ArticleScientific reports2017
Development of a 690 K SNP array in catfish and its application for genetic mapping and validation of the reference genome sequence.
Article in Scientific reports, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers.
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Who cites it
32 citing papers in PubMed.
- Review
- Hydin as the Candidate Master Sex Determination Gene in Channel Catfish (Ictalurus punctatus) and Its Epigenetic Regulation.Marine biotechnology (New York, N.Y.) · 2024Review
- Decoding the fish genome opens a new era in important trait research and molecular breeding in China.Science China. Life sciences · 2024Review
- Reference genomes of channel catfish and blue catfish reveal multiple pericentric chromosome inversions.BMC biology · 2023Article
- Review
- Single Nucleotide Polymorphism Markers with Applications in Conservation and Exploitation of Aquatic Natural Populations.Animals : an open access journal from MDPI · 2023Review
- Article
- Allelically and Differentially Expressed Genes After Infection of Edwardsiella ictaluri in Channel Catfish as Determined by Bulk Segregant RNA-Seq.Marine biotechnology (New York, N.Y.) · 2022Article
- Development of a High-Density 665 K SNP Array for Rainbow Trout Genome-Wide Genotyping.Frontiers in genetics · 2022Article
- Development of a multi-species SNP array for serrasalmid fish Colossoma macropomum and Piaractus mesopotamicus.Scientific reports · 2021Article
- Article
- Genetic Dissection of a Precocious Phenotype in Male Tiger Pufferfish (Takifugu rubripes) using Genotyping by Random Amplicon Sequencing, Direct (GRAS-Di).Marine biotechnology (New York, N.Y.) · 2021Article
- Development and validation of a RAD-Seq target-capture based genotyping assay for routine application in advanced black tiger shrimp (Penaeus monodon) breeding programs.BMC genomics · 2020Article
- Development and Validation of an Open Access SNP Array for Nile Tilapia (G3 (Bethesda, Md.) · 2020Article
- High-Throughput Single Nucleotide Polymorphism (SNP) Discovery and Validation Through Whole-Genome Resequencing in Nile Tilapia (Oreochromis niloticus).Marine biotechnology (New York, N.Y.) · 2020Article
- Non-synonymous polymorphisms in candidate gene associated with growth traits in Channel catfish (Ictalurus punctatus, Rafinesque, 1818).Molecular biology reports · 2020Article
- Development and Evaluation of a High-Throughput Single-Nucleotide Polymorphism Array for Large Yellow Croaker (Frontiers in genetics · 2020Article
- GWAS Analysis Indicated Importance of NF-κB Signaling Pathway in Host Resistance Against Motile Aeromonas Septicemia Disease in Catfish.Marine biotechnology (New York, N.Y.) · 2019Article
- Chromosome-scale assemblies reveal the structural evolution of African cichlid genomes.GigaScience · 2019Article
- The Y chromosome sequence of the channel catfish suggests novel sex determination mechanisms in teleost fish.BMC biology · 2019Article
Corrections and comments
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Authors and funding
11 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Single nucleotide polymorphisms (SNPs) are capable of providing the highest level of genome coverage for genomic and genetic analysis because of their abundance and relatively even distribution in the genome. Such a capacity, however, cannot be achieved without an efficient genotyping platform such as SNP arrays. In this work, we developed a high-density SNP array with 690,662 unique SNPs (herein 690 K array) that were relatively evenly distributed across the entire genome, and covered 98.6% of the reference genome sequence. Here we also report linkage mapping using the 690 K array, which allowed mapping of over 250,000 SNPs on the linkage map, the highest marker density among all the constructed linkage maps. These markers were mapped to 29 linkage groups (LGs) with 30,591 unique marker positions. This linkage map anchored 1,602 scaffolds of the reference genome sequence to LGs, accounting for over 97% of the total genome assembly. A total of 1,007 previously unmapped scaffolds were placed to LGs, allowing validation and in few instances correction of the reference genome sequence assembly. This linkage map should serve as a valuable resource for various genetic and genomic analyses, especially for GWAS and QTL mapping for genes associated with economically important traits.
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