Complete chloroplast genome of Sagina maxima A. Gray (Caryophyllaceae) from Ulleung-do Island, Korea

被引:0
作者
Tamboli, Asif S. [1 ]
Kadam, Suhas K. [1 ]
Youn, Jin-Suk [1 ]
Yang, Jiyoung [1 ]
Sim, Young Seok [2 ]
Pak, Jae Hong [1 ]
Choo, Yeon-Sik [1 ,2 ]
机构
[1] Kyungpook Natl Univ, Res Inst Dok Do & Ulleung Do Isl, Daegu, South Korea
[2] Kyungpook Natl Univ, Sch Life Sci, Dept Biol, Daegu, South Korea
基金
新加坡国家研究基金会;
关键词
Caryophyllaceae; chloroplast genome; Sagina maxima; Ulleung-do Island; SEQUENCE;
D O I
10.1080/26895293.2024.2402861
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
Sagina maxima is an annual herb distributed in East Asia and North America. In this study, we sequenced and characterized the chloroplast genome (cp.) of S. maxima. The complete cp. genome of S. maxima is 151,507 bp long and comprises a large single-copy (LSC) region (83,669 bp), a small single-copy (SSC) region (17,220 bp), and a pair of inverted repeats (IRs) (25,309 bp) with 36.6% GC content. A unique set of 112 genes were identified which includes 78 protein-coding genes, 30 tRNA and 4 rRNA. Total 18 genes were duplicated within the IR regions and 16 genes have one intron and only clpP gene with two introns. LSC/IR junction located in the rps19 while SSC/IR junction located in ycf1. The average number of codon usage is 26,080 for all protein-coding genes in the cp. genome. There were 26 long repeats and 40 simple sequence repeats in the cp. genome, which were mostly, located in intergenic spacer (IGS) regions. This study provides the first brief characterization report of the cp. genome from the genus Sagina, which will be useful in future investigations into the genetic resources, species identification, and phylogeny of Sagina.
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页数:7
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共 23 条
  • [1] Colonization of the Southern Hemisphere by Sagina and Colobanthus (Caryophyllaceae)
    Alban, Dorian M.
    Biersma, Elisabeth M.
    Kadereit, Joachim W.
    Dillenberger, Markus S.
    [J]. PLANT SYSTEMATICS AND EVOLUTION, 2022, 308 (01)
  • [2] IRscope: an online program to visualize the junction sites of chloroplast genomes
    Amiryousefi, Ali
    Hyvonen, Jaakko
    Poczai, Peter
    [J]. BIOINFORMATICS, 2018, 34 (17) : 3030 - 3031
  • [3] Evolutionary dynamics of the chloroplast genome sequences of six Colobanthus species
    Androsiuk, Piotr
    Jastrzebski, Jan Pawel
    Paukszto, Lukasz
    Makowczenko, Karol
    Okorski, Adam
    Pszczolkowska, Agnieszka
    Chwedorzewska, Katarzyna Joanna
    Gorecki, Ryszard
    Gielwanowska, Irena
    [J]. SCIENTIFIC REPORTS, 2020, 10 (01)
  • [4] The complete chloroplast genome of Colobanthus apetalus (Labill.) Druce: genome organization and comparison with related species
    Androsiuk, Piotr
    Jastrzebski, Jan Pawel
    Paukszto, Lukasz
    Okorski, Adam
    Pszczolkowska, Agnieszka
    Chwedorzewska, Katarzyna Joanna
    Koc, Justyna
    Gorecki, Ryszard
    Gielwanowska, Irena
    [J]. PEERJ, 2018, 6
  • [5] The complete chloroplast genome of Myristica teysmannii (Myristicaceae), an endemic and endangered species from Indonesia
    Ariati, Siti Roosita
    Priyadi, Arief
    Hariri, Muhammad Rifqi
    Risna, Rosniati Apriani
    [J]. JOURNAL OF ASIA-PACIFIC BIODIVERSITY, 2023, 16 (04) : 734 - 738
  • [6] MISA-web: a web server for microsatellite prediction
    Beier, Sebastian
    Thiel, Thomas
    Muench, Thomas
    Scholz, Uwe
    Mascher, Martin
    [J]. BIOINFORMATICS, 2017, 33 (16) : 2583 - 2585
  • [7] Chang CS., 2014, Provisional checklist of vascular plants for the Korea Peninsula Flora (KPF), P339
  • [8] Crow G.E., 2005, Flora of North America, V5, P140
  • [9] CROW GE, 1978, RHODORA, V80, P1
  • [10] NOVOPlasty: de novo assembly of organelle genomes from whole genome data
    Dierckxsens, Nicolas
    Mardulyn, Patrick
    Smits, Guillaume
    [J]. NUCLEIC ACIDS RESEARCH, 2017, 45 (04)