Accession PRJCA000748
Title Pistachio genomes elucidate salt-tolerance adaptation and domestication
Relevance Evolution
Data types Whole genome sequencing
Transcriptome or Gene expression
Genome sequencing and assembly
Organisms Pistacia vera
Pistacia integerrima
Pistacia khinjuk
Pistacia atlantica subsp. mutica
Pistacia terebinthus subsp. palaestina
Description We assembled a draft pistachio reference genome, and re-sequenced 107 whole genomes from 93 domestic and 14 wild pistachio individuals, and another 35 genomes from 13 Pistacia mutica, 13 Pistacia khinjuk, 4 Pistacia integerrima, 5 Pistacia palaestina. Utilizing comparative genomic analyses, we found expanded gene families, e.g. cytochrome P450 and chitinase, which were likely involved in salt tolerance for pistachio supported by RNA-sequencing. Comparative population genomic analyses revealed pistachio was domesticated ~8000 year ago, and many genes under artificial selection, particularly genes involved in starch metabolism and seed development, which likely contributed to the successful domestication of pistachio.
Sample scope Multispecies
Release date 2019-02-06
Publication
PubMed ID Article title Journal name DOI Year
30999938 Whole genomes and transcriptomes reveal adaptation and domestication of pistachio Genome Biology 10.1186/s13059-019-1686-3 2019
34315525 Whole genome resequencing data sets of different species from Pistacia genus BMC Research Notes 10.1186/s13104-021-05702-9 2021
Data provider
Data provider Data provider URL
Dong-Dong Wu
wudongdong@mail.kiz.ac.cn
Kunming Institute of Zoology, Chinese Academy of Sciences
http://www.kiz.ac.cn
Ali Esmailizadeh
aliesmaili@uk.ac.ir
Department of Animal Science, Faculty of Agriculture
Shahid Bahonar University of Kerman, Kerman, Iran
Submitter Dong-Dong    Wu  (wudongdong@mail.kiz.ac.cn)
Organization Kunming Institute of Zoology, Chinese Academy of Sciences
Submission date 2018-02-05

Project Data

Resource name Description
BioSample (156)  show -
GSA (1) -
CRA000978 genome and transcriptome of pistachio