scholarly journals Comparative Genomics across Three Ensifer Species Using a New Complete Genome Sequence of the Medicago Symbiont Sinorhizobium (Ensifer) meliloti WSM1022

2021 ◽  
Vol 9 (12) ◽  
pp. 2428
Author(s):  
Laura Baxter ◽  
Proyash Roy ◽  
Emma Picot ◽  
Jess Watts ◽  
Alex Jones ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
High Efficiency ◽  
Gc Content ◽  
Protein Coding ◽  
Sequencing Technologies ◽  
Ensifer Meliloti ◽  
Meliloti Strain ◽  
Symbiotic Properties

Here, we report an improved and complete genome sequence of Sinorhizobium (Ensifer) meliloti strain WSM1022, a microsymbiont of Medicago species, revealing its tripartite structure. This improved genome sequence was generated combining Illumina and Oxford nanopore sequencing technologies to better understand the symbiotic properties of the bacterium. The 6.75 Mb WSM1022 genome consists of three scaffolds, corresponding to a chromosome (3.70 Mb) and the pSymA (1.38 Mb) and pSymB (1.66 Mb) megaplasmids. The assembly has an average GC content of 62.2% and a mean coverage of 77X. Genome annotation of WSM1022 predicted 6058 protein coding sequences (CDSs), 202 pseudogenes, 9 rRNAs (3 each of 5S, 16S, and 23S), 55 tRNAs, and 4 ncRNAs. We compared the genome of WSM1022 to two other rhizobial strains, closely related Sinorhizobium (Ensifer) meliloti Sm1021 and Sinorhizobium (Ensifer) medicae WSM419. Both WSM1022 and WSM419 species are high-efficiency rhizobial strains when in symbiosis with Medicago truncatula, whereas Sm1021 is ineffective. Our findings report significant genomic differences across the three strains with some similarities between the meliloti strains and some others between the high efficiency strains WSM1022 and WSM419. The addition of this high-quality rhizobial genome sequence in conjunction with comparative analyses will help to unravel the features that make a rhizobial symbiont highly efficient for nitrogen fixation.

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 Complete Genome Sequence of Mycobacterium sp. Strain 4858

2018 ◽  
Vol 6 (7) ◽  
Author(s):  
Amar Bouam ◽  
Anthony Levasseur ◽  
Maryline Bonnet ◽  
Laurence Borand ◽  
Charles Van Goethem ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Pulmonary Infection ◽  
Gc Content ◽  
Rrna Genes ◽  
Nontuberculous Mycobacterium ◽  
Protein Coding ◽  
Protein Coding Genes

ABSTRACT Mycobacterium sp. strain 4858 is a nontuberculous mycobacterium isolated from sputum in a Cambodian patient with a pulmonary infection. We report the first complete 5.6-Mbp-long genome sequence of Mycobacterium strain 4858, with 68.24% GC content, carrying 5,255 protein-coding genes, 47 tRNAs, and 3 rRNA genes.

scholarly journals Complete Genome Sequence of the Streptomyces-Specific Bacteriophage BRock

2020 ◽  
Vol 9 (35) ◽  
Author(s):  
Stephen F. Baron ◽  
Ashley N. Crossman ◽  
Shikha Malik ◽  
Parveen Sidhu ◽  
Kiran Nehra ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Gc Content ◽  
Protein Coding ◽  
Protein Coding Genes ◽  
Specific Bacteriophage

ABSTRACT The complete genome sequence of the unique virulent bacteriophage BRock, isolated from compost on Streptomyces sp. strain SFB5A, was determined. BRock is a myovirus with a 112,523-bp genome containing a GC content of 52.3%. There were 188 protein-coding genes predicted, including structural and enzymatic proteins, but none predicted for lysogeny. Twenty-nine tRNAs were predicted.

scholarly journals Complete Genome Sequence of Pseudomonas sp. Strain MM213, an Isolate from a Brookside in Bielefeld, Germany

2022 ◽  
Author(s):  
Bart Verwaaijen ◽  
Özgülen Cevahir ◽  
Fabian Hitz ◽  
Jacqueline Römmich ◽  
Donat Wulf
Keyword(s):  
Genome Size ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Gc Content ◽  
Pseudomonas Sp ◽  
Protein Coding ◽  
Coding Sequences ◽  
Content Type ◽  
Pseudomonas Mandelii

Here, we report the complete genome sequence of Pseudomonas sp. strain MM213 of the Pseudomonas mandelii group, which was isolated from a brookside in Bielefeld, Germany. The genome size is 6,746,355 bp, with a GC content of 59.4% and 6,145 predicted protein-coding sequences.

