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The transcriptome of larval carcasses from both wildtype and Nxt1 trans-heterozygotes

ABSTRACT: The transcriptome of larval carcasses from both wildtype and Nxt1 trans-heterozygotes

PROVIDER: PRJNA559379 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR9933780_1.fastq.gz	Fastqsanger.gz
	SRR9933780_2.fastq.gz	Fastqsanger.gz
	SRR9933781_1.fastq.gz	Fastqsanger.gz
	SRR9933781_2.fastq.gz	Fastqsanger.gz
	SRR9933782_1.fastq.gz	Fastqsanger.gz

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The transcriptome of larval carcasses from both wildtype and Nxt1 trans-heterozygotes

Project description:The transcriptome of larval carcasses from both wildtype and Nxt1 trans-heterozygotes were assessed by RNA-Seq. A total of 1821 genes were down-regulated and 1339 genes were up-regulated. Down-regulated genes had a higher total intron length and had more introns, while up-regulated genes had a lower total intron length and less introns when compared to the non-differentially expressed genes. The majority of down-regulated genes were involved in the production of circular RNAs (circRNAS). We further investigated circRNA expression in larval carcasses from both wildtype and Nxt1 trans-heterozygotes by sequencing total RNA after RNAseR treatment. RNAseR digests linear RNA and thus enriches for circRNAs. Mock samples without RNAseR treatment were also sequenced. We found that circRNA products of Nxt1-responsive genes are reduced in Nxt1 mutants, although the nascent transcripts of these genes are produced at normal levels.

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Analysing the gene expression between wildtype and Nxt1 trans-heterozygotes in larval carcasses

Project description:We used larval carcasses of both wildtype and Nxt1 trans-heterozygotes for RNA paired-end sequencing and obtained a read depth between 21M to 32M reads across all samples. A total of 1821 genes were down-regulated and 1339 genes were up-regulated. A python script extracting intron data of genes from the FlyMine database identified a trend where down-regulated genes had a higher total intron length and had more introns. Up-regulated genes had a lower total intron length and less introns when compared to the non-differentially expressed genes. Furthermore, down-regulated genes showed that the majority of genes are involved in the production of circular RNAs

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