ArticlePloS one2013
Transcriptome analysis of crucian carp (Carassius auratus), an important aquaculture and hypoxia-tolerant species.
Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers.
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Who cites it
43 citing papers in PubMed.
- Primary Culture and Characterization of a Crucian Carp (Animals : an open access journal from MDPI · 2026Article
- Comparative transcriptome analysis provides new insights into the molecular mechanism of blunt snout bream (Megalobrama amblycephala) heart in response to hypoxic stress.Fish physiology and biochemistry · 2025Article
- Comparative Transcriptomics of Olfactory Rosettes Reveals Expression Divergence and Adaptive Evolution in Herbivorous and Carnivorous Xenocyprididae Fishes.Animals : an open access journal from MDPI · 2025Article
- Transcriptomic Divergence and Associated Markers Between Genomic Lineages of Silver Catfish (Ecology and evolution · 2025Article
- Development and sex affect respiratory responses to temperature and dissolved oxygen in the air-breathing fishes Betta splendens and Trichopodus trichopterus.Fish physiology and biochemistry · 2025Article
- CyExpDB: a web-based multi-species tissue-specific gene expression platform for functional genomics in Cyprinidae fish.Database : the journal of biological databases and curation · 2025Article
- Rice-Fish Farming Improved Antioxidant Defences, Glucose Metabolism, and Muscle Nutrient ofMetabolites · 2024Article
- Expression Profiles of Housekeeping Genes and Tissue-Specific Genes in Different Tissues of Chinese Sturgeon (Animals : an open access journal from MDPI · 2024Article
- Article
- The Supplementation of Berberine in High-Carbohydrate Diets Improves Glucose Metabolism of Tilapia (Animals : an open access journal from MDPI · 2024Article
- Multiple Tissues Transcriptome of Zig-Zag Eel (Animals : an open access journal from MDPI · 2024Article
- Multi-omics analysis of miRNA-mediated intestinal microflora changes in crucian carpFrontiers in immunology · 2024Article
- The transcriptomic responses of blunt snout bream (Megalobrama amblycephala) to acute hypoxia stress alone, and in combination with bortezomib.BMC genomics · 2022Article
- RNA-seq and qRT-PCR analyses reveal the physiological response to acute hypoxia and reoxygenation inFrontiers in physiology · 2022Article
- Quick detection ofFrontiers in cellular and infection microbiology · 2022Article
- Genetics Responses to Hypoxia and Reoxygenation Stress inAnimals : an open access journal from MDPI · 2021Article
- Comparative transcriptomic analysis of the brain in Takifugu rubripes shows its tolerance to acute hypoxia.Fish physiology and biochemistry · 2021Article
- Article
- Maltose promotes crucian carp survival againstVirulence · 2020Article
- Transcriptome Analysis of the Liver and Muscle Tissues of Black Carp (Mylopharyngodon piceus) of Different Growth Rates.Marine biotechnology (New York, N.Y.) · 2020Article
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Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The crucian carp is an important aquaculture species and a potential model to study genome evolution and physiological adaptation. However, so far the genomics and transcriptomics data available for this species are still scarce. We performed de novo transcriptome sequencing of four cDNA libraries representing brain, muscle, liver and kidney tissues respectively, each with six specimens. The removal of low quality reads resulted in 2.62 million raw reads, which were assembled as 127,711 unigenes, including 84,867 isotigs and 42,844 singletons. A total of 22,273 unigenes were found with significant matches to 14,449 unique proteins. Around14,398 unigenes were assigned with at least one Gene Ontology (GO) category in 84,876 total assignments, and 6,382 unigenes were found in 237 predicted KEGG pathways. The gene expression analysis revealed more genes expressed in brain, more up-regulated genes in muscle and more down-regulated genes in liver as compared with gene expression profiles of other tissues. In addition, 23 enzymes in the glycolysis/gluconeogenesis pathway were recovered. Importantly, we identified 5,784 high-quality putative SNP and 11,295 microsatellite markers which include 5,364 microsatellites with flanking sequences ≥50 bp. This study produced the most comprehensive genomic resources that have been derived from crucian carp, including thousands of genetic markers, which will not only lay a foundation for further studies on polyploidy origin and anoxic survival but will also facilitate selective breeding of this important aquaculture species.
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