scholarly journals Genome Sequence of the Alphaproteobacterium Blastochloris sulfoviridis DSM 729, Which Requires Reduced Sulfur as a Growth Supplement and Contains Bacteriochlorophyll b

2020 ◽  
Vol 9 (18) ◽  
Author(s):  
John A. Kyndt ◽  
Dayana Montano Salama ◽  
Terry E. Meyer
Keyword(s):  
Phylogenetic Analysis ◽  
Genome Sequence ◽  
Gc Content ◽  
Nucleotide Identity ◽  
Whole Genome ◽  
Average Nucleotide Identity ◽  
Content Type ◽  
Growth Supplement ◽  
Bacteriochlorophyll B ◽  
Reduced Sulfur

The genome sequence of Blastochloris sulfoviridis is 3.85 Mb with a GC content of 68%. Its nearest relative is B. tepida (average nucleotide identity [ANI], 91.5%), followed by B. viridis (ANI, 83%). According to ANI and whole-genome-based phylogenetic analysis, the nearest relatives of Blastochloris are Rhodoplanes and Rhodopseudomonas, confirming the recognition of distinct genera.

scholarly journals Characterization and Genome Sequence of Mycobacterium Phage XianYue

2020 ◽  
Vol 9 (25) ◽  
Author(s):  
Wesley D. Rhinehart ◽  
Amanda J. Laidlaw ◽  
Alexis M. O’Neal ◽  
Jessica A. Toller ◽  
Miriam Segura-Totten ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Gc Content ◽  
Open Reading Frames ◽  
Nucleotide Identity ◽  
Content Type ◽  
Reading Frames

ABSTRACT Novel mycobacteriophage XianYue was isolated in Northeast Georgia and infects Mycobacteria smegmatis mc2155. Actinobacteriophages which share at least 50% nucleotide identity are grouped into clusters, with XianYue in cluster A2. Its genome is 52,907 bp with 91 open reading frames (ORFs) and 62.9% GC content, and it shares 86.51% nucleotide identity with mycobacteriophage Trixie.

scholarly journals Whole-Genome Sequence of Fish-Pathogenic Enterococcus faecalis Strain BFFF11

2020 ◽  
Vol 9 (7) ◽  
Author(s):  
Tasmina Akter ◽  
M. Mahbubur Rahman ◽  
Alfred Chin Yen Tay ◽  
Rakib Ehsan ◽  
M. Tofazzal Islam
Keyword(s):  
Enterococcus Faecalis ◽  
Genome Sequence ◽  
Gc Content ◽  
Fish Farm ◽  
Pathogenic Bacterium ◽  
Whole Genome Sequence ◽  
Whole Genome ◽  
Content Type

A fish-pathogenic bacterium, Enterococcus faecalis strain BFFF11, was isolated from a tilapia suffering from streptococcosis in a fish farm in the Gazipur district of Bangladesh. The whole genome of this strain, BFFF11, was 3,067,042 bp, with a GC content of 37.4%.

scholarly journals Draft Genome Sequences of Thiorhodococcus mannitoliphagus and Thiorhodococcus minor, Purple Sulfur Photosynthetic Bacteria in the Gammaproteobacterial Family Chromatiaceae

2020 ◽  
Vol 9 (14) ◽  
Author(s):  
Fabiola A. Aviles ◽  
Terry E. Meyer ◽  
John A. Kyndt
Keyword(s):  
Photosynthetic Bacteria ◽  
Draft Genome ◽  
Nucleotide Identity ◽  
Whole Genome ◽  
Average Nucleotide Identity ◽  
Genome Sequences ◽  
Content Type

We have determined the draft genome sequences of Thiorhodococcus mannitoliphagus and Thiorhodococcus minor for comparison with those of T. drewsii and Imhoffiella purpurea. According to average nucleotide identity (ANI) and whole-genome phylogenetic comparisons, these two species are clearly distinct from the Imhoffiella species and T. drewsii.

