Dataset for the article « Portuguese Pinus nigra populations : genetic diversity, structure and relationships inferred by SSR markers » published in Annals of Forest Science, 2020, by Alexandra DIAS, Guia GIOVANELLI, Bruno FADY, Ilaria SPANU, Giovanni G VENDRAMIN, Francesca BAGNOLI, Ana CARVALHO, Maria Emília SILVA, José LIMA-BRITO, José Luís LOUSADA, Maria João GASPAR.

SSR database obtained by thirteen SSR markers for six populations of Pinus nigra in Portugal. The populations are representative of the species distribution in Portugal: Manteigas and Vale do Zêzere (center), Campeã and Vila Pouca de Aguiar (north) and Paredes de Coura and Caminha (northwest).