Rachycentron canadum
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA864890 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| Other | ||||
| Other | ||||
| SRR21156000.fastq.gz | Fastqsanger.gz | |||
| SRR21156001.fastq.gz | Fastqsanger.gz | |||
| SRR21156002.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 95 |
Similar Datasets
Project description:Rachycentron canadum Genome sequencing and assembly
| PRJNA634421 | ENA
Project description:Rachycentron canadum Transcriptome or Gene expression
| PRJNA892299 | ENA
Project description:Rachycentron canadum Transcriptome or Gene expression
| PRJNA550021 | ENA
Project description:De novo transcriptome assembly and functional annotation of cobia (Rachycentron canadum) liver
| PRJNA675281 | ENA
Project description:Transcriptome profiling of Cobia (Rachycentron canadum) in response to Photobacteriumdamselae subsp. piscicida
| PRJNA377793 | ENA
Project description:E. G. Silas Centre of Excellence and Innovations (EGS - CoEI) in Marine Fish Microbiome and Nutrigenomics
| PRJNA765138 | ENA
Project description:Background: Cobia (Rachycentron canadum) is a species of fish with high commercial potential particularly due to fast growth rates. The evidence of sexual size dimorphism favoring females indicate potential benefits in having a monosex culture. However, the involvement of genetic factors responsible for sexual development and gonadal maintenance that produces phenotypic sex in cobia is largely unknown. Methods: In the present study, we performed transcriptome sequencing of cobia to identify sex-biased significantly differentially expressed genes (DEGs) in testes and ovaries. The reliability of the gonad transcriptome data was validated by qPCR analysis of eight selected significantly differential expressed sex-related candidate genes. Results: This comparative gonad transcriptomic analysis revealed that 7,120 and 4,628 DEGs are up-regulated in testes or ovaries, respectively. Further functional annotation analyses identified 76 important candidate genes involved in sex determination cascades or sex differentiation, including 42 known testis-biased DEGs (dmrt1, amh and sox9 etc.), and 34 known ovary-biased DEGs (foxl2, sox3 and cyp19a etc.). Moreover, eleven significantly enriched pathways functionally related to sex determination and sex differentiation were identified, including Wnt signaling pathway, oocyte meiosis, the TGF-beta signaling pathway and MAPK signaling pathway. Conclusion: This work represents the first comparative gonad transcriptome study in cobia. The putative sex-associated DEGs and pathways provide an important molecular basis for further investigation of cobia's sex determination, gonadal development as well as potential control breeding of monosex female populations for a possible aquaculture setting.
| S-EPMC10117682 | biostudies-literature
Project description:Cobia (Rachycentron canadum, Rachycentridae) is one of the prospective species for mariculture. The transcriptome-based study on cobia was hampered by an inadequate reference genome and a lack of full-length cDNAs. We used a long-read based sequencing technology (PacBio Sequel II Iso-Seq3 SMRT) to obtain complete transcriptome sequences from larvae, juveniles, and various tissues of adult cobia, and a single SMRTcell generated 99 gigabytes of data and 51,205,946,694 bases. A total of 8609435, 7441673 and 9140164 subreads were generated from the larval, juvenile, and adult sample pools, with mean sub-read lengths of 2109.9, 1988.2 and 1996.2 bp, respectively. All samples were combined to increase transcript recovery and clustered into 35661 high-quality reads. This is the first report on a full-length transcriptome from R. canadum. Our results illustrate a significant increase in the identified amount of cobia LncRNAs and alternatively spliced transcripts, which will help improve genome annotation. Furthermore, this information will be beneficial for nutrigenomics and functional studies on cobia and other commercially important mariculture species.
| S-EPMC9935508 | biostudies-literature