scholarly journals Complete Genome Sequence of the Type Strain Pectobacterium punjabense SS95, Isolated from a Potato Plant with Blackleg Symptoms

2020 ◽  
Vol 9 (32) ◽  
Author(s):  
Sohaib Sarfraz ◽  
Saïd Oulghazi ◽  
Jérémy Cigna ◽  
Shahbaz Talib Sahi ◽  
Kashif Riaz ◽  
...  
Keyword(s):  
Complete Genome ◽  
Type Strain ◽  
Gc Content ◽  
Illumina Miseq ◽  
Blackleg Disease ◽  
Circular Chromosome ◽  
Content Type ◽  
Potato Plants ◽  
Oxford Nanopore ◽  
Oxford Nanopore Technologies

ABSTRACT Pectobacterium punjabense is a newly described species causing blackleg disease in potato plants. Therefore, by the combination of long (Oxford Nanopore Technologies, MinION) and short (Illumina MiSeq) reads, we sequenced the complete genome of P. punjabense SS95T, which contains a circular chromosome of 4.793 Mb with a GC content of 50.7%.

scholarly journals Complete Genome Sequence of Pasteurella multocida HuN001, a Capsular Type A Strain from a Human

2021 ◽  
Vol 10 (26) ◽  
Author(s):  
Lin Lin ◽  
Chunhui Li ◽  
Fei Wang ◽  
Xueying Wang ◽  
Yue Zhang ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Pasteurella Multocida ◽  
Sputum Sample ◽  
Capsular Type ◽  
Circular Chromosome ◽  
Content Type ◽  
Oxford Nanopore ◽  
Oxford Nanopore Technologies

Here, we report the complete genome sequence of clinical Pasteurella multocida strain HuN001, which was cultured from a sputum sample from a patient with pneumonia. Oxford Nanopore Technologies sequencing provided a complete genome sequence of P. multocida HuN001, which contains a 2,287,216-bp circular chromosome with an average G+C content of 40.33%.

scholarly journals Complete and Circularized Genome Assemblies of the Kroppenstedtia eburnea Genus Type Strain and the Kroppenstedtia pulmonis Species Type Strain with MiSeq and MinION Sequence Data

2020 ◽  
Vol 9 (44) ◽  
Author(s):  
Christopher A. Gulvik ◽  
Dhwani Batra ◽  
Lori A. Rowe ◽  
Milli Sheth ◽  
Ben W. Humrighouse ◽  
...  
Keyword(s):  
Type Strain ◽  
Sequence Data ◽  
Gene Clusters ◽  
Illumina Miseq ◽  
Putative Gene ◽  
Content Type ◽  
Oxford Nanopore ◽  
Species Type ◽  
Genome Assemblies ◽  
Oxford Nanopore Technologies

ABSTRACT Kroppenstedtia eburnea DSM 45196T and Kroppenstedtia pulmonis W9323T are aerobic, Gram-positive, filamentous, chemoorganotrophic thermoactinomycetes. Here, we report on the complete and circular genome assemblies generated using Illumina MiSeq and Oxford Nanopore Technologies MinION reads. Putative gene clusters predicted to be involved in the production of secondary metabolites were also identified.

scholarly journals Complete Genome Sequence of Tetracycline-Resistant Serratia liquefaciens S1, Isolated from Mixed Greens, Obtained Using Illumina MiSeq and Oxford Nanopore MinION Sequencing

2020 ◽  
Vol 9 (19) ◽  
Author(s):  
Maria Stein ◽  
Erik Brinks ◽  
Jana Rathje ◽  
Gyu-Sung Cho ◽  
Charles M. A. P. Franz
Keyword(s):  
Complete Genome Sequence ◽  
Complete Genome ◽  
Illumina Miseq ◽  
Circular Chromosome ◽  
Short Read ◽  
Content Type ◽  
Serratia Liquefaciens ◽  
Oxford Nanopore ◽  
Long Read ◽  
Single Circular Chromosome

