Whole genome resequencing of the Iranian native dogs and wolves to unravel variome during dog domestication

BMC Genomics
Zeinab Amiri GhanatsamanYa-Ping Zhang

Abstract

Advances in genome technology have simplified a new comprehension of the genetic and historical processes crucial to rapid phenotypic evolution under domestication. To get new insight into the genetic basis of the dog domestication process, we conducted whole-genome sequence analysis of three wolves and three dogs from Iran which covers the eastern part of the Fertile Crescent located in Southwest Asia where the independent domestication of most of the plants and animals has been documented and also high haplotype sharing between wolves and dog breeds has been reported. Higher diversity was found within the wolf genome compared with the dog genome. A total number of 12.45 million SNPs were detected in all individuals (10.45 and 7.82 million SNPs were identified for all the studied wolves and dogs, respectively) and a total number of 3.49 million small Indels were detected in all individuals (3.11 and 2.24 million small Indels were identified for all the studied wolves and dogs, respectively). A total of 10,571 copy number variation regions (CNVRs) were detected across the 6 individual genomes, covering 154.65 Mb, or 6.41%, of the reference genome (canFam3.1). Further analysis showed that the distribution of deleterious variants...Continue Reading

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Citations

Sep 18, 2020·BMC Research Notes·Zeinab Amiri GhanatsamanAli Esmailizadeh

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Methods Mentioned

BETA
genotyping
PCR

Software Mentioned

Picard
vcstools
GATK
Ensemble
UCSC
Genome Analysis Toolkit ( GATK )
BreakDancer
SAMtools
CNVnator
GATK HaplotypeCaller

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