scholarly journals Complete Genome Sequence of Acidithiobacillus ferridurans JAGS, Isolated from Acidic Mine Drainage

2020 ◽  
Vol 9 (13) ◽  
Author(s):  
Jinjin Chen ◽  
Yilan Liu ◽  
Patrick Diep ◽  
Andrew Jo ◽  
Camilla Nesbø ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Single Molecule ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Mine Drainage ◽  
Gc Content ◽  
Acidic Mine Drainage ◽  
Smrt Sequencing ◽  
Protein Coding ◽  
Content Type

We report a complete genome sequence of Acidithiobacillus ferridurans JAGS, determined using PacBio single-molecule real-time (SMRT) sequencing. The circular genome of JAGS (2,933,811 bp; GC content, 58.57%) contains 3,001 protein-coding sequences, 46 tRNAs, and 6 rRNAs. Predicted genes indicate the potential to fix CO2 and N2 and to utilize Fe2+, S0, and H2 as energy sources.

scholarly journals Complete Genome Sequence of Broad-Host-Range Staphylococcus aureus Myophage ESa1

2020 ◽  
Vol 9 (30) ◽  
Author(s):  
Roshan D’Souza ◽  
Andrey A. Filippov ◽  
Kirill V. Sergueev ◽  
Yunxiu He ◽  
Amanda M. Ward ◽  
...  
Keyword(s):  
Staphylococcus Aureus ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Gc Content ◽  
Illumina Miseq ◽  
Broad Host Range ◽  
Protein Coding ◽  
Coding Sequences ◽  
Content Type

ABSTRACT A potentially therapeutic Twort-like myophage, Esa1, with specificity toward Staphylococcus aureus was isolated from lake water. We report the complete genome sequence of ESa1, assembled using both MinION and Illumina MiSeq reads, consisting of 153,106 bp, with 30.3% GC content, 253 protein coding sequences, 4 tRNAs, and 10,437-bp direct terminal repeats.

scholarly journals Complete Genome Sequence of Geobacter sp. Strain FeAm09, a Moderately Acidophilic Soil Bacterium

2021 ◽  
Vol 10 (2) ◽  
Author(s):  
Pooja Yadav ◽  
Sanjay Antony-Babu ◽  
Erin Hayes ◽  
Olivia M. Healy ◽  
Donald Pan ◽  
...  
Keyword(s):  
Forest Soil ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Gc Content ◽  
Biogeochemical Cycling ◽  
Soil Bacterium ◽  
Protein Coding ◽  
Protein Coding Genes ◽  
Moderately Acidophilic

ABSTRACT A moderately acidophilic Geobacter sp. strain, FeAm09, was isolated from forest soil. The complete genome sequence is 4,099,068 bp with an average GC content of 61.1%. No plasmids were detected. The genome contains a total of 3,843 genes and 3,608 protein-coding genes, including genes supporting iron and nitrogen biogeochemical cycling.

scholarly journals Complete Genome Sequence of Mycobacterium sp. Strain 3519A

2018 ◽  
Vol 6 (4) ◽  
Author(s):  
Amar Bouam ◽  
Anthony Levasseur ◽  
Maryline Bonnet ◽  
Laurence Borand ◽  
Charles Van Goethem ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Pulmonary Infection ◽  
Gc Content ◽  
Rrna Genes ◽  
Nontuberculous Mycobacterium ◽  
Protein Coding ◽  
Protein Coding Genes

ABSTRACT Mycobacterium sp. strain 3519A is a nontuberculous mycobacterium isolated from sputum from a Cambodian patient with a pulmonary infection. We report here the first complete 7.3-Mbp-long genome sequence of Mycobacterium sp. 3519A with 66.35% GC content, encoding 7,029 protein-coding genes, 50 tRNAs, and 5 rRNA genes.

scholarly journals Complete Genome Sequence of Arachnia rubra Strain DSM 100122 T , a Cultured Member of the Human Oral Microbiome

2021 ◽  
Vol 10 (48) ◽  
Author(s):  
Matthew Ouellette ◽  
Andrew A. Bejian ◽  
Tsute Chen ◽  
Dakota S. Jones ◽  
Christopher D. Johnston ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Gc Content ◽  
Oral Microbiome ◽  
Protein Coding ◽  
Content Type ◽  
Protein Coding Genes

We report the complete genome of Arachnia rubra strain DSM 100122 T . The genome is 3.32 Mb, with a GC content of 64.2%. The genome contains 3,005 predicted genes, including 2,923 predicted protein-coding genes.

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