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Selection for environmental variance of litter size in rabbits involves genes in pathways controlling animal resilience
Genetics Selection Evolution ( IF 3.6 ) Pub Date : 2021-07-13 , DOI: 10.1186/s12711-021-00653-y
Cristina Casto-Rebollo 1 , María José Argente 2 , María Luz García 2 , Agustín Blasco 1 , Noelia Ibáñez-Escriche 1
Affiliation  

Environmental variance (VE) is partially under genetic control, which means that the VE of individuals that share the same environment can differ because they have different genotypes. Previously, a divergent selection experiment for VE of litter size (LS) during 13 generations in rabbit yielded a successful response and revealed differences in resilience between the divergent lines. The aim of the current study was to identify signatures of selection in these divergent lines to better understand the molecular mechanisms and pathways that control VE of LS and animal resilience. Three methods (FST, ROH and varLD) were used to identify signatures of selection in a set of 473 genotypes from these rabbit lines (377) and a base population (96). A whole-genome sequencing (WGS) analysis was performed on 54 animals to detect genes with functional mutations. By combining signatures of selection and WGS data, we detected 373 genes with functional mutations in their transcription units, among which 111 had functions related to the immune system, stress response, reproduction and embryo development, and/or carbohydrate and lipid metabolism. The genes TTC23L, FBXL20, GHDC, ENSOCUG00000031631, SLC18A1, CD300LG, MC2R, and ENSOCUG00000006264 were particularly relevant, since each one carried a functional mutation that was fixed in one of the rabbit lines and absent in the other line. In the 3ʹUTR region of the MC2R and ENSOCUG00000006264 genes, we detected a novel insertion/deletion (INDEL) variant. Our findings provide further evidence in favour of VE as a measure of animal resilience. Signatures of selection were identified for VE of LS in genes that have a functional mutation in their transcription units and are mostly implicated in the immune response and stress response pathways. However, the real implications of these genes for VE and animal resilience will need to be assessed through functional analyses.

中文翻译:

兔子窝产仔数的环境变化选择涉及控制动物恢复力的途径中的基因

环境方差 (VE) 部分受遗传控制,这意味着共享相同环境的个体的 VE 可能不同,因为它们具有不同的基因型。以前,兔 13 代产仔数 (LS) VE 的发散选择实验产生了成功的反应,并揭示了发散线之间的弹性差异。当前研究的目的是确定这些不同系中的选择特征,以更好地了解控制 LS VE 和动物恢复力的分子机制和途径。使用三种方法(FST、ROH 和 varLD)从这些兔品系 (377) 和基础种群 (96) 的一组 473 种基因型中鉴定选择特征。对 54 只动物进行了全基因组测序 (WGS) 分析,以检测具有功能性突变的基因。通过结合选择特征和 WGS 数据,我们检测到 373 个基因在其转录单元中具有功能性突变,其中 111 个具有与免疫系统、应激反应、生殖和胚胎发育和/或碳水化合物和脂质代谢相关的功能。基因 TTC23L、FBXL20、GHDC、ENSOCUG00000031631、SLC18A1、CD300LG、MC2R 和 ENSOCUG00000006264 尤其相关,因为每个基因都携带一个功能性突变,该突变在一个兔系中固定,而在另一系中不存在。在 MC2R 和 ENSOCUG00000006264 基因的 3ʹUTR 区域,我们检测到一个新的插入/缺失 (INDEL) 变体。我们的研究结果提供了进一步的证据,支持 VE 作为衡量动物恢复力的指标。在转录单位具有功能性突变的基因中鉴定了 LS VE 的选择特征,这些基因主要与免疫反应和应激反应途径有关。然而,这些基因对 VE 和动物恢复力的真正影响需要通过功能分析来评估。
更新日期:2021-07-13
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