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Can plastid genome sequencing be used for species identification in Lauraceae?

文献类型：期刊论文

作者Liu, Zhi-Fang; Ma, Hui; Ci, Xiu-Qin; Li, Lang13; Song, Yu14; Liu, Bing10,11; Li, Hsi-Wen; Wang, Shu-Li; Qu, Xiao-Jian; Hu, Jian-Lin
刊名BOTANICAL JOURNAL OF THE LINNEAN SOCIETY
出版日期2021
卷号197期号:1页码:1-14
ISSN号0024-4074
关键词cytonuclear discordance DNA barcoding nrDNA phylogenetics plastomes
DOI10.1093/botlinnean/boab018
文献子类Article
英文摘要Using DNA barcoding for species identification remains challenging for many plant groups. New sequencing approaches such as complete plastid genome sequencing may provide some increased power and practical benefits for species identification beyond standard plant DNA barcodes. We undertook a case study comparing standard DNA barcoding to plastid genome sequencing for species discrimination in the ecologically and economically important family Lauraceae, using 191 plastid genomes for 131 species from 25 genera, representing the largest plastome data set for Lauraceae to date. We found that the plastome sequences were useful in correcting some identification errors and for finding new and cryptic species. However, plastome data overall were only able to discriminate c. 60% of the species in our sample, with this representing a modest improvement from 40 to 50% discrimination success with the standard plant DNA barcodes. Beyond species discrimination, the plastid genome sequences revealed complex relationships in the family, with 12/25 genera being non-monophyletic and with extensive incongruence relative to nuclear ribosomal DNA. These results highlight that although useful for improving phylogenetic resolution in the family and providing some species-level insights, plastome sequences only partially improve species discrimination, and this reinforces the need for large-scale nuclear data to improve discrimination among closely related species.
学科主题Plant Sciences
电子版国际标准刊号1095-8339
出版地OXFORD
WOS关键词CHLOROPLAST GENOME ; ALSEODAPHNOPSIS LAURACEAE ; GENE ORGANIZATION ; DNA BARCODES ; NUCLEAR ; EVOLUTION ; ALIGNMENT ; CLASSIFICATION ; DISCORDANCE ; CINNAMOMUM
WOS研究方向Science Citation Index Expanded (SCI-EXPANDED)
语种英语
出版者OXFORD UNIV PRESS
WOS记录号WOS:000692321700001
资助机构National Natural Science Foundation of China [31370245, 31770569, 31970222] ; Biodiversity Conservation Program of the Chinese Academy of Sciences [ZSSD-013] ; Science and Technology Basic Resources Investigation Program of China: Survey and Germplasm Conservation of plant Species with Extremely small populations in southwest China [2017YF100100] ; 135 programmes of the Chinese Academy of Sciences [2017XTBG-T03] ; China Scholarship Council
源URL[http://ir.ibcas.ac.cn/handle/2S10CLM1/26307]  
专题系统与进化植物学国家重点实验室
作者单位1.Shandong Normal Univ, Coll Life Sci, Shandong Prov Key Lab Plant Stress Res, Jinan, Peoples R China
2.Conran, John G.] Univ Adelaide, Sch Biol Sci, Australian Ctr Evolutionary Biol & Biodivers, Adelaide, SA, Australia
3.Conran, John G.] Univ Adelaide, Sch Biol Sci, Sprigg Geobiol Ctr, Adelaide, SA, Australia
4.Twyford, Alex D.] Univ Edinburgh, Inst Evolutionary Biol, Ashworth Labs, Edinburgh, Midlothian, Scotland
5.Chinese Acad Sci, Kunming Inst Bot, Germplasm Bank Wild Species, Kunming, Yunnan, Peoples R China
6.Liu, Zhi-Fang; Hollingsworth, Peter M.] Royal Bot Garden Edinburgh, Genet & Conservat Sect, Edinburgh, Midlothian, Scotland
7.Chinese Acad Sci, Sino African Joint Res Ctr, Wuhan, Peoples R China
8.Chinese Acad Sci, Kunming Inst Bot, Herbarium KUN, Kunming, Yunnan, Peoples R China
9.Tibet Agr & Anim Husb Univ, Nyingchi, Peoples R China
10.Chinese Acad Sci, Ctr Integrat Conservat, Xishuangbanna Trop Bot Garden, Mengla, Peoples R China
推荐引用方式
GB/T 7714		 Liu, Zhi-Fang,Ma, Hui,Ci, Xiu-Qin,et al. Can plastid genome sequencing be used for species identification in Lauraceae?[J]. BOTANICAL JOURNAL OF THE LINNEAN SOCIETY,2021,197(1):1-14.
APA Liu, Zhi-Fang.,Ma, Hui.,Ci, Xiu-Qin.,Li, Lang.,Song, Yu.,...&Li, Jie.(2021).Can plastid genome sequencing be used for species identification in Lauraceae?.BOTANICAL JOURNAL OF THE LINNEAN SOCIETY,197(1),1-14.
MLA Liu, Zhi-Fang,et al."Can plastid genome sequencing be used for species identification in Lauraceae?".BOTANICAL JOURNAL OF THE LINNEAN SOCIETY 197.1(2021):1-14.

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来源：植物研究所

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