ArticleGigaScience2017
A reference gene set construction using RNA-seq of multiple tissues of Chinese giant salamander, Andrias davidianus.
Article in GigaScience, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed, 36 citations in OpenAlex.
- Omics in mini-livestock: a genomic perspective on the future of sustainable food systems.Frontiers in genetics · 2025Review
- The paddy frog genome provides insight into the molecular adaptations and regulation of hibernation in ectotherms.iScience · 2024Article
- A high-density genetic map construction and sex-related loci identification in Chinese Giant salamander.BMC genomics · 2021Article
- Environmental Temperatures Affect the Gastrointestinal Microbes of the Chinese Giant Salamander.Frontiers in microbiology · 2021Article
- Functional identification of PsMYB57 involved in anthocyanin regulation of tree peony.BMC genetics · 2020Article
- Differential Proteomic Analysis of Chinese Giant Salamander Liver in Response to Fasting.Frontiers in physiology · 2020Article
- Proteomic analysis of eleven tissues in the Chinese giant salamander (Andrias davidianus).Scientific reports · 2019Article
- Hypothalamus-pituitary-gonad axis transcriptome profiling for sex differentiation in Acipenser sinensis.Scientific data · 2019Article
- Genome-wide RAD sequencing to identify a sex-specific marker in Chinese giant salamander Andrias davidianus.BMC genomics · 2019Article
- Identification of critical sex-biased genes in Andrias davidianus by de novo transcriptome.Molecular genetics and genomics : MGG · 2019Article
- A reference gene set construction using RNA-seq of multiple tissues of Chinese giant salamander, Andrias davidianus.GigaScience · 2017Article
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Authors and funding
18 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundChinese giant salamander (CGS) is the largest extant amphibian species in the world. Owing to its evolutionary position and four peculiar phenomenon of life (longevity, starvation tolerance, regenerative ability, and hatch without sunshine), it is an invaluable model species for research. However, lack of genomic resources leads to fewer study progresses in these fields, due to its huge genome of ∼50 GB making it extremely difficult to be assembled.
resultsWe reported the sequenced transcriptome of more than 20 tissues from adult CGS using Illumina Hiseq 2000 technology, and a total of 93 366 no-redundancy transcripts with a mean length of 1326 bp were obtained. We developed for the first time an efficient pipeline to construct a high-quality reference gene set of CGS and obtained 26 135 coding genes. BUSCO and homologous assessment showed that our assembly captured 70.6% of vertebrate universal single-copy orthologs, and this coding gene set had a higher proportion of completeness CDS with comparable quality of the protein sets of Tibetan frog.
conclusionsThese highest quality data will provide a valuable reference gene set to the subsequent research of CGS. In addition, our strategy of de novo transcriptome assembly and protein identification is applicable to similar studies.
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