Data from: Profile of the Spleen Transcriptome in Beef Steers with Variation in Gain and Feed Intake

We have previously identified components of the immune system contributing to feed intake and gain in both the rumen and small intestine of beef steers. In this study, we examined the spleen, a major lymphatic organ near the digestive tract, to determine whether it was also influencing individual feed efficiency status through immune responses. Animals (n = 16) that were divergent for gain and intake were selected for tissue sampling. The spleen transcriptomes were evaluated by microarray. A total of 1216 genes were identified as differentially expressed. Genes were over-represented in Kyoto encyclopedia of genes and genomes (KEGG) pathways including biological regulation, protein folding, cell communication, immune systems process, response to stress, and RNA metabolic process. Several stress response or heat shock genes including HSPH1, HSPA1A, HSPA4, DNAJB4, DNAJA4, etc., were identified as a stress response functional gene cluster in the low gain-low intake animals. These genes were up-regulated amongst the low gain-low intake animals compared to all other groups. Canonical pathways associated with the differentially expressed genes included the coagulation system, extrinsic prothrombin activation, protein ubiquitination, unfolded protein response, and aldosterone signaling in epithelial cells. An analysis of expressed copy number variable (CNV) genes in the spleen produced some of the same genes and gene families that were differentially expressed. Our data suggests the splenic contribution to some of the underlying variation among gain and intake within this group of animals may be a result of immune function and stress response. In addition, some of the differences in immune response functions may be related to gene copy number. Resources in this dataset:Resource Title: Supplemental Table 1. Differentially expressed genes in steer spleen. (xlsx download). File Name: Web Page, url: https://www.frontiersin.org/articles/file/downloadfile/195479_supplementary-materials_tables_1_xlsx/octet-stream/Table 1.xlsx/2/195479 LSMEANS and fold changes by phenotypic quadrant are presented.

先前，我们已识别出对反刍动物瘤胃和小肠的采食量和增重有所贡献的免疫系统成分。在本研究中，我们考察了位于消化系统附近的主要淋巴器官——脾脏，以确定其是否也通过免疫反应影响个体的采食效率状态。选取了（n = 16）采食量和采食量存在差异的动物进行组织样本采集。通过微阵列技术对脾脏转录组进行了评估。共鉴定出1216个差异表达基因。这些基因在京都基因与基因组百科全书（KEGG）通路中过度表达，包括生物调节、蛋白质折叠、细胞通讯、免疫系统过程、应激反应以及RNA代谢过程。在采食量和采食量均低的动物中，识别出包括HSPH1、HSPA1A、HSPA4、DNAJB4、DNAJA4等在内的多个应激反应或热休克基因，形成一个应激反应功能基因簇。与所有其他组别相比，这些基因在采食量和采食量均低的动物中上调。与差异表达基因相关的典型通路包括凝血系统、外源性凝血酶原激活、蛋白质泛素化、未折叠蛋白反应和上皮细胞中的醛固酮信号传导。对脾脏中表达的拷贝数可变（CNV）基因的分析产生了与差异表达基因相同的某些基因和基因家族。我们的数据表明，脾脏对这一群体动物采食量和增重之间某些潜在变异的贡献可能是由免疫功能应激反应引起的。此外，免疫反应功能的一些差异可能与基因拷贝数有关。本数据集包含的资源：资源标题：补充表1. 牛脾脏中的差异表达基因。（xlsx下载）。文件名：网页，网址：https://www.frontiersin.org/articles/file/downloadfile/195479_supplementary-materials_tables_1_xlsx/octet-stream/Table 1.xlsx/2/195479，以表型象限展示了均值和倍数变化。