scholarly journals Complete Genome Sequence of Buttiauxella agrestis DSM 9389

2021 ◽  
Vol 10 (19) ◽  
Author(s):  
Nao Nakamichi ◽  
Ryota Moriuchi ◽  
Hideo Dohra ◽  
Hiroyuki Futamata ◽  
Yosuke Tashiro
Keyword(s):  
16S Rrna ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Membrane Vesicle ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Nucleotide Identity ◽  
Average Nucleotide Identity ◽  
Content Type

ABSTRACT We report here the complete genome sequence of Buttiauxella agrestis DSM 9389, which harbors eight 16S rRNA genes classified into three types. The genome sequence of this strain showed a high average nucleotide identity (97.3%) with that of the highly membrane vesicle-producing strain B. agrestis ATCC 33320T.

scholarly journals Draft Genome Sequence of Aspergillus oryzae BP2-1, Isolated from Traditional Malted Rice in South Korea

2020 ◽  
Vol 9 (1) ◽  
Author(s):  
Jongbum Jeon ◽  
Jung A Kim ◽  
Sook-Young Park ◽  
Gye-Won Kim ◽  
Cheon-Seok Park ◽  
...  
Keyword(s):  
South Korea ◽  
Aspergillus Oryzae ◽  
Genome Sequence ◽  
Draft Genome ◽  
Starter Culture ◽  
Gc Content ◽  
Draft Genome Sequence ◽  
Whole Genome Sequence ◽  
Whole Genome ◽  
Content Type

The fungus Aspergillus oryzae strain BP2-1 was isolated from the traditional malted starter culture nuruk. We report here the draft whole-genome sequence of A. oryzae BP2-1, which is comprised of 14 scaffolds with a total length of 39,455,382 bp and a GC content of 47.13%.

scholarly journals Whole-Genome Sequence of Mycobacterium ulcerans CSURP7741, a French Guianan Clinical Isolate

2019 ◽  
Vol 8 (29) ◽  
Author(s):  
Jamal Saad ◽  
Marine Combe ◽  
Nassim Hammoudi ◽  
Pierre Couppié ◽  
Romain Blaizot ◽  
...  
Keyword(s):  
Clinical Isolate ◽  
Genome Sequence ◽  
Buruli Ulcer ◽  
Gc Content ◽  
Mycobacterium Ulcerans ◽  
Whole Genome Sequence ◽  
Whole Genome ◽  
Protein Coding ◽  
Content Type ◽  
Rna Genes

Combined Nanopore and Illumina whole-genome sequencing of a French Guianan Mycobacterium ulcerans (Buruli ulcer agent) clinical isolate yielded a 5.12-Mbp genome with a 65.5% GC content, 5,215 protein-coding genes, and 51 predicted RNA genes. This publicly available M. ulcerans whole-genome sequence from a strain isolated in South America is closely related to M. ulcerans subsp. liflandii.

scholarly journals Complete Genome Sequence of Bacillus cereus Strain PL1, Isolated from Soil in Japan

2020 ◽  
Vol 9 (12) ◽  
Author(s):  
Kentaro Miyazaki ◽  
Erina Hase ◽  
Tomomasa Maruya
Keyword(s):  
Bacillus Cereus ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Soil Bacterium ◽  
Nucleotide Identity ◽  
Average Nucleotide Identity ◽  
Content Type ◽  
Bacterium Strain

We isolated the soil bacterium strain PL1 and herein report its complete genome sequence. The strain presented 97% average nucleotide identity (ANI) to Bacillus cereus and 91% ANIs to other members of the B. cereus group, indicating that it is affiliated with B. cereus.

scholarly journals Draft Genome Sequence of Bacillus albus Strain IB84, Isolated from Mexican Soil

2021 ◽  
Vol 10 (17) ◽  
Author(s):  
Jorge H. García-García ◽  
Carlos J. Moreno-Peña ◽  
Cesar I. Hernández-Vásquez ◽  
Luis J. Galán-Wong ◽  
Benito Pereyra-Alférez
Keyword(s):  
New Species ◽  
Bacillus Thuringiensis ◽  
Genome Sequence ◽  
Draft Genome ◽  
Draft Genome Sequence ◽  
Nucleotide Identity ◽  
Average Nucleotide Identity ◽  
Gene Sequences ◽  
Content Type ◽  
A New Species

ABSTRACT Bacillus albus is a new species, but it lies on the borderline with Bacillus thuringiensis. In this work, we report a strain previously identified as Bacillus thuringiensis IB84, which now, based on average nucleotide identity and rRNA 16S, gyrB, groEL, and xre gene sequences, must be identified as Bacillus albus.

