scholarly journals Draft Genome Sequences and Genomic Analysis for Pigment Production in Bacteria Isolated from Blue Discolored Soymilk and Tofu

2021 ◽  
Vol 9 ◽  
pp. 55-67
Author(s):  
Marina E. De León ◽  
Harriet S. Wilson ◽  
Guillaume Jospin ◽  
Jonathan A. Eisen
Keyword(s):  
Draft Genome ◽  
Genomic Analysis ◽  
Pigment Production ◽  
Genome Sequences

Genomic Analysis of the Moderately Haloalkaliphilic Bacterium Oceanobacillus kimchii Strain X50T with Improved High-Quality Draft Genome Sequences

2015 ◽  
Vol 25 (12) ◽  
pp. 1971-1976
Author(s):  
Dong-Wook Hyun ◽  
Tae Woong Whon ◽  
Joon-Yong Kim ◽  
Pil Soo Kim ◽  
Na-Ri Shin ◽  
...  
Keyword(s):  
Draft Genome ◽  
Genomic Analysis ◽  
Genome Sequences ◽  
High Quality

scholarly journals One Complete and Seven Draft Genome Sequences of Subdivision 1 and 3 Acidobacteria Isolated from Soil

2020 ◽  
Vol 9 (5) ◽  
Author(s):  
Stephanie A. Eichorst ◽  
Daniela Trojan ◽  
Marcel Huntemann ◽  
Alicia Clum ◽  
Manoj Pillay ◽  
...  
Keyword(s):  
Draft Genome ◽  
Genomic Analysis ◽  
Genome Sequences ◽  
High Affinity

We report eight genomes from representatives of the phylum Acidobacteria subdivisions 1 and 3, isolated from soils. The genome sizes range from 4.9 to 6.7 Mb. Genomic analysis reveals putative genes for low- and high-affinity respiratory oxygen reductases, high-affinity hydrogenases, and the capacity to use a diverse collection of carbohydrates.

scholarly journals Draft Genome Sequences of Legionella pneumophila JR32 and Lp01 Laboratory Strains Domesticated in Japan

2016 ◽  
Vol 4 (4) ◽  
Author(s):  
Chinatsu Maita ◽  
Mizue Matushita ◽  
Torahiko Okubo ◽  
Junji Matsuo ◽  
Masaki Miyake ◽  
...  
Keyword(s):  
Clinical Isolate ◽  
Legionella Pneumophila ◽  
Draft Genome ◽  
Genomic Analysis ◽  
Host Cells ◽  
Genome Sequences ◽  
Survival Mechanisms

We report here the draft genome sequences of two Legionella pneumophila variant strains (JR32 and Lp01_666) originally derived from a Philadelphia-1 clinical isolate, domesticated in Japan, with distinct susceptibility to amoebae. Detailed genomic analysis will allow us to better understand Legionella adaptation and survival mechanisms in host cells.

scholarly journals Draft Genome Sequences for Seven Streptococcus parauberis Isolates from Wild Fish in the Chesapeake Bay: TABLE 1 

2016 ◽  
Vol 4 (4) ◽  
Author(s):  
Ashley Haines ◽  
Emily Nebergall ◽  
Elvira Besong ◽  
Kimaya Council ◽  
Onaysha Lambert ◽  
...  
Keyword(s):  
Chesapeake Bay ◽  
Draft Genome ◽  
Morone Saxatilis ◽  
Genomic Analysis ◽  
Comparative Genomic ◽  
Streptococcus Iniae ◽  
Genome Sequences ◽  
Streptococcus Uberis ◽  
Animal Hosts ◽  
Streptococcus Parauberis

Streptococcus parauberis is a pathogen of cattle and fish, closely related Streptococcus uberis and Streptococcus iniae . We report the genomes of seven S. parauberis strains recovered from striped bass ( Morone saxatilis ) in the Chesapeake Bay. The availability of these genomes will allow comparative genomic analysis of Chesapeake Bay S. parauberis strains versus S. parauberis cultured from other animal hosts and geographic regions.

scholarly journals Draft Genome Sequences of Rhodococcus sp. Strains YH1 and T7, Isolated from Explosive-Contaminated Environments

