ArticleBMC genomics2011
Genomic insight into the common carp (Cyprinus carpio) genome by sequencing analysis of BAC-end sequences.
Article in BMC genomics, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers.
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Who cites it
36 citing papers in PubMed.
- Molecular Regulation of Growth in Aquaculture: From Genes to Sustainable Production.Life (Basel, Switzerland) · 2025Review
- Article
- Transcriptomic profiling revealed key signaling pathways for cold tolerance and acclimation of two carp species.BMC genomics · 2020Article
- The allotetraploid origin and asymmetrical genome evolution of the common carp Cyprinus carpio.Nature communications · 2019Article
- Construction of a Genomic Bacterial Artificial Chromosome (BAC) Library for the Prawn Macrobrachium rosenbergii and Initial Analysis of ZW Chromosome-Derived BAC Inserts.Marine biotechnology (New York, N.Y.) · 2019Article
- Genome-Scale Association Study of Abnormal Scale Pattern in Yellow River Carp Identified Previously Known Causative Gene in European Mirror Carp.Marine biotechnology (New York, N.Y.) · 2018Article
- Exploring the phylogeography of a hexaploid freshwater fish by RAD sequencing.Ecology and evolution · 2018Article
- An ultra-high density linkage map and QTL mapping for sex and growth-related traits of common carp (Cyprinus carpio).Scientific reports · 2016Article
- QTL variations for growth-related traits in eight distinct families of common carp (Cyprinus carpio).BMC genetics · 2016Article
- Targeted disruption of sp7 and myostatin with CRISPR-Cas9 results in severe bone defects and more muscular cells in common carp.Scientific reports · 2016Article
- Genome Wide Identification, Phylogeny, and Expression of Aquaporin Genes in Common Carp (Cyprinus carpio).PloS one · 2016Article
- Genome-Wide Association Study for Muscle Fat Content and Abdominal Fat Traits in Common Carp (Cyprinus carpio).PloS one · 2016Article
- Article
- Phylogeny and Evolution of Multiple Common Carp (Cyprinus carpio L.) Populations Clarified by Phylogenetic Analysis Based on Complete Mitochondrial Genomes.Marine biotechnology (New York, N.Y.) · 2015Article
- Rapid genomic DNA changes in allotetraploid fish hybrids.Heredity · 2015Article
- Article
- Genome sequence and genetic diversity of the common carp, Cyprinus carpio.Nature genetics · 2014Article
- Consolidation of the genetic and cytogenetic maps of turbot (Scophthalmus maximus) using FISH with BAC clones.Chromosoma · 2014Article
- Development and evaluation of the first high-throughput SNP array for common carp (Cyprinus carpio).BMC genomics · 2014Article
- Construction of a high-coverage bacterial artificial chromosome library and comprehensive genetic linkage map of yellowtail Seriola quinqueradiata.BMC research notes · 2014Article
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Authors and funding
9 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundCommon carp is one of the most important aquaculture teleost fish in the world. Common carp and other closely related Cyprinidae species provide over 30% aquaculture production in the world. However, common carp genomic resources are still relatively underdeveloped. BAC end sequences (BES) are important resources for genome research on BAC-anchored genetic marker development, linkage map and physical map integration, and whole genome sequence assembling and scaffolding.
resultTo develop such valuable resources in common carp (Cyprinus carpio), a total of 40,224 BAC clones were sequenced on both ends, generating 65,720 clean BES with an average read length of 647 bp after sequence processing, representing 42,522,168 bp or 2.5% of common carp genome. The first survey of common carp genome was conducted with various bioinformatics tools. The common carp genome contains over 17.3% of repetitive elements with GC content of 36.8% and 518 transposon ORFs. To identify and develop BAC-anchored microsatellite markers, a total of 13,581 microsatellites were detected from 10,355 BES. The coding region of 7,127 genes were recognized from 9,443 BES on 7,453 BACs, with 1,990 BACs have genes on both ends. To evaluate the similarity to the genome of closely related zebrafish, BES of common carp were aligned against zebrafish genome. A total of 39,335 BES of common carp have conserved homologs on zebrafish genome which demonstrated the high similarity between zebrafish and common carp genomes, indicating the feasibility of comparative mapping between zebrafish and common carp once we have physical map of common carp.
conclusionBAC end sequences are great resources for the first genome wide survey of common carp. The repetitive DNA was estimated to be approximate 28% of common carp genome, indicating the higher complexity of the genome. Comparative analysis had mapped around 40,000 BES to zebrafish genome and established over 3,100 microsyntenies, covering over 50% of the zebrafish genome. BES of common carp are tremendous tools for comparative mapping between the two closely related species, zebrafish and common carp, which should facilitate both structural and functional genome analysis in common carp.
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