Serratia liquefaciens strain S1 was isolated from mixed greens and sequenced with short-read Illumina MiSeq technology and long-read MinION technology. Hybrid sequence assembly generated a complete single circular chromosome and two extrachromosomal contigs, which together encoded 5,098 proteins, 85 tRNAs, and 22 rRNAs.

scholarly journals Complete Genome Sequence of Lactobacillus crispatus Type Strain ATCC 33820

2021 ◽  
Vol 10 (32) ◽  
Author(s):  
Lucia Teodori ◽  
Lorenzo Colombini ◽  
Anna Maria Cuppone ◽  
Elisa Lazzeri ◽  
David Pinzauti ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Type Strain ◽  
Gc Content ◽  
Open Reading Frames ◽  
Strain Atcc ◽  
Circular Chromosome ◽  
Content Type ◽  
Lactobacillus Crispatus

The complete genome sequence of Lactobacillus crispatus type strain ATCC 33820 was obtained by combining Nanopore and Illumina sequencing technologies. The genome consists of a 2.2-Mb circular chromosome with 2,194 open reading frames and an average GC content of 37.0%.

scholarly journals Complete Genome Sequence of Neisseria gonorrhoeae Multilocus Sequence Type ST7363 Isolated from Thailand

2021 ◽  
Vol 10 (41) ◽  
Author(s):  
Thitima Cherdtrakulkiat ◽  
Thidathip Wongsurawat ◽  
Piroon Jenjaroenpun ◽  
Sawannee Sutheeworapong ◽  
Wanna Leelawiwat ◽  
...  
Keyword(s):  
Neisseria Gonorrhoeae ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Sequence Type ◽  
Circular Chromosome ◽  
Content Type ◽  
Oxford Nanopore ◽  
Siriraj Hospital ◽  
Oxford Nanopore Technologies

A Neisseria gonorrhoeae multilocus sequence type (MLST) ST7363 strain was isolated from a patient at the Faculty of Medicine Siriraj Hospital, Mahidol University, Bangkok, Thailand, in 2010 and completely sequenced. This strain is susceptible to ceftriaxone and cefixime. A complete circular chromosome and circular plasmids were assembled from combined Oxford Nanopore Technologies (ONT) and Illumina sequencing.

scholarly journals Complete Genome Sequence of Streptococcus pneumoniae Strain Rx1, a Hex Mismatch Repair-Deficient Standard Transformation Recipient

2021 ◽  
Vol 10 (41) ◽  
Author(s):  
Anna Maria Cuppone ◽  
Lorenzo Colombini ◽  
Valeria Fox ◽  
David Pinzauti ◽  
Francesco Santoro ◽  
...  
Keyword(s):  
Streptococcus Pneumoniae ◽  
Mismatch Repair ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Gc Content ◽  
Open Reading Frames ◽  
Circular Chromosome ◽  
Content Type ◽  
Sequencing Technologies

The complete genome sequence of Streptococcus pneumoniae strain Rx1, a Hex mismatch repair-deficient standard transformation recipient, was obtained by combining Nanopore and Illumina sequencing technologies. The genome consists of a 2.03-Mb circular chromosome, with 2,054 open reading frames and a GC content of 39.72%.

scholarly journals Real-Time Sequencing of Mycobacterium tuberculosis: Are We There Yet?