2020 ◽  
Vol 9 (22) ◽  
Author(s):  
Paula Istvan ◽  
Zeev Ronen
Keyword(s):  
Contaminated Soil ◽  
Draft Genome ◽  
Genomic Analysis ◽  
Polluted Soil ◽  
Genome Sequences ◽  
Rhodococcus Sp

ABSTRACT We report the draft genome sequences for Rhodococcus sp. strains YH1 and T7. These strains are both capable of degrading hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX) and were isolated from explosive-contaminated soil and groundwater, respectively. Further genomic analysis might facilitate an understanding of the degradation of RDX and will contribute to the development of bioremediation methods for polluted soil and groundwater.

scholarly journals Draft Genome Sequences of Three Strains of Pseudomonas syringae pv. eriobotryae, a Pathogen Causing Canker Disease in Loquat, Isolated in Japan

2021 ◽  
Vol 10 (1) ◽  
Author(s):  
Hiroaki Tashiro ◽  
Yukio Nagano ◽  
Ayaka Jiromaru ◽  
Ryunosuke Sakaguchi ◽  
Naofumi Hiehata ◽  
...  
Keyword(s):  
Pseudomonas Syringae ◽  
Draft Genome ◽  
Pigment Production ◽  
Genome Sequences ◽  
Phytopathogenic Bacterium ◽  
Content Type ◽  
Canker Disease

ABSTRACT The phytopathogenic bacterium Pseudomonas syringae pv. eriobotryae causes canker disease in loquat. Isolates from Japan are classified into three groups based on pathogenicity and pigment production. In this study, we report the draft genome sequences of three strains, one belonging to each of the three groups.

scholarly journals Draft Genome Sequences of Enterohemorrhagic Escherichia coli O103:H2 Strains Isolated from Feces of Feedlot Cattle

2017 ◽  
Vol 5 (19) ◽  
Author(s):  
Lance W. Noll ◽  
Jay N. Worley ◽  
Xun Yang ◽  
Pragathi B. Shridhar ◽  
Jianfa Bai ◽  
...  
Keyword(s):  
Escherichia Coli ◽  
Draft Genome ◽  
Genomic Analysis ◽  
Feedlot Cattle ◽  
Enterohemorrhagic Escherichia Coli ◽  
Genome Sequences ◽  
Content Type ◽  
E Coli ◽  
Virulence Potential ◽  
A Minor

ABSTRACT The enterohemorrhagic pathotype represents a minor proportion of the Escherichia coli O103 strains shed in the feces of cattle. We report here the genome sequences of 43 strains of enterohemorrhagic E. coli (EHEC) O103:H2 isolated from feedlot cattle feces. The genomic analysis will provide information on the genetic diversity and virulence potential of bovine EHEC O103.

scholarly journals Comparative genomics of two Shewanella xiamenensis strains isolated from a pilgrim before and during travels to the Hajj

Gut Pathogens ◽  
2021 ◽  
Vol 13 (1) ◽  
Author(s):  
Thongpan Leangapichart ◽  
Linda Hadjadj ◽  
Philippe Gautret ◽  
Jean-Marc Rolain
Keyword(s):  
Genome Size ◽  
Pathogenic Bacteria ◽  
Capsular Polysaccharide ◽  
Draft Genome ◽  
Water Environment ◽  
Antibiotic Resistance Genes ◽  
Genomic Analysis ◽  
Comparative Genomic ◽  
Whole Genome ◽  
Genome Sequences

Abstract Background Shewanella xiamenensis has been reported in water environment and in patients and can act as the originator of oxacillinase in gram-negative bacteria. In order to assess genome plasticity and its functional properties related diarrhea symptoms in pilgrim, comparisons of draft genome sequences of the two isolates were conducted with other closely related genomes. Results We isolated S. xiamenensis 111B and 111D strains from a pilgrim before travels to the Hajj and during travels with diarrhea symptom, respectively. Whole-genome sequencing showed that draft genome size of 111B strain was 5,008,191 bp, containing 49 kb of a putative plasmid. The genome size of 111D was 4,964,295 bp containing 225 kb of a putative plasmid that shared the backbone sequences with the hospital wastewater strain T17. Comparatively, two Hajj strains are identical at 97.3% identity and 98.7% coverage. They are closely related to river water strain, AS58 by SNPs analysis. Notably, a novel blaOXA-48 allele blaOXA-547 was identified in 111D, sharing 99.5% identity with blaOXA-546 and blaOXA-894. Multiple copies of virulence specific genes, such as capsular polysaccharide biosynthesis, O-antigen and lasB (vibriolysin related gene) have been identified specifically in 111D, but absent in 111B strain. Conclusions The whole genome sequences of S. xiamenensis strain 111B and 111D, including comparative genomic analysis, highlight here the potential for virulence factors that might be related to the cause of diarrhea in humans and also indicate the possible acquisition of pathogenic bacteria, including antibiotic resistance genes or plasmids during the Hajj.

