Piras, Daniela and Doro, Maria Grazia and Casu, Giuseppina and Melis, Paola Maria and Vaccargiu, Simona and Piras, Ignazio and Parracciani, Debora and Stradoni, Roberta and Frongia, Bruno and Lai, Graziano and Sale, Salvatore and Cattari, Walter and Piras, Roberto and Querci, Ombretta and Demuro, Piergiorgio and Cui, Sandro and Atzori, Franco and Mancosu, Marco and Marchiori, Francesca and Cammelli, Rossana and Spiga, Alessandra and Loddo, Pier Paolo and Pili, Gian Franco and Boi, Roberto and Argiolas, Giuseppe and Mereu, Paolo and Leoni, Giovanni Giuseppe and Naitana, Salvatore and Pirastu, Mario and Novelletto, Andrea (2012) Haplotype affinities resolve a major component of goat (Capra hircus) MtDNA D-loop diversity and reveal specific features of the Sardinian stock. PLoS One, Vol. 7 (2), e30785. eISSN 1932-6203. Article.
Goat mtDNA haplogroup A is a poorly resolved lineage absorbing most of the overall diversity and is found in locations as distant as Eastern Asia and Southern Africa. Its phylogenetic dissection would cast light on an important portion of the spread of goat breeding. The aims of this work were 1) to provide an operational definition of meaningful mtDNA units within haplogroup A, 2) to investigate the mechanisms underlying the maintenance of diversity by considering the modes of selection operated by breeders and 3) to identify the peculiarities of Sardinian mtDNA types. We sequenced the mtDNA D-loop in a large sample of animals (1,591) which represents a non-trivial quota of the entire goat population of Sardinia. We found that Sardinia mirrors a large quota of mtDNA diversity of Western Eurasia in the number of variable sites, their mutational pattern and allele frequency. By using Bayesian analysis, a distance-based tree and a network analysis, we recognized demographically coherent groups of sequences identified by particular subsets of the variable positions. The results showed that this assignment system could be reproduced in other studies, capturing the greatest part of haplotype diversity.
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