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ABSTRACT: high-quality full-length reference transcripts of skin of the Chinese giant salamander, Andrias davidianus

PROVIDER: PRJNA433898 | ENA |

REPOSITORIES: ENA

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Dataset's files

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			Action	DRS
	SRR6762403_subreads.fastq.gz	Fastqsanger.gz
	SRR6762396_subreads.fastq.gz	Fastqsanger.gz
	SRR7587551_1.fastq.gz	Fastqsanger.gz
	SRR7587551_2.fastq.gz	Fastqsanger.gz

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Transcriptome profiles in the spleen of the Chinese giant salamander (Andrias davidianus) challenged with Citrobacter freundii

Project description:The Chinese giant salamander (Andrias davidianus) is one of the most important ecological breeding species with distinct characteristics and is cultured in many locations throughout China. In the present study, the transcriptome of A. davidianus spleen tissue, that had challenged with Citrobacter freundii, was analyzed using Illumina sequencing technology. The result was compared to a heathy control group. After assembly and annotation, 128,540 transcripts were generated with a median length of 349 bp. Comparative expression analysis indicated 1,995 differentially expressed genes (DEGs), 812 of which were up-regulated and 1,183 were down-regulated. Furthermore, DEGs were classified into three gene ontology categories, 535 of which were annotated to 237 KEGG pathways. Finally, six immune-related DEGs involved in the immune-related pathways were randomly selected for scrutinization. This work provides valuable data for an improved understanding the defense mechanisms of A. davidianus against bacterial pathogens at the transcriptional level.

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Project description:The Chinese giant salamander (CGS, Andrias davidianus) is the largest and longest-lived amphibian. Global and quantitative proteome analysis of multiple tissues would indicate tissue-specific mechanisms and investigate the function of each protein from a whole-organism perspective. Herein, this study performed proteome analysis of eleven tissues collected from adult female CGS using isobaric tags for relative and absolute quantitation (iTRAQ) coupled with LC-MS/MS methods. Based on the predicted protein database from CGS transcriptome database previously obtained, we identified a total of 4607 proteins with quantitative information. Among them, 2153 proteins were shared by two iTRAQ 8-plex experiments with liver as common sample, and these proteins were used for subsequent analysis. Our data will be useful for future research into this large-genome species, as well as for vertebrate-wide comparative genomic, transcriptomic and proteomic studies.

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