Comparative genome-wide polymorphic microsatellite markers in Antarctic penguins through next generation sequencing

被引:3
作者
Vianna, Juliana A. [1 ,2 ]
Noll, Daly [1 ]
Mura-Jornet, Isidora [1 ]
Valenzuela-Guerra, Paulina [1 ]
Gonzalez-Acuna, Daniel [3 ]
Navarro, Cristell [4 ]
Loyola, David E. [4 ]
Dantas, Gisele P. M. [5 ]
机构
[1] Pontificia Univ Catolica Chile, Dept Ecosistemas & Medio Ambiente, Santiago, Chile
[2] Ctr Cambio Global UC, Santiago, Chile
[3] Univ Concepcion, Fac Ciencias Vet, Dept Ciencias Pecuarias, Chillan, Chile
[4] Ctr Nacl Genom & Bioinformat, Santiago, Chile
[5] Pontificia Univ Catolica Minas Gerais, Belo Horizonte, MG, Brazil
关键词
microsatellite markers; penguin; genome; polymorphism; tetranucleotide; CROSS-SPECIES UTILITY; GENETIC DIFFERENTIATION; HUMBOLDT PENGUIN; ADELIE PENGUINS; ANCIENT DNA; LOCI; EVOLUTION; COLONIES; IDENTIFICATION; DISPERSAL;
D O I
10.1590/1678-4685-GMB-2016-0224
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
Microsatellites are valuable molecular markers for evolutionary and ecological studies. Next generation sequencing is responsible for the increasing number of microsatellites for non-model species. Penguins of the Pygoscelis genus are comprised of three species: Adelie (P. adeliae), Chinstrap (P. antarcticus) and Gentoo penguin (P. papua), all distributed around Antarctica and the sub-Antarctic. The species have been affected differently by climate change, and the use of microsatellite markers will be crucial to monitor population dynamics. We characterized a large set of genome-wide microsatellites and evaluated polymorphisms in all three species. SOLiD reads were generated from the libraries of each species, identifying a large amount of microsatellite loci: 33,677, 35,265 and 42,057 for P. adeliae, P. antarcticus and P. papua, respectively. A large number of dinucleotide (66,139), trinucleotide (29,490) and tetranucleotide (11,849) microsatellites are described. Microsatellite abundance, diversity and orthology were characterized in penguin genomes. We evaluated polymorphisms in 170 tetranucleotide loci, obtaining 34 polymorphic loci in at least one species and 15 polymorphic loci in all three species, which allow to perform comparative studies. Polymorphic markers presented here enable a number of ecological, population, individual identification, parentage and evolutionary studies of Pygoscelis, with potential use in other penguin species.
引用
收藏
页码:676 / 687
页数:12
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