Comparative genome analysis and phylogenomic of Xanthomonas citri pv. viticola lead to new taxonomic insights about species of Xanthomonas

2020 ◽  
Author(s):  
Antonio Roberto Gomes de Farias ◽  
Wilson José da Silva Junior ◽  
José Bandeira do Nascimento Junior ◽  
Valdir de Queiroz Balbino ◽  
Ana Maria Benko-Iseppon ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Dna Hybridization ◽  
In Silico ◽  
Whole Genome Sequence ◽  
Nucleotide Identity ◽  
Whole Genome ◽  
Average Nucleotide Identity ◽  
Xanthomonas Citri ◽  
Genome Sequences ◽  
Xanthomonas Species

Abstract Background Xanthomonas citri pv. viticola is one of the most critical grapevine diseases in the Northeast of Brazil, presenting a high risk to Brazilian and worldwide areas of grape production. The X.citri pv. viticola epithet was recently proposed to be changed from X. campestris pv. v iticola based on multilocus sequence analysis and whole-genome sequences. Besides, genomics has revolutionized the field of bacteriology, by associating genome sequencing with comparative analysis such as in silico analysis such as DNA-DNA hybridization, average nucleotide identity, distance between genomes, pan-genomic approach, and phylogenomic, providing valuable insights and knowledge about virulence factors and contributing to increase the understanding and clarifying the taxonomic relationship of Xanthomonas and others prokaryotic species.Results We used the whole-genome sequence of three Brazilian strains and the pathotype to characterize X.citri pv. viticola accessions plus 124 whole-genome sequences of Xanthomonas species available in NCBI, comprising 13 species and 15 pathovars. The whole-genome sequence structure of X. citri pv. viticola was shown presents a high level of conservation concerning other X. citri species. Pan-genomic approaches, average nucleotide identity analysis, and in silico DNA-DNA hybridization were carried out, allowing X.citri pv. viticola characterization and inferences on the phylogenetic relationships within Xanthomonas . The analysis of the sequence of the 128 genomes clustered the Xanthomonas strains in eight main groups according to the recently proposed classification in all approaches used. Also, the analysis revealed that X. hortorum and X. gardneri should be classified as a single species, and the strain 17 of X. campestris and XC01 of X. citri pv. mangiferaeindicae widely described in the literature are misclassified.Conclusions We performed the genomic characterization of three representative Brazilian strains of Xcv . The genomic approaches based in the pan-genome, average nucleotide identity, and in silico DNA-DNA hybridization support the proposed taxonomic position of X.citri pv. viticola and of the recently proposed Xanthomonas species and pathovars. In addition, we detected species delimitation of the misclassified Xanthomonas strains with extensive studies reported in the literature.

scholarly journals Draft Genome Sequence of a Novel “Candidatus Liberibacter” Species Detected in a Zanthoxylum Species from Bhutan

2020 ◽  
Vol 9 (40) ◽  
Author(s):  
Grant A. Chambers ◽  
Nerida J. Donovan ◽  
Daniel R. Bogema ◽  
Namgay Om ◽  
George A. C. Beattie ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Draft Genome ◽  
Gc Content ◽  
Draft Genome Sequence ◽  
Nucleotide Identity ◽  
Average Nucleotide Identity ◽  
Coding Sequences ◽  
Total Length ◽  
Candidatus Liberibacter ◽  
Unidentified Species

ABSTRACT The draft genome sequence of a novel “Candidatus Liberibacter” species detected in an unidentified species of Zanthoxylum (Rutaceae) collected in Bhutan is reported. The total length is 1,408,989 bp with 1,169 coding sequences in 96 contigs, a GC content of 37.3%, and 76 to 77% average nucleotide identity with several other “Ca. Liberibacter” species.

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