Kaufman Abigail M, Miller Jonathan G, Fajardo Emilio, Suamatai'a-Te'o Cheyenne, Enke Ray A, Schmidt Kristopher L
Department of Biology and Chemistry, Eastern Mennonite University, United States.
Department of Biology, James Madison University, United States.
Data Brief. 2024 Mar 5;54:110294. doi: 10.1016/j.dib.2024.110294. eCollection 2024 Jun.
Transcriptome analysis through next-generation sequencing (NGS) is an invaluable tool for investigating changes in gene expression across diverse organisms. The nematode () serves as an excellent model organism for dissecting host responses to bacterial infections. Here, our dataset obtained from bulk RNA-sequencing (RNA-seq) can be used to provide in-depth characterization of the mRNA transcriptome profiles of wild-type N2 animals and null mutants of the cytoskeletal regulatory gene /Nav2 following exposure to distinct bacterial environments: their natural laboratory food source, OP50, the human and nematode pathogen PA14, and the emerging pathogen Ag1. As proof of the dataset quality, downstream differential gene expression analysis reveals significant shifts in gene expression patterns within N2 and mutants under varying bacterial conditions that will be useful for our companion studies investigating these pathways. These data provide an effective methodological framework for future investigators to investigate the interplay between cytoskeletal proteins and the innate immune response. The raw FASTQ files generated from our transcriptome experiment is deposited in the publicly available NCBI Sequence Read Archive (SRA) under the BioProject accession number PRJNA1010192, for further exploration and validation by the C. elegans research community.
通过下一代测序（NGS）进行转录组分析是研究不同生物体基因表达变化的宝贵工具。线虫（秀丽隐杆线虫）是剖析宿主对细菌感染反应的优秀模式生物。在这里，我们通过批量RNA测序（RNA-seq）获得的数据集可用于深入表征野生型N2动物以及细胞骨架调节基因unc-87/Nav2的缺失突变体在暴露于不同细菌环境后的mRNA转录组图谱：它们的天然实验室食物来源大肠杆菌OP50、人类和线虫病原体铜绿假单胞菌PA14以及新兴病原体嗜水气单胞菌Ag1。作为数据集质量的证明，下游差异基因表达分析揭示了在不同细菌条件下N2和unc-87突变体内基因表达模式的显著变化，这将有助于我们后续研究这些途径的相关研究。这些数据为未来研究人员研究细胞骨架蛋白与先天免疫反应之间的相互作用提供了一个有效的方法框架。我们转录组实验生成的原始FASTQ文件存放在公开可用的NCBI序列读取存档（SRA）中，生物项目登录号为PRJNA1010192，供秀丽隐杆线虫研究社区进一步探索和验证。
