editing types. It was found that one of the high-risk editing sites was located in the SON gene, which stopped the translation of the gene prematurely, and caused problems in the binding of RNA to DNA at certain sites in the tissue. The types and distribution of RNA editing sites in cerebrum, cerebellum, buttock fat and buttock muscle tissues of Leiwuqi yaks were predicted and analyzed in this study, which provided a new reference for further study on regulatory genes in yak tissue differentiation and growth.

Key words: Leiwuqi yaks, RNA editing site, SPRINT, JACUSA

中图分类号:

S823.85

王嘉博, 舒涛, 柴志欣, 王吉坤, 王会, 武志娟, 唐友, 钟金城, 姬秋梅. 类乌齐牦牛全基因组RNA编辑位点预测及剖析[J]. 畜牧兽医学报, 2021, 52(1): 88-97.

WANG Jiabo, SHU Tao, CHAI Zhixin, WANG Jikun, WANG Hui, WU Zhijuan, TANG You, ZHONG Jincheng, JI Qiumei. Prediction and Analysis of RNA Editing Sites in the Whole Genome of Leiwuqi Yaks[J]. Acta Veterinaria et Zootechnica Sinica, 2021, 52(1): 88-97.

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类乌齐牦牛全基因组RNA编辑位点预测及剖析

Prediction and Analysis of RNA Editing Sites in the Whole Genome of Leiwuqi Yaks

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