title: Comparative analysis of chloroplast genomes of the genus Citrus and its close relatives.
abstract: The genus Citrus and its close relatives are economically and nutritionally important fruit trees. However, the huge controversy over the phylogeny of key wild species, as well as the genetic relationship between the cultivated species and their putative wild progenitors, remains unresolved. Comparative analyses of chloroplast (cp) genomes have been useful in resolving various phylogenetic issues. Thus far, the cp genomes of only two Citrus species have been sequenced. In this study, we sequenced six complete cp genomes, four belonging to the genus Citrus, and two belonging to the genera Fortunella and Poncirus, respectively. These newly sequenced genomes together with the two publicly available were used for comparative analyses of the genus Citrus and its close relatives. All eight cp genomes share similar basic structure, gene order and gene content. Phylogenetic analyses supported the monophyly of the three genera in the order Sapindales within the major clade Malvidae.
authors.affiliation: a College of Horticulture and Landscape Architecture, Southwest University , Chongqing , China.|b Key Laboratory of Horticulture Science for Southern Mountainous Regions, Ministry of Education , Chongqing , China.|c Post-Doctoral Station of Horticulture, Southwest University , Chongqing , China.
authors.forename: Xiaogang
authors.initials: X
authors.lastname: Liu
authors.affiliation: a College of Horticulture and Landscape Architecture, Southwest University , Chongqing , China.|b Key Laboratory of Horticulture Science for Southern Mountainous Regions, Ministry of Education , Chongqing , China.
authors.forename: Hongkun
authors.initials: H
authors.lastname: Wu
authors.affiliation: a College of Horticulture and Landscape Architecture, Southwest University , Chongqing , China.|b Key Laboratory of Horticulture Science for Southern Mountainous Regions, Ministry of Education , Chongqing , China.
authors.forename: Yan
authors.initials: Y
authors.lastname: Luo
authors.affiliation: a College of Horticulture and Landscape Architecture, Southwest University , Chongqing , China.|b Key Laboratory of Horticulture Science for Southern Mountainous Regions, Ministry of Education , Chongqing , China.
authors.forename: Wanpeng
authors.initials: W
authors.lastname: Xi
authors.affiliation: a College of Horticulture and Landscape Architecture, Southwest University , Chongqing , China.|b Key Laboratory of Horticulture Science for Southern Mountainous Regions, Ministry of Education , Chongqing , China.
authors.forename: Zhiqin
authors.initials: Z
authors.lastname: Zhou
mesh_terms: D001482:Base Composition; D002736:Chloroplasts / Q000235:genetics*; D002957:Citrus / Q000145:classification / Q000235:genetics*; D018742:DNA, Chloroplast / Q000737:chemistry / Q000302:isolation & purification / Q000378:metabolism; D054628:Genome, Chloroplast; D059014:High-Throughput Nucleotide Sequencing; D016366:Open Reading Frames / Q000235:genetics; D010802:Phylogeny; D017422:Sequence Analysis, DNA
chemical_list: D018742:DNA, Chloroplast
keywords: Chloroplast genome; Citrus; high-throughput sequencing