scholarly journals Comparative Genomic Analysis of Members of the GeneraMethanosphaeraandMethanobrevibacterReveals Distinct Clades with Specific Potential Metabolic Functions

Archaea ◽  
2018 ◽  
Vol 2018 ◽  
pp. 1-9 ◽  
Author(s):  
Anja Poehlein ◽  
Dominik Schneider ◽  
Melissa Soh ◽  
Rolf Daniel ◽  
Henning Seedorf
Keyword(s):  
Draft Genome ◽  
Genomic Analysis ◽  
Methanogenic Archaea ◽  
Comparative Genomic ◽  
Genome Sequences ◽  
Genomic Features ◽  
Metabolic Functions ◽  
Core Set ◽  
Cofactor Biosynthesis ◽  
Genome Analyses

MethanobrevibacterandMethanosphaeraspecies represent some of the most prevalent methanogenic archaea in the gastrointestinal tract of animals and humans and play an important role in this environment. The aim of this study was to identify genomic features that are shared or specific for members of each genus with a special emphasis of the analysis on the assimilation of nitrogen and acetate and the utilization of methanol and ethanol for methanogenesis. Here, draft genome sequences ofMethanobrevibacter thaueristrain DSM 11995T,Methanobrevibacter woeseistrain DSM 11979T, andMethanosphaera cuniculistrain 4103Tare reported and compared to those of 16 otherMethanobrevibacterandMethanosphaeragenomes, including genomes of the 13 currently available types of strains of the two genera. The comparative genome analyses indicate that among other genes, the absence of molybdopterin cofactor biosynthesis is conserved inMethanosphaeraspecies but reveals also that the three species share a core set of more than 300 genes that distinguishes the genusMethanosphaerafrom the genusMethanobrevibacter. Multilocus sequence analysis shows that the genusMethanobrevibactercan be subdivided into clades, potentially new genera, which may display characteristic specific metabolic features. These features include not only the potential ability of nitrogen fixation and acetate assimilation in a clade comprised ofMethanobrevibacterspecies from the termite gut andMethanobrevibacter arboriphilusstrains but also the potential capability to utilize ethanol and methanol in a clade comprisingMethanobrevibacter woliniistrain DSM 11976T,Mbb.sp. AbM4, andMbb. boviskoreanistrain DSM 25824T.

scholarly journals Draft Genome Sequence of Klebsiella variicola Strain KV321 Isolated from Rhizosphere Soil of Pisolithus tinctorius-Eucalyptus Mycorrhiza

2016 ◽  
Vol 4 (4) ◽  
Author(s):  
Shao-feng Jiang ◽  
Yi Liu ◽  
Mi-yun Xiao ◽  
Chu-jin Ruan ◽  
Zu-jun Lu
Keyword(s):  
Drug Resistance ◽  
Virulence Genes ◽  
Rhizosphere Soil ◽  
Draft Genome ◽  
Genomic Analysis ◽  
Pisolithus Tinctorius ◽  
Genome Sequences ◽  
Antibiotic Drug ◽  
Living Organisms ◽  
Genomic Basis

The draft genome sequences of Klebsiella variicola strain KV321, which was isolated from rhizosphere soil of Pisolithus tinctorius-Eucalyptus mycorrhiza, are reported here. The genome sequences contain genes involved in ABC transporter function in multiple-antibiotic drug resistance and colonization. This genomic analysis will help understand the genomic basis of K. variicola virulence genes and how the genes play a part in its interaction with other living organisms.

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