XB-ART-57943BMC Genomics March 23, 2021; 22 (1): 204.
Transcriptomic analysis of the trade-off between endurance and burst-performance in the frog Xenopus allofraseri.
BACKGROUND: 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. RESULTS: 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. CONCLUSION: 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.
PubMed ID: 33757428
PMC ID: PMC7986297
Article link: BMC Genomics
Species referenced: Xenopus tropicalis Xenopus laevis
Genes referenced: akap1 arhgdig arpc4 atp5f1b baz1b baz2a bnip3 camk2a carmil1 cdkn1c ckap5 cnksr2 colec12 copz1 cskmt ctsb ctsc dapk2 ddit3 eif5b esrra flnb gca gpc5 jund lmo7 mapk8 mef2a mettl21c mfn1 mybpc2 ncan nectin2 nfs1 nif3l1 pebp1.1 pnisr ptk2 pvalb ranbp3 rbl1 rcsd1 rmc1 rnf19b rps4x speg spib srsf7 tmod4 tubg1
GEO Series: GSE157915: NCBI
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References [+] :
Arif, A Ca(2+)-binding protein with numerous roles and uses: parvalbumin in molecular biology and physiology. 2009, Pubmed