Evolutionary Genomics of Long Intergenic Non-coding RNAs (lincRNAs) in Drosophila

果蝇长基因间非编码 RNA (lincRNA) 的进化基因组学

• 批准号: 1330766
• 负责人: Carlos Machado
• 金额: $ 51万
• 依托单位: University of Maryland, College Park
• 依托单位国家: 美国
• 项目类别: Standard Grant
• 财政年份: 2013
• 资助国家: 美国
• 起止时间: 2013-09-15 至 2017-08-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=1330766&HistoricalAwards=false
• 关键词: Evolutionary; Genomics; Long; Intergenic; Non

The importance of non-coding RNAs is becoming increasingly apparent for a wide range of biological processes, but they are still a relatively new topic, and many aspects of their function and evolution remain poorly understood. Long intergenic non-coding (linc) RNAs are perhaps least understood among the non coding RNAs, yet they are known to play roles in dosage compensation, embryonic development, stem cell maintenance and differentiation, and epigenetic regulation of expression. The proposed work is focused on lincRNAs across the species Drosophila pseudoobscura and Drosophila persimilis. RNA-seq will be used to catalog changes in lincRNA expression during development, and these data will be used to evaluate divergence in lincRNA sequence and expression patterns.The specific aims are the following: 1-Identify the lincRNAs in the D. pseudoobscura transcriptome using RNAseq data; 2-Characterize patterns of lincRNA expression in D. pseudoobscura and D. persimilis, with a focus on those lincRNAs that are differentially expressed; 3-Compare levels of intraspecific polymorphism to levels of interspecific divergence using expression and sequence data, and complare patterns for lincRNAs to patterns of protein-coding genes.Broader Impacts include a summer research experience for high school students and teachers. Participant selection will be done in collaboration with minority high schools in the area, and will be facilitated by a Math and Science Partnership grant to the University System of Maryland. Undergraduate research opportunities will also be provided, and recruitment will be done partly through the University of Maryland and partly through the Smithsonian Tropical Research Institute in Panama.

非编码RNA对于广泛的生物过程的重要性变得越来越明显，但它们仍然是一个相对较新的话题，其功能和进化的许多方面仍然知之甚少。长基因间非编码 (linc) RNA 在非编码 RNA 中可能是人们了解最少的，但已知它们在剂量补偿、胚胎发育、干细胞维持和分化以及表达的表观遗传调控中发挥作用。拟议的工作重点是果蝇 pseudoobscura 和 Drosophila persimilis 物种的 lincRNA。 RNA-seq将用于对开发过程中lincRNA表达的变化进行编目，这些数据将用于评估lincRNA序列和表达模式的分歧。具体目标如下： 1-使用RNAseq数据识别D.pseudoobscura转录组中的lincRNA； 2-表征 D.pseudoobscura 和 D.persimilis 中 lincRNA 的表达模式，重点关注那些差异表达的 lincRNA； 3-使用表达和序列数据比较种内多态性水平与种间差异水平，并将 lincRNA 模式与蛋白质编码基因模式进行比较。更广泛的影响包括为高中生和教师提供暑期研究经验。参与者的选择将与该地区的少数族裔高中合作进行，并将通过向马里兰大学系统提供的数学和科学合作伙伴拨款来促进。还将提供本科生研究机会，招聘将部分通过马里兰大学进行，部分通过巴拿马史密森热带研究所进行。