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Development of a multi-species SNP array for serrasalmid fish Colossoma macropomum and Piaractus mesopotamicus
- Source :
- Scientific Reports, Vol 11, Iss 1, Pp 1-11 (2021), Scopus, Repositório Institucional da UNESP, Universidade Estadual Paulista (UNESP), instacron:UNESP, Scientific Reports
- Publication Year :
- 2021
- Publisher :
- Springer Science and Business Media LLC, 2021.
-
Abstract
- Made available in DSpace on 2022-04-29T08:34:55Z (GMT). No. of bitstreams: 0 Previous issue date: 2021-12-01 Comisión Nacional de Investigación Científica y Tecnológica Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq) Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP) Scarce genomic resources have limited the development of breeding programs for serrasalmid fish Colossoma macropomum (tambaqui) and Piaractus mesopotamicus (pacu), the key native freshwater fish species produced in South America. The main objectives of this study were to design a dense SNP array for this fish group and to validate its performance on farmed populations from several locations in South America. Using multiple approaches based on different populations of tambaqui and pacu, a final list of 29,575 and 29,612 putative SNPs was selected, respectively, to print an Axiom AFFYMETRIX (THERMOFISHER) SerraSNP array. After validation, 74.17% (n = 21,963) and 71.25% (n = 21,072) of SNPs were classified as polymorphic variants in pacu and tambaqui, respectively. Most of the SNPs segregated within each population ranging from 14,199 to 19,856 in pacu; and from 15,075 to 20,380 in tambaqui. Our results indicate high levels of genetic diversity and clustered samples according to their hatchery origin. The developed SerraSNP array represents a valuable genomic tool approaching in-depth genetic studies for these species. São Paulo State University (Unesp) Aquaculture Center of Unesp Facultad de Ciencias Veterinarias y Pecuarias Universidad de Chile Facultad de Zootecnia Universidad Nacional Agraria de la Selva Facultad de Ciencias Agrarias Universidad de Antioquia São Paulo State University (Unesp) Aquaculture Center of Unesp CNPq: 140740/2016–3 FAPESP: 2016/18294–9 FAPESP: 2016/21011–9 FAPESP: 2017/19717-3 CNPq: 311559/2018–2
- Subjects :
- Molecular biology
Science
Tambaqui
Population
Zoology
Aquaculture
Breeding
Polymorphism, Single Nucleotide
Article
Pacu
Piaractus mesopotamicus
Genetics
Animals
education
education.field_of_study
Genetic diversity
Multidisciplinary
biology
Sequence Analysis, DNA
South America
biology.organism_classification
Hatchery
Computational biology and bioinformatics
Freshwater fish
Medicine
Characiformes
SNP array
Subjects
Details
- ISSN :
- 20452322
- Volume :
- 11
- Database :
- OpenAIRE
- Journal :
- Scientific Reports
- Accession number :
- edsair.doi.dedup.....3bb036d6c799976cf9e24c18a1fe3972