Transcriptomic analysis of the trade-off between endurance and burst-performance in the frog Xenopus allofraseri.
Transcriptomic analysis of the trade-off between endurance and burst-performance in the frog Xenopus allofraseri.
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DOI：
10.1186/s12864-021-07517-1
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发表时间：
2021-03-23
期刊：
影响因子：
4.4
通讯作者：
Herrel A
中科院分区：
文献类型：
--
作者：
Ducret V;Richards AJ;Videlier M;Scalvenzi T;Moore KA;Paszkiewicz K;Bonneaud C;Pollet N;Herrel A
动物运动能力的差异通常反映了对不同环境的适应。尽管有证据表明身体表现是可遗传的，但运动表现和表现权衡的分子基础仍然知之甚少。在这项研究中，我们使用转录组学方法鉴定了可能与非洲爪蟾中观察到的爆发性能和耐力之间的权衡有关的基因、信号传导途径和调控过程。我们从 Illumina RNA 测序中总共获得了约 1.21 亿个双端读数，并分析了从头组装获得的 218,541 个转录本。我们鉴定了 109 个转录本，它们在持久型和爆发型个体之间表达存在显着差异（FDR ≤ 0.05 且 logFC ≥2），并且blast搜索得到了103个蛋白质编码基因。我们发现持久型和爆发型个体之间的主要差异在于参与肌动蛋白丝聚合和 ATP 酶活性、细胞运输、蛋白聚糖和细胞外蛋白分泌、脂质代谢、线粒体活性和信号级联调节因子的基因表达。值得注意的是，我们揭示了在代谢、细胞凋亡、核输出以及作为转录辅阻遏物方面具有功能的关键基因的转录同工型，这些基因在爆发性或持久性个体中表达。最后，我们在爆发表现个体中发现了两个上调的转录本，它们对应于肌球蛋白结合蛋白 C 快速型 (mybpc2) 的表达。这表明 mybpc2 同源物的存在，并且可能受到选择的青睐，以允许快速和强大的运动。这些结果表明，除了使用选择性剪接和细胞活动效应器之外，属于钙信号传导、内质网应激反应和横纹肌收缩途径的基因的差异表达也是运动性能权衡的基础。最终，我们的转录组分析为未来分析单核苷酸变异、同源性和选择性剪接在运动性能权衡进化中的作用提供了新的视角。在线版本包含可在 10.1186/s12864-021-07517-1 获取的补充材料。
Variation in locomotor capacity among animals often reflects adaptations to different environments. Despite evidence that physical performance is heritable, the molecular basis of locomotor performance and performance trade-offs remains poorly understood. In this study we identify the genes, signaling pathways, and regulatory processes possibly responsible for the trade-off between burst performance and endurance observed in Xenopus allofraseri, using a transcriptomic approach. We obtained a total of about 121 million paired-end reads from Illumina RNA sequencing and analyzed 218,541 transcripts obtained from a de novo assembly. We identified 109 transcripts with a significant differential expression between endurant and burst performant individuals (FDR ≤ 0.05 and logFC ≥2), and blast searches resulted in 103 protein-coding genes. We found major differences between endurant and burst-performant individuals in the expression of genes involved in the polymerization and ATPase activity of actin filaments, cellular trafficking, proteoglycans and extracellular proteins secreted, lipid metabolism, mitochondrial activity and regulators of signaling cascades. Remarkably, we revealed transcript isoforms of key genes with functions in metabolism, apoptosis, nuclear export and as a transcriptional corepressor, expressed in either burst-performant or endurant individuals. Lastly, we find two up-regulated transcripts in burst-performant individuals that correspond to the expression of myosin-binding protein C fast-type (mybpc2). This suggests the presence of mybpc2 homoeologs and may have been favored by selection to permit fast and powerful locomotion. These results suggest that the differential expression of genes belonging to the pathways of calcium signaling, endoplasmic reticulum stress responses and striated muscle contraction, in addition to the use of alternative splicing and effectors of cellular activity underlie locomotor performance trade-offs. Ultimately, our transcriptomic analysis offers new perspectives for future analyses of the role of single nucleotide variants, homoeology and alternative splicing in the evolution of locomotor performance trade-offs. The online version contains supplementary material available at 10.1186/s12864-021-07517-1.
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