Ontology highlight
ABSTRACT:
PROVIDER: PRJNA540314 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR8992247_1.fastq.gz | Fastqsanger.gz | |||
| SRR8992247_2.fastq.gz | Fastqsanger.gz |
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Project description:The swamp eel or rice field eel (Monopterus albus) taxonomically belongs to the family Synbranchidae of the order Synbranchiformes (Neoteleostei, Teleostei, Vertebrata). It is not only an economically important freshwater fish in aquacultural production, but also an increasingly known model species for biological studies. Understanding molecular mechanisms underlying sex change is a major area of interest. The swamp eel thus offers a powerful system for studying sexual development and adaptive evolution in vertebrates.The whole genome sequencing provides valuable resources for sex control in fish production, species protection through manipulating sex reversal genes, and potentially enabling effective population control and promoting reproduction health in human. High throughput sequencing was employed for three samples,three kind s of sex gonad from swamp eel, testis,ovotestis and ovary, no replicates.
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Project description:The swamp eel or rice field eel (Monopterus albus) taxonomically belongs to the family Synbranchidae of the order Synbranchiformes (Neoteleostei, Teleostei, Vertebrata). It is not only an economically important freshwater fish in aquacultural production, but also an increasingly known model species for biological studies. Understanding molecular mechanisms underlying sex change is a major area of interest. The swamp eel thus offers a powerful system for studying sexual development and adaptive evolution in vertebrates.The whole genome sequencing provides valuable resources for sex control in fish production, species protection through manipulating sex reversal genes, and potentially enabling effective population control and promoting reproduction health in human.
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Project description:The rice field eel (Monopterus albus) is an economically important freshwater-farmed fish with natural sex reversal characteristics, which results in low egg production and seedling shortage. Limited epigenomic and transcriptomic information during sex reversal hinders research on the reproductive development of Monopterus albus. In this investigation, 9 key stages during sex reversal were collected for multi-omics experiments, including PacBio Iso-seq, RNA-seq and ATAC-seq. Through combined analysis of Iso-seq and RNA-seq, we constructed more accurate transcript annotation than those from NCBI. A total of 37,911 unannotated transcripts were obtained, including transcripts from novel genes and alternative splicing structures, etc. The noteworthy point is that our annotations have more precise polyA locations. In addition, we identified multiple potential cis-regulatory elements with high confidence based on changes in chromatin accessibility by ATAC-seq, providing precise targets for regulating gene expression and thereby modulating gonadal development. In summary, we provides a comprehensive and convenient data resource for studying sex reversal-related mechanisms from multiple perspectives.
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Project description:The rice field eel (Monopterus albus) is an economically important freshwater-farmed fish with natural sex reversal characteristics, which results in low egg production and seedling shortage. Limited epigenomic and transcriptomic information during sex reversal hinders research on the reproductive development of Monopterus albus. In this investigation, 9 key stages during sex reversal were collected for multi-omics experiments, including PacBio Iso-seq, RNA-seq and ATAC-seq. Through combined analysis of Iso-seq and RNA-seq, we constructed more accurate transcript annotation than those from NCBI. A total of 37,911 unannotated transcripts were obtained, including transcripts from novel genes and alternative splicing structures, etc. The noteworthy point is that our annotations have more precise polyA locations. In addition, we identified multiple potential cis-regulatory elements with high confidence based on changes in chromatin accessibility by ATAC-seq, providing precise targets for regulating gene expression and thereby modulating gonadal development. In summary, we provides a comprehensive and convenient data resource for studying sex reversal-related mechanisms from multiple perspectives.
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