Table_6_Differential DNA Methylation and Gene Expression Between ALV-J-Positive and ALV-J-Negative Chickens.XLS

Background: Avian leukosis virus subgroup J (ALV-J) is an oncogenic virus that causes serious economic losses in the poultry industry; unfortunately, there is no effective vaccine against ALV-J. DNA methylation plays a crucial role in several biological processes, and an increasing number of diseases have been proven to be related to alterations in DNA methylation. In this study, we screened ALV-J-positive and -negative chickens. Subsequently, we generated and provided the genome-wide gene expression and DNA methylation profiles by MeDIP-seq and RNA-seq of ALV-J-positive and -negative chicken samples; 8,304 differentially methylated regions (DMRs) were identified by MeDIP-seq analysis (p ≤ 0.005) and 515 differentially expressed genes were identified by RNA-seq analysis (p ≤ 0.05). As a result of an integration analysis, we screened six candidate genes to identify ALV-J-negative chickens that possessed differential methylation in the promoter region. Furthermore, TGFB2 played an important role in tumorigenesis and cancer progression, which suggested TGFB2 may be an indicator for identifying ALV-J infections.

背景：禽白血病J亚群病毒（Avian leukosis virus subgroup J, ALV-J）是一种致瘤病毒，给家禽养殖业造成严重经济损失；遗憾的是，目前尚无针对ALV-J的有效疫苗。DNA甲基化在诸多生物学过程中发挥关键作用，且越来越多的疾病被证实与DNA甲基化改变相关。本研究筛选了ALV-J阳性与阴性鸡只。随后，我们通过甲基化DNA免疫沉淀测序（MeDIP-seq）与RNA测序（RNA-seq）技术，生成并提供了ALV-J阳性、阴性鸡样本的全基因组基因表达谱与DNA甲基化谱；经MeDIP-seq分析鉴定出8304个差异甲基化区域（differentially methylated regions, DMRs）（p≤0.005），经RNA-seq分析鉴定出515个差异表达基因（p≤0.05）。通过整合分析，我们筛选出6个候选基因，用于鉴定启动子区域存在甲基化差异的ALV-J阴性鸡只。此外，转化生长因子β2（TGFB2）在肿瘤发生与癌症进展中发挥重要作用，提示TGFB2或可作为ALV-J感染的检测指标。