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GBS-derived SNP catalogue unveiled wide genetic variability and geographical relationships of Italian olive cultivars.

Authors :
D’Agostino, Nunzio
Taranto, Francesca
Camposeo, Salvatore
Mangini, Giacomo
Fanelli, Valentina
Gadaleta, Susanna
Miazzi, Monica Marilena
Pavan, Stefano
di Rienzo, Valentina
Sabetta, Wilma
Lombardo, Luca
Zelasco, Samanta
Perri, Enzo
Lotti, Concetta
Ciani, Elena
Montemurro, Cinzia
Source :
Scientific Reports; 10/26/2018, Vol. 8 Issue 1, p1-1, 1p
Publication Year :
2018

Abstract

Information on the distribution of genetic variation is essential to preserve olive germplasm from erosion and to recover alleles lost through selective breeding. In addition, knowledge on population structure and genotype-phenotype associations is crucial to support modern olive breeding programs that must respond to new environmental conditions imposed by climate change and novel biotic/abiotic stressors. To further our understanding of genetic variation in the olive, we performed genotype-by-sequencing on a panel of 94 Italian olive cultivars. A reference-based and a reference-independent SNP calling pipeline generated 22,088 and 8,088 high-quality SNPs, respectively. Both datasets were used to model population structure via parametric and non parametric clustering. Although the two pipelines yielded a 3-fold difference in the number of SNPs, both described wide genetic variability among our study panel and allowed individuals to be grouped based on fruit weight and the geographical area of cultivation. Multidimensional scaling analysis on identity-by-state allele-sharing values as well as inference of population mixtures from genome-wide allele frequency data corroborated the clustering pattern we observed. These findings allowed us to formulate hypotheses about geographical relationships of Italian olive cultivars and to confirm known and uncover novel cases of synonymy. [ABSTRACT FROM AUTHOR]

Details

Language :
English
ISSN :
20452322
Volume :
8
Issue :
1
Database :
Complementary Index
Journal :
Scientific Reports
Publication Type :
Academic Journal
Accession number :
132814414
Full Text :
https://doi.org/10.1038/s41598-018-34207-y