2017 ◽  
Vol 55 (5) ◽  
pp. 1249-1254 ◽  
Author(s):  
Robyn S. Lee ◽  
Madhukar Pai
Keyword(s):  
Mycobacterium Tuberculosis ◽  
Real Time ◽  
Phylogenetic Trees ◽  
Illumina Miseq ◽  
Turnaround Time ◽  
Epidemiologic Studies ◽  
Content Type ◽  
Leading Role ◽  
Oxford Nanopore ◽  
Oxford Nanopore Technologies

ABSTRACT Whole-genome sequencing has taken a leading role in epidemiologic studies of tuberculosis, but thus far, its real-time clinical utility has been low, in part because of the requirement for culture. In their report in this issue, Votintseva et al. (A. A. Votintseva, P. Bradley, L. Pankhurst, C. del Ojo Elias, M. Loose, K. Nilgiriwala, A. Chatterjee, E. G. Smith, N. Sanderson, T. M. Walker, M. R. Morgan, D. H. Wyllie, A. S. Walker, T. E. A. Peto, D. W. Crook, and Z. Iqbal, J Clin Microbiol 55:1285–1298, 2017, https://doi.org/10.1128/JCM.02483-16 ) present a new method for extracting Mycobacterium tuberculosis DNA directly from smear-positive respiratory samples, making it feasible to generate drug resistance predictions and phylogenetic trees in 44 h with the Illumina MiSeq. They also illustrate the potential for a <24-h turnaround time from DNA extraction to clinically relevant results with Illumina MiniSeq and Oxford Nanopore Technologies MinION. We comment on the promise and limitations of these approaches.

scholarly journals Complete Genome Sequence and Methylome of the Type Strain of Shewanella algae

2021 ◽  
Vol 10 (31) ◽  
Author(s):  
Christian Tellgren-Roth ◽  
Kaisa Thorell ◽  
Michael Y. Galperin ◽  
Tino Krell ◽  
Ute Römling ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Type Strain ◽  
Gc Content ◽  
Single Chromosome ◽  
Content Type ◽  
Base Modification ◽  
Shewanella Algae

We report the complete genome sequence and base modification analysis of the Shewanella algae type strain CECT 5071 (= OK-1 = ATCC 51192 = DSM 9167 = IAM 14159). The genome is composed of a single chromosome of 4,924,764 bp, with a GC content of 53.10%.

scholarly journals Complete Closed Genome Sequence of the Inulin-Utilizing Lactiplantibacillus plantarum Strain Lp900, Obtained Using a Hybrid Nanopore and Illumina Assembly

2021 ◽  
Vol 10 (17) ◽  
Author(s):  
Jori Fuhren ◽  
Reindert Nijland ◽  
Michiel Wels ◽  
Jos Boekhorst ◽  
Michiel Kleerebezem
Keyword(s):  
Lactic Acid ◽  
Lactic Acid Bacteria ◽  
Dna Sequence ◽  
Genome Sequence ◽  
De Novo ◽  
Circular Chromosome ◽  
Content Type ◽  
Diverse Species ◽  
Oxford Nanopore ◽  
Oxford Nanopore Technologies

Lactiplantibacillus plantarum is a genetically and phenotypically diverse species of lactic acid bacteria. We announce the hybrid de novo assembly of Oxford Nanopore Technologies and Illumina DNA sequence reads, producing a closed circular chromosome of 3,206,992 bp and six plasmids of the inulin-utilizing L. plantarum strain Lp900.

scholarly journals Complete Genome Sequence of Rhodococcus erythropolis X5, a Psychrotrophic Hydrocarbon-Degrading Biosurfactant-Producing Bacterium

2019 ◽  
Vol 8 (48) ◽  
Author(s):  
Yanina Delegan ◽  
Leonid Valentovich ◽  
Kirill Petrikov ◽  
Anna Vetrova ◽  
Artur Akhremchuk ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Rhodococcus Erythropolis ◽  
Gc Content ◽  
Linear Plasmid ◽  
Circular Chromosome ◽  
Content Type ◽  
Cold Adapted ◽  
Degrading Bacterium

Rhodococcus erythropolis X5 is a psychrotrophic (cold-adapted) hydrocarbon-degrading bacterium, as it showed effective n-alkane destruction at low positive temperatures. Here, the genome of strain X5 was completely sequenced; it consists of a 6,472,161-bp circular chromosome (62.25% GC content) and a 526,979-bp linear plasmid, pRhX5-526k (62.37% GC content).

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