一个多组织雅克 (Bos grunniens) ceRNA 图谱,具有 Ribo-Seq-Informed lncRNA 策划和候选优先级
Zhenlin Zhu1,2, Biao Li1,2, Mingfeng Jiang1,2
1Key Laboratory of Qinghai-Tibetan Plateau Animal Genetic Resource Reservation and Utilization, Ministry of Education and Sichuan Province, Southwest Minzu University, Chengdu 610041, China.
Animals : an open access journal from MDPI
|February 27, 2026
概括
这项研究绘制了雅克组织中竞争的内源性RNA (ceRNA) 网络的地图,识别了组织特异性的调节模式,并提供了一种可靠的方法来减少RNA研究中的假阳性.
科学领域:
- 基因组学和分子生物学
- 动物生理学 动物生理学
- 生物信息学是一种生物信息学.
背景情况:
- 雅克 (Bos grunniens) 具有独特的适应能力,适应青海-西藏高原等高海拔环境.
- 了解雅克在不同组织中的后转录调节对于破译这些适应至关重要.
- 之前的研究缺乏对雅克的监管网络进行全面的跨组织分析.
研究的目的:
- 在雅克中构建和比较组织特定的竞争性内源性RNA (ceRNA) 网络.
- 开发和应用一个严格的工作流程来识别高可信度的长非编码RNAs (lncRNAs) 和循环RNAs (circRNAs).
- 通过使用 Ribo-seq 数据过具有翻译特征的 lncRNA 候选人来减少 ceRNA 推断中的错误阳性.
主要方法:
- 综合多组织RNA测序 (RNA-seq) 和microRNA测序 (miRNA-seq) 数据来自六个雅克组织.
- 编目了高可信度的lncRNAs,circRNAs和miRNAs.
- 采用Ribo-sequencing (Ribo-seq) 来过出与核糖体相关的 lncRNA候选物.
- 使用共享目标策略 (7mer-m8种子匹配) 和miRNA支持构建特定组织的ceRNA网络.
主要成果:
- 在六种组织中编目了10,037个高可信度lncRNA,234个circRNA和1030个miRNA.
- 组装用于肝脏,肺,脏,丸和小肠的功能性ceRNA网络.
- 观察到网络拓学的显著组织特异变化,丸网络显示出最高的连接性.
- 在整个组织的ceRNA边缘中显示出最小的重叠,突出显示出强大的组织依赖.
- 确定了适度一致的miRNA配置文件,表明一个层次性的监管组织.
结论:
- 这项研究为雅克研究提供了有价值的多组织ceRNA资源.
- 开发的工作流提供了一种可重复的,基于证据的方法来优先考虑监管候选人.
- 这些发现减少了雅克ceRNA网络推断中的注释驱动的错误阳性.
- 利博-seq过的lncRNA集为进一步研究微生产提供了候选人.
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