Transcriptome-Facilitated Development of SNPs for the Sonoran Desert Rock Fig, Ficus petiolaris (Moraceae)

Premise of the study: Single-nucleotide polymorphism (SNP) primers were developed for a native North American desert fig, Ficus petiolaris (Moraceae), to provide markers for population genetic studies designed to quantify patterns of gene flow across a complex landscape. Methods and Results: Transcr...

Full description

Saved in:
Bibliographic Details
Published in:Applications in plant sciences 2015-07, Vol.3 (7), p.n/a
Main Authors: Davis, Nicholas G, Houston, Derek D, Nason, John D
Format: Article
Language:English
Subjects:
Chloroplasts
Coevolution
Deoxyribonucleic acid
DNA
Ficus petiolaris
Gene flow
Genomes
Genotyping
Mitochondria
Moraceae
Plant sciences
Polymorphism
Population genetics
population genomics
Population studies
PRIMER NOTES
Primers
Proteins
RNA sequencing
Single-nucleotide polymorphism
transcriptome sequencing
Citations: Items that this one cites
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
Description
Summary:Premise of the study: Single-nucleotide polymorphism (SNP) primers were developed for a native North American desert fig, Ficus petiolaris (Moraceae), to provide markers for population genetic studies designed to quantify patterns of gene flow across a complex landscape. Methods and Results: Transcriptome sequencing and bioinformatic protocols were implemented to discover SNPs in single-copy protein-coding genes. Multiplexes of 30 nuclear and 24 organellar (chloroplast and mitochondrial) SNPs were selected for primer development and genotyping on the Sequenom MASSArray System. Of these 54 loci, 49 reliably amplified across a panel of 96 F. petiolaris individuals. Conclusions: This study has provided SNP primers that can be applied in future studies investigating population genetics of F. petiolaris and its coevolution with associated pollinating and nonpollinating fig wasps.
ISSN:2168-0450
2168-0450
DOI:10.3732/apps.1500028