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 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.
Institute of Ecology and Evolutionary Biology, National Taiwan University, Taipei, Taiwan.
Huei-Jiun
HJ
Su
Department of Cell and Developmental Biology, John Innes Centre, Norwich, United Kingdom.
Saskia A
SA
Hogenhout
Department of Crop Sciences, Sultan Qaboos University, Al Khoud, Oman.
Abdullah M
AM
Al-Sadi
Institute of Plant and Microbial Biology, Academia Sinica, Taipei, Taiwan; Molecular and Biological Agricultural Sciences Program, Taiwan International Graduate Program, National Chung Hsing University and Academia Sinica, Taipei, Taiwan; Biotechnology Center, National Chung Hsing University, Taichung, Taiwan.
Chih-Horng
CH
Kuo
D001483:Base Sequence; D002957:Citrus / Q000145:classification / Q000235:genetics*; D055028:Comparative Genomic Hybridization; D054628:Genome, Chloroplast; D016013:Likelihood Functions; D019684:Magnoliopsida / Q000145:classification / Q000235:genetics*; D018895:Microsatellite Repeats / Q000235:genetics; D008969:Molecular Sequence Data; D010802:Phylogeny; D010940:Plant Proteins / Q000235:genetics; D017422:Sequence Analysis, DNA
D010940:Plant Proteins