The complete plastid genome sequence of Peucedanum hakuunense Nakai (Apiaceae), an endemic and rare species in Korea

被引：0

作者：

Joh, Ho Jun ^{[1
]}

Park, Hyun-Seung ^{[1
]}

Kang, Jong-Soo ^{[1
]}

Park, Jee Young ^{[1
]}

Yang, Tae-Jin ^{[1
]}

机构：

[1] Seoul Natl Univ, Coll Agr & Life Sci, Plant Genom & Breeding Inst, Dept Agr Forestry & Bioresources, 1 Gwanak Ro, Seoul 08826, South Korea

来源：

MITOCHONDRIAL DNA PART B-RESOURCES | 2022年 / 7卷 / 05期

关键词：

Peucedanum hakuunense; plastid genome (plastome); phylogenetic analysis; Apiaceae; COMPLETE CHLOROPLAST; EVOLUTION; ANNOTATION; VERSATILE;

D O I：

10.1080/23802359.2022.2069522

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

Peucedanum hakuunense Nakai is one of the rare species in the Korean Peninsula. This study characterized the complete plastid genome (plastome) sequence of P. hakuunense by de novo assembly with next-generation sequencing data. The complete plastome of P. hakuunense is 147,426 bp in length with a typical quadripartite structure comprising a large single-copy region of 91,915 bp, a small single-copy region of 17,425 bp, and two inverted repeat regions of 19,043 bp in length. The plastome of P. hakuunense is composed of 85 protein-coding genes, 36 tRNA genes, and 8 rRNA genes. The phylogenetic analysis revealed that two Peucedanum species formed an independent subclade, sister to the subclade of Angelica species within the tribe Selineae.

引用

页码：766 / 768

页数：3

共 12 条

[1] A modified protocol for rapid DNA isolation from plant tissues using cetyltrimethylammonium bromide [J].

Allen, G. C. ;

Flores-Vergara, M. A. ;

Krasnyanski, S. ;

Kumar, S. ;

Thompson, W. F. .

NATURE PROTOCOLS, 2006, 1 (05) :2320-2325

[2]

[Anonymous], 1982, J NAT ACAD SCI

[3] The complete chloroplast genome sequence of Pelargonium x hortorum:: Organization and evolution of the largest and most highly rearranged chloroplast genome of land plants [J].

Chumley, Timothy W. ;

Palmer, Jeffrey D. ;

Mower, Jeffrey P. ;

Fourcade, H. Matthew ;

Calie, Patrick J. ;

Boore, Jeffrey L. ;

Jansen, Robert K. .

MOLECULAR BIOLOGY AND EVOLUTION, 2006, 23 (11) :2175-2190

[4] jModelTest 2: more models, new heuristics and parallel computing [J].

Darriba, Diego ;

Taboada, Guillermo L. ;

Doallo, Ramon ;

Posada, David .

NATURE METHODS, 2012, 9 (08) :772-772

[5] raxmlGUI 2.0: A graphical interface and toolkit for phylogenetic analyses using RAxML [J].

Edler, Daniel ;

Klein, Johannes ;

Antonelli, Alexandre ;

Silvestro, Daniele .

METHODS IN ECOLOGY AND EVOLUTION, 2021, 12 (02) :373-377

[6]

나누리, 2017, [Korean Journal of Plant Reources., 한국자원식물학회지], V30, P378, DOI 10.7732/kjpr.2017.30.4.378

[7] Complete chloroplast and ribosomal sequences for 30 accessions elucidate evolution of Oryza AA genome species [J].

Kim, Kyunghee ;

Lee, Sang-Choon ;

Lee, Junki ;

Yu, Yeisoo ;

Yang, Kiwoung ;

Choi, Beom-Soon ;

Koh, Hee-Jong ;

Waminal, Nomar Espinosa ;

Choi, Hong-Il ;

Kim, Nam-Hoon ;

Jang, Woojong ;

Park, Hyun-Seung ;

Lee, Jonghoon ;

Lee, Hyun Oh ;

Joh, Ho Jun ;

Lee, Hyeon Ju ;

Park, Jee Young ;

Perumal, Sampath ;

Jayakodi, Murukarthick ;

Lee, Yun Sun ;

Kim, Backki ;

Copetti, Dario ;

Kim, Soonok ;

Kim, Sunggil ;

Lim, Ki-Byung ;

Kim, Young-Dong ;

Lee, Jungho ;

Cho, Kwang-Su ;

Park, Beom-Seok ;

Wing, Rod A. ;

Yang, Tae-Jin .

SCIENTIFIC REPORTS, 2015, 5

[8] Versatile and open software for comparing large genomes [J].

Kurtz, S ;

Phillippy, A ;

Delcher, AL ;

Smoot, M ;

Shumway, M ;

Antonescu, C ;

Salzberg, SL .

GENOME BIOLOGY, 2004, 5 (02)

[9] Artemis: sequence visualization and annotation [J].

Rutherford, K ;

Parkhill, J ;

Crook, J ;

Horsnell, T ;

Rice, P ;

Rajandream, MA ;

Barrell, B .

BIOINFORMATICS, 2000, 16 (10) :944-945

[10] GeSeq - versatile and accurate annotation of organelle genomes [J].

Tillich, Michael ;

Lehwark, Pascal ;

Pellizzer, Tommaso ;

Ulbricht-Jones, Elena S. ;

Fischer, Axel ;

Bock, Ralph ;

Greiner, Stephan .

NUCLEIC ACIDS RESEARCH, 2017, 45 (W1) :W6-W11

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