Whole-Genome Sequencing of Sinocyclocheilus maitianheensis Reveals Phylogenetic Evolution and Immunological Variances in Various Sinocyclocheilus Fishes
| Autor: | Ruihan Li, Xiaoai Wang, Chao Bian, Zijian Gao, Yuanwei Zhang, Wansheng Jiang, Mo Wang, Xinxin You, Le Cheng, Xiaofu Pan, Junxing Yang, Qiong Shi |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2021 |
| Předmět: |
Whole genome sequencing
assembly whole genome sequencing cave adaptation Phylogenetic tree biology Sinocyclocheilus anophthalmus Sequence assembly QH426-470 biology.organism_classification phylogeny Genome immunity annotation Evolutionary biology Phylogenetics Sinocyclocheilus maitianheensis Genetics Data Report Molecular Medicine Sinocyclocheilus Genetics (clinical) |
| Zdroj: | Frontiers in Genetics Frontiers in Genetics, Vol 12 (2021) |
| ISSN: | 1664-8021 |
| Popis: | An adult Sinocyclocheilus maitianheensis, a surface-dwelling golden-line barbel fish, was collected from Maitian river (Kunming City, Yunnan Province, China) for whole-genome sequencing, assembly, and annotation. We obtained a genome assembly of 1.7 Gb with a scaffold N50 of 1.4 Mb and a contig N50 of 24.7 kb. A total of 39,977 protein-coding genes were annotated. Based on a comparative phylogenetic analysis of five Sinocyclocheilus species and other five representative vertebrates with published genome sequences, we found that S. maitianheensis is close to Sinocyclocheilus anophthalmus (a cave-restricted species with similar locality). Moreover, the assembled genomes of S. maitianheensis and other four Sinocyclocheilus counterparts were used for a fourfold degenerative third-codon transversion (4dTv) analysis. The recent whole-genome duplication (WGD) event was therefore estimated to occur about 18.1 million years ago. Our results also revealed a decreased tendency of copy number in many important genes related to immunity and apoptosis in cave-restricted Sinocyclocheilus species. In summary, we report the first genome assembly of S. maitianheensis, which provides a valuable genetic resource for comparative studies on cavefish biology, species protection, and practical aquaculture of this potentially economical fish. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|