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Comparative Analyses of Chloroplast Genomes From 14 Zanthoxylum Species: Identification of Variable DNA Markers and Phylogenetic Relationships Within the Genus
Zhao,Kaihui; Li,Lianqiang; Quan,Hong; Yang,Junbo; Zhang,Zhirong; Liao,Zhihua; Lan,Xiaozhong
2021
发表期刊FRONTIERS IN PLANT SCIENCE
ISSN1664-462X
卷号11页码:605793
摘要Zanthoxylum L. is an economic crop with a long history of cultivation and domestication and has important economic, ecological, and medicinal value. To solve the classification problems caused by the similar morphological characteristics of Zanthoxylum and establish a credible phylogenetic relationship, we sequenced and annotated six Zanthoxylum chloroplast (cp) genomes (Z. piasezkii, Z. armatum, Z. motuoense, Z. oxyphyllum, Z. multijugum, and Z. calcicola) and combined them with previously published genomes for the Zanthoxylum species. We used bioinformatics methods to analyze the genomic characteristics, contraction, and expansion of inverted repeat (IR) regions; differences in simple sequence repeats (SSRs) and long repeat sequences; species pairwise Ka/Ks ratios; divergence hotspots; and phylogenetic relationships of the 14 Zanthoxylum species. The results revealed that cp genomes of Zanthoxylum range in size from 158,071 to 158,963 bp and contain 87 protein-coding, 37 tRNA, and 8 rRNA genes. Seven mutational hotspots were identified as candidate DNA barcode sequences to distinguish Zanthoxylum species. The phylogenetic analysis strongly supported the genus Fagara as a subgenus of Zanthoxylum and proposed the possibility of a new subgenus in Zanthoxylum. The availability of these genomes will provide valuable information for identifying species, molecular breeding, and evolutionary analysis of Zanthoxylum.
关键词Zanthoxylum chloroplast genome divergent hotspots DNA barcode sequence phylogeny GENETIC DIVERSITY SSR-MARKERS SEQUENCE ANNOTATION PLATFORM MATK LOCI WILD PSBA
DOI10.3389/fpls.2020.605793
WOS记录号WOS:000611836300001
引用统计
被引频次:17[WOS]   [WOS记录]     [WOS相关记录]
文献类型期刊论文
条目标识符http://ir.kib.ac.cn/handle/151853/73554
专题中国科学院昆明植物研究所
作者单位1.Tibet Agr & Anim Husb Univ, Food Sci Coll, Tibetan Collaborat Innovat Ctr Agr & Anim Husb Re, TAAHC SWU Med Plant Joint R&D Ctr, Nyingchi, Peoples R China
2.Tibet Agr & Anim Husb Univ, Minist Educ, Key Lab Forest Ecol Tibet Plateau, Nyingchi, Peoples R China
3.Chinese Acad Sci, Kunming Inst Bot, Germplasm Bank Wild Species, Kunming, Yunnan, Peoples R China
4.Southwest Univ, Chongqing Engn & Technol Res Ctr Sweetpotato, Sch Life Sci, Minist Educ,Key Lab Ecoenvironm Three Gorges Rese, Chongqing, Peoples R China
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Zhao,Kaihui,Li,Lianqiang,Quan,Hong,et al. Comparative Analyses of Chloroplast Genomes From 14 Zanthoxylum Species: Identification of Variable DNA Markers and Phylogenetic Relationships Within the Genus[J]. FRONTIERS IN PLANT SCIENCE,2021,11:605793.
APA Zhao,Kaihui.,Li,Lianqiang.,Quan,Hong.,Yang,Junbo.,Zhang,Zhirong.,...&Lan,Xiaozhong.(2021).Comparative Analyses of Chloroplast Genomes From 14 Zanthoxylum Species: Identification of Variable DNA Markers and Phylogenetic Relationships Within the Genus.FRONTIERS IN PLANT SCIENCE,11,605793.
MLA Zhao,Kaihui,et al."Comparative Analyses of Chloroplast Genomes From 14 Zanthoxylum Species: Identification of Variable DNA Markers and Phylogenetic Relationships Within the Genus".FRONTIERS IN PLANT SCIENCE 11(2021):605793.
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