Dataset Information

The complete mitochondrial genome of Omei Treefrog (Rhacophorus omeimontis).

ABSTRACT: In this study, the complete mitochondrial genome of Rhacophorus omeimontis was obtained and described. The sequenced mitogenome is total 19,604 base pairs (bp) in length, which contained 13 protein-coding genes (PCG_S), 22 transfer RNA genes (tRNA), 2 ribosomal RNA genes (rRNA), and 2 control regions (D-loop). The overall base composition of the mitochondrial DNA is 32.5% for A, 30.5% for T, 23.3% for C, and 13.7% for G, and the percentage of GC content is 37.0%. The complete mitochondrial genome information of R. omeimontis will contribute to revealing the phylogenetic relationships among species of family Rhacophoridae.

SUBMITTER: Fu C

PROVIDER: S-EPMC7720942 | biostudies-literature | 2019 Dec

REPOSITORIES: biostudies-literature

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The complete mitochondrial genome of Omei Treefrog (Rhacophorus omeimontis).

Fu Changkun C Wang Qian Q Hu Tao T Lei Ziyong Z Fan Hailin H Zhao Tianmeng T Zong Hao H

Mitochondrial DNA. Part B, Resources 20191213 1

In this study, the complete mitochondrial genome of Rhacophorus omeimontis was obtained and described. The sequenced mitogenome is total 19,604 base pairs (bp) in length, which contained 13 protein-coding genes (PCGS), 22 transfer RNA genes (tRNA), 2 ribosomal RNA genes (rRNA), and 2 control regions (D-loop). The overall base composition of the mitochondrial DNA is 32.5% for A, 30.5% for T, 23.3% for C, and 13.7% for G, and the percentage of GC content is 37.0%. The complete mi ...[more]

PMID: 33366529

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Project description:BackgroundPleistocene climatic oscillations and historical geological events may both influence current patterns of genetic variation, and the species in southern China that faced unique climatic and topographical events have complex evolutionary histories. However, the relative contributions of climatic oscillations and geographical events to the genetic variation of these species remain undetermined. To investigate patterns of genetic variation and to test the hypotheses about the factors that shaped the distribution of this genetic variation in species of southern China, mitochondrial genes (cytochrome b and NADH dehydrogenase subunit 2) and nine microsatellite loci of the Omei tree frog (Rhacophorus omeimontis) were amplified in this study.ResultsThe genetic diversity in the populations of R. omeimontis was high. The phylogenetic trees reconstructed from the mitochondrial DNA (mtDNA) haplotypes and the Bayesian genetic clustering analysis based on microsatellite data both revealed that all populations were divided into three lineages (SC, HG and YN). The two most recent splitting events among the lineages coincided with recent geological events (including the intense uplift of the Qinghai-Tibet Plateau, QTP and the subsequent movements of the Yun-Gui Plateau, YGP) and the Pleistocene glaciations. Significant expansion signals were not detected in mismatch analyses or neutrality tests. And the effective population size of each lineage was stable during the Pleistocene.ConclusionsBased on the results of this study, complex geological events (the recent dramatic uplift of the QTP and the subsequent movements of the YGP) and the Pleistocene glaciations were apparent drivers of the rapid divergence of the R. omeimontis lineages. Each diverged lineages survived in situ with limited gene exchanges, and the stable demographics of lineages indicate that the Pleistocene climatic oscillations were inconsequential for this species. The analysis of genetic variation in populations of R. omeimontis contributes to the understanding of the effects of changes in climate and of geographical events on the dynamic development of contemporary patterns of genetic variation in the species of southern China.

Project description:BackgroundThe production of foam nests is one of the strategies that has evolved to allow some anuran species to protect their eggs and larvae. Despite considerable knowledge of the biochemical components of and construction behavior leading to anuran foam nests, little is known about the molecular basis of foam nest construction. Rhacophorus omeimontis presents an arboreal foam-nesting strategy during the breeding season. To better understand the molecular mechanism of foam nest production, transcriptome sequencing was performed using the oviduct of female R. omeimontis during the period when foam nest production began and the period when foam nest production was finished.ResultsThe transcriptomes of six oviduct samples of R. omeimontis were obtained using Illumina sequencing. A total of 84,917 unigenes were obtained, and 433 genes (270 upregulated and 163 downregulated) were differentially expressed between the two periods. These differentially expressed genes (DEGs) were mainly enriched in extracellular space and extracellular region based on Gene Ontology (GO) enrichment analysis and in the pathways of two-component system, cell adhesion molecules, steroid hormone biosynthesis and neuroactive ligand-receptor interaction based on Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis. Specifically, genes encoding lectins, surfactant proteins and immunity components were highly expressed when the foam nest construction began, indicating that the constituents of foam nests in R. omeimontis were likely a mixture of surfactant, lectins and immune defense proteins. During the period when foam nest production was finished, genes related to lipid metabolism, steroid hormone and immune defense were highly expressed, indicating their important roles in regulating the process of foam nesting.ConclusionsOur study provides a rich list of potential genes involved in the production of foam nests in R. omeimontis. These results provide insights into the molecular mechanisms underlying the process of foam nest construction and will facilitate further studies of R. omeimontis.

Dataset Information

The complete mitochondrial genome of Omei Treefrog (Rhacophorus omeimontis).

Publications

The complete mitochondrial genome of Omei Treefrog (<i>Rhacophorus omeimontis</i>).

Similar Datasets

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