Complete chloroplast genome sequence of Omani lime (Citrus aurantiifolia) and comparative analysis within the rosids

The genus Citrus contains many economically important fruits that are grown worldwide for their high nutritional and medicinal value. Due to frequent hybridizations among species and cultivars, the exact number of natural species and the taxonomic relationships within this genus are unclear. To comp...

Full description

Saved in:
Bibliographic Details
Published in:PloS one 2014-11, Vol.9 (11), p.e113049-e113049
Main Authors: Su, Huei-Jiun, Hogenhout, Saskia A, Al-Sadi, Abdullah M, Kuo, Chih-Horng
Format: Article
Language:English
Subjects:
Analysis
Base Sequence
Biology
Biology and Life Sciences
Chloroplasts
Citrus - classification
Citrus - genetics
Citrus aurantiifolia
Citrus fruits
Comparative analysis
Comparative Genomic Hybridization
Cultivars
Deoxyribonucleic acid
DNA
Economic analysis
Fruit cultivation
Fruits
Genetic aspects
Genetic markers
Genetic testing
Genome, Chloroplast
Genomes
Genomics
Geraniaceae
Hybridization
Interspecific
Interspecific relationships
Likelihood Functions
Lime
Magnoliopsida - classification
Magnoliopsida - genetics
Markers
Microsatellite Repeats - genetics
Molecular Sequence Data
Mutation
Nucleotide sequence
Phylogenetics
Phylogeny
Plant Proteins - genetics
Sapindales
Sequence Analysis, DNA
Simple sequence repeats
Species
Citations: Items that this one cites
Items that cite this one
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
Description
Summary:The genus Citrus contains many economically important fruits that are grown worldwide for their high nutritional and medicinal value. Due to frequent hybridizations among species and cultivars, the exact number of natural species and the taxonomic relationships within this genus are unclear. To compare the differences between the Citrus chloroplast genomes and to develop useful genetic markers, we used a reference-assisted approach to assemble the complete chloroplast genome of Omani lime (C. aurantiifolia). The complete C. aurantiifolia chloroplast genome is 159,893 bp in length; the organization and gene content are similar to most of the rosids lineages characterized to date. Through comparison with the sweet orange (C. sinensis) chloroplast genome, we identified three intergenic regions and 94 simple sequence repeats (SSRs) that are potentially informative markers with resolution for interspecific relationships. These markers can be utilized to better understand the origin of cultivated Citrus. A comparison among 72 species belonging to 10 families of representative rosids lineages also provides new insights into their chloroplast genome evolution.
ISSN:1932-6203
1932-6203
DOI:10.1371/journal.pone.0113049