ArticleScientific reports2017
Large-scale SNP discovery and construction of a high-density genetic map of Colossoma macropomum through genotyping-by-sequencing.
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 17 papers.
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Who cites it
17 citing papers in PubMed.
- Review
- The effect of environmental factors on transepithelial potential in a model Amazonian teleost, the tambaqui (Colossoma macropomum): Implications for sodium balance in harsh environments.Journal of fish biology · 2026Article
- Continent-island boundary and environment-shaped evolution in the marine amphipod Ampithoe marcuzzii complex (Crustacea: Eumalacostraca: Ampithoidae).Scientific reports · 2024Article
- Genomic selection signatures in farmedEvolutionary applications · 2022Article
- GBS-MeDIP: A protocol for parallel identification of genetic and epigenetic variation in the same reduced fraction of genomes across individuals.STAR protocols · 2022Article
- Construction of a high-density genetic map and localization of grazing-tolerant QTLs inFrontiers in plant science · 2022Article
- A high-density linkage map and sex-linked markers for the Amazon Tambaqui Colossoma macropomum.BMC genomics · 2021Article
- Development of a multi-species SNP array for serrasalmid fish Colossoma macropomum and Piaractus mesopotamicus.Scientific reports · 2021Article
- Genome assembly and annotation of the tambaqui (GigaByte (Hong Kong, China) · 2021Article
- Development of a SNP linkage map and genome-wide association study for resistance to Aeromonas hydrophila in pacu (Piaractus mesopotamicus).BMC genomics · 2020Article
- Determining minimum numbers of di-allelic diagnostic markers required to identify introgressions in diploid cross-species hybrid individuals from different types of inter- and backcross populations.Genetics and molecular biology · 2020Article
- A first genetic linage map construction and QTL mapping for growth traits in Larimichthys polyactis.Scientific reports · 2020Article
- Transcriptomic evidences of local thermal adaptation for the native fish Colossoma macropomum (Cuvier, 1818).Genetics and molecular biology · 2020Article
- Article
- Artificially designed hybrids facilitate efficient generation of high-resolution linkage maps.Scientific reports · 2018Article
- Highly dense linkage maps from 31 full-sibling families of turbot (Scophthalmus maximus) provide insights into recombination patterns and chromosome rearrangements throughout a newly refined genome assembly.DNA research : an international journal for rapid publication of reports on genes and genomes · 2018Article
- The physiology of the Tambaqui (Colossoma macropomum) at pH 8.0.Journal of comparative physiology. B, Biochemical, systemic, and environmental physiology · 2018Article
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9 authors.
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Abstract
Colossoma macropomum, or tambaqui, is the largest native Characiform species found in the Amazon and Orinoco river basins, yet few resources for genetic studies and the genetic improvement of tambaqui exist. In this study, we identified a large number of single-nucleotide polymorphisms (SNPs) for tambaqui and constructed a high-resolution genetic linkage map from a full-sib family of 124 individuals and their parents using the genotyping by sequencing method. In all, 68,584 SNPs were initially identified using minimum minor allele frequency (MAF) of 5%. Filtering parameters were used to select high-quality markers for linkage analysis. We selected 7,734 SNPs for linkage mapping, resulting in 27 linkage groups with a minimum logarithm of odds (LOD) of 8 and maximum recombination fraction of 0.35. The final genetic map contains 7,192 successfully mapped markers that span a total of 2,811 cM, with an average marker interval of 0.39 cM. Comparative genomic analysis between tambaqui and zebrafish revealed variable levels of genomic conservation across the 27 linkage groups which allowed for functional SNP annotations. The large-scale SNP discovery obtained here, allowed us to build a high-density linkage map in tambaqui, which will be useful to enhance genetic studies that can be applied in breeding programs.
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