Genetic diversity and signature of divergence in the genome of grapevine clones of Southern Italy varieties_Merged_VCF

Published: 1 August 2023| Version 1 | DOI: 10.17632/pdzf7jbkyb.1
Contributors:
Francesca Taranto, Cinzia Montemurro, Pierfederico La Notte, Riccardo Aversano, Clizia Villano

Description

The VCF file merging SNP data points derived from the two datasets "Campania_unfiltered" and "Apulia_unfiltered", generated by ddRADseq and GBS approaches respectively.

Files

Steps to reproduce

After removing the duplicates, bcftools +fixref (https://samtools.github.io/bcftools/howtos/plugin.fixref.html) was used to fix the inconsistencies in reference (REF) – alternative (ALT) alleles between the two VCF files. Then the vcf-merge utility of VCFtools (Danecek et al. 2011) was used.

Institutions

  • Istituto di Bioscienze e Biorisorse Consiglio Nazionale delle Ricerche
  • Universita degli Studi di Bari Aldo Moro Dipartimento di Scienze del Suolo della Pianta e degli Alimenti
  • Universita degli Studi di Napoli Federico II
  • Istituto per la Protezione Sostenibile delle Piante Consiglio Nazionale delle Ricerche

Categories

Single Nucleotide Polymorphism, Vitis

Licence