Complete Genome Sequence of Campylobacter armoricus CA639, Which Carries Two Plasmids, Compiled Using Oxford Nanopore and Illumina Sequencing Technologies

被引:2
作者
Boukerb, Amine M. [1 ,3 ]
Schaeffer, Julien [1 ]
Serghine, Joelle [1 ]
Carrier, Gregory [2 ]
Le Guyader, Francoise S. [1 ]
Gourmelon, Michele [1 ]
机构
[1] Inst Francais Rech Exploitat Mer, Lab Sante Environm & Microbiol, IFREMER RBE SGMM LSEM, Plouzane, France
[2] Inst Francais Rech Exploitat Mer, Lab Physiol & Biotechnol Algues, IFREMER RBE BRM LPBA, Nantes, France
[3] Normandy Univ, Univ Rouen Normandy, Lab Microbiol Signals & Microenvironm LMSM EA4312, Evreux, France
来源
MICROBIOLOGY RESOURCE ANNOUNCEMENTS | 2020年 / 9卷 / 01期
基金
欧盟地平线“2020”;
关键词
READ ALIGNMENT;
D O I
10.1128/MRA.01309-19
中图分类号
Q93 [微生物学];
学科分类号
071005 ; 100705 ;
摘要
As determined by a hybrid approach combining Oxford Nanopore MinION and Illumina MiniSeq sequence data, Campylobacter armoricus strain CA639 harbored a circular chromosome of 1,688,169 bp with a G+C content of 28.47% and two plasmids named pCA639-1 and pCA639-2, with lengths of 51,123 and 28,139 bp, and G+C contents of 26.5% and 28.45%, respectively.
引用
收藏
页数:3
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共 19 条
  • [1] SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing
    Bankevich, Anton
    Nurk, Sergey
    Antipov, Dmitry
    Gurevich, Alexey A.
    Dvorkin, Mikhail
    Kulikov, Alexander S.
    Lesin, Valery M.
    Nikolenko, Sergey I.
    Son Pham
    Prjibelski, Andrey D.
    Pyshkin, Alexey V.
    Sirotkin, Alexander V.
    Vyahhi, Nikolay
    Tesler, Glenn
    Alekseyev, Max A.
    Pevzner, Pavel A.
    [J]. JOURNAL OF COMPUTATIONAL BIOLOGY, 2012, 19 (05) : 455 - 477
  • [2] Trimmomatic: a flexible trimmer for Illumina sequence data
    Bolger, Anthony M.
    Lohse, Marc
    Usadel, Bjoern
    [J]. BIOINFORMATICS, 2014, 30 (15) : 2114 - 2120
  • [3] Campylobacter armoricus sp. nov., a novel member of the Campylobacter lari group isolated from surface water and stools from humans with enteric infection
    Boukerb, Amine M.
    Penny, Christian
    Serghine, Joelle
    Walczak, Cecile
    Cauchie, Henry-Michel
    Miller, William G.
    Losch, Serge
    Ragimbeau, Catherine
    Mossong, Joel
    Megraud, Francis
    Lehours, Philippe
    Benejat, Lucie
    Gourmelon, Michele
    [J]. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, 2019, 69 (12) : 3969 - 3979
  • [4] NanoPack: visualizing and processing long-read sequencing data
    De Coster, Wouter
    D'Hert, Svenn
    Schultz, Darrin T.
    Cruts, Marc
    Van Broeckhoven, Christine
    [J]. BIOINFORMATICS, 2018, 34 (15) : 2666 - 2669
  • [5] Assembly of long, error-prone reads using repeat graphs
    Kolmogorov, Mikhail
    Yuan, Jeffrey
    Lin, Yu
    Pevzner, Pavel A.
    [J]. NATURE BIOTECHNOLOGY, 2019, 37 (05) : 540 - +
  • [6] Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation
    Koren, Sergey
    Walenz, Brian P.
    Berlin, Konstantin
    Miller, Jason R.
    Bergman, Nicholas H.
    Phillippy, Adam M.
    [J]. GENOME RESEARCH, 2017, 27 (05) : 722 - 736
  • [7] Langmead B, 2012, NAT METHODS, V9, P357, DOI [10.1038/NMETH.1923, 10.1038/nmeth.1923]
  • [8] Minimap2: pairwise alignment for nucleotide sequences
    Li, Heng
    [J]. BIOINFORMATICS, 2018, 34 (18) : 3094 - 3100
  • [9] Fast and accurate short read alignment with Burrows-Wheeler transform
    Li, Heng
    Durbin, Richard
    [J]. BIOINFORMATICS, 2009, 25 (14) : 1754 - 1760
  • [10] Loman NJ, 2015, NAT METHODS, V12, P733, DOI [10.1038/nmeth.3444, 10.1038/NMETH.3444]