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PolyA+ RNA-Seq profiling of Drosophila melanogaster late third instar larval ovary, testis and sex transformed gonads as a result of tra and dsx perturbation.

ABSTRACT: PolyA+ RNA-Seq profiling of Drosophila melanogaster late third instar larval ovary, testis and sex transformed gonads as a result of tra and dsx perturbation.

PROVIDER: PRJNA844981 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR19534920.fastq.gz	Fastqsanger.gz
	SRR19534921.fastq.gz	Fastqsanger.gz
	SRR19534922.fastq.gz	Fastqsanger.gz
	SRR19534923.fastq.gz	Fastqsanger.gz
	SRR19534924.fastq.gz	Fastqsanger.gz

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PolyA+ RNA-Seq profiling of Drosophila melanogaster late third instar larval ovary, testis and sex transformed gonads as a result of tra and dsx perturbation.

Project description:We designed this experiment to investigate the transcriptional changes in gonads as a result of sex transformation. Here we performed transcriptional profiling of the ovary transformed into testis from the tra loss of function (XX_tra_lof), testis transformed into ovary from the tra gain of function (XY_tra_gof) and ovary transformed into testis in dsxM gain of function (XX_DsxM_gof/lof) Drosophila melanogaster third instar larvae in biological quadruplicates. In addition, as controls we sequenced ovaries and testes from the female and male wildtype larvae respectively. We constructed polyA+ libraries of the gonads, cleaned off the fatbody and performed 50 bp, stranded single-end RNA-Seq.

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Project description:Channel catfish (Ictalurus punctatus) and tra catfish (Pangasianodon hypophthalmus) both belong to the order Siluriformes. Channel catfish does not possess an air-breathing organ (ABO), and thus cannot breathe in the air, while tra catfish is a facultative air-breather and use the swim bladder as its air-breathing organ, which provides for aerial breathing in low oxygen conditions. Tra and channel catfish serve as a great comparative model for studying the transition of life from water to terrestrial living, as well as for understanding genes that are crucial for development of the swim bladder and the function of air-breathing in tra catfish. We selected seven developmental stages in tra catfish for RNA-Seq analysis based on their transition to a stage that could live at 0 ppm oxygen. More than 587 million sequencing clean reads were generated in tra catfish, and a total of 21, 448 unique genes were detected. A comparative genomic analysis was conducted between channel catfish and tra catfish. Gene expression analysis was performed for these tra catfish specific genes. Hypoxia challenge and microtomy experiments collectively suggested that there are critical timepoints for the development of the air-breathing function and swim bladder development stages in tra catfish. Key genes were identified to be the best candidates of genes related to the air-breathing ability in tra catfish. This study provides a large data resource for functional genomic studies in air-breathing function in tra catfish, and sheds light on the adaption of aquatic organisms to the terrestrial environment.

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