scholarly journals MiSeq Sequencing of Salmonella enterica subsp. houtenae Isolates from a Dog Treated for Hind-Limb Paresis

2020 ◽  
Vol 9 (32) ◽  
Author(s):  
Mary L. Krath ◽  
Andrew E. Hillhouse ◽  
Sara V. Little ◽  
Sara D. Lawhon
Keyword(s):  
Cerebrospinal Fluid ◽  
Salmonella Enterica ◽  
Hind Limb ◽  
Illumina Miseq ◽  
Immunosuppressive Drugs ◽  
Clinical Isolates ◽  
Miseq Sequencing ◽  
Content Type

ABSTRACT The genomes of three clinical isolates of Salmonella enterica subsp. houtenae were sequenced using an Illumina MiSeq instrument. These isolates came from the urine and cerebrospinal fluid of a dog treated for hind-limb paresis with immunosuppressive drugs. S. enterica subsp. houtenae has also been implicated in brain infections in humans.

scholarly journals Closed Genome Sequences and Antimicrobial Resistance Profiles of Eight Wild Bird Salmonella Isolates Obtained with MinION and Illumina MiSeq Sequencing

2020 ◽  
Vol 9 (25) ◽  
Author(s):  
Sohail Naushad ◽  
Marc-Olivier Duceppe ◽  
Andrée Ann Dupras ◽  
Ruimin Gao ◽  
Dele Ogunremi
Keyword(s):  
Antimicrobial Resistance ◽  
Salmonella Enterica ◽  
Wild Bird ◽  
Illumina Miseq ◽  
Illumina Miseq Sequencing ◽  
Miseq Sequencing ◽  
Genome Sequences ◽  
Content Type ◽  
Antimicrobial Resistance Genes ◽  
Average Size

ABSTRACT Complete genome sequences of eight isolates of Salmonella enterica subsp. enterica from Canadian wild birds were determined by MinION and Illumina MiSeq sequencing. Assembled chromosomes had an average size of 4,833,662 bp. Salmonella enterica serovar Worthington obtained from partridge and quail carried 267-kb plasmids, which contained multiple antimicrobial resistance genes.

scholarly journals Whole-Genome Sequencing of Salmonella enterica Serovar Infantis and Kentucky Isolates Obtained from Layer Poultry Farms in Ecuador

2020 ◽  
Vol 9 (13) ◽  
Author(s):  
William Calero-Cáceres ◽  
Joyce Villacís ◽  
Maria Ishida ◽  
Elton Burnett ◽  
Christian Vinueza-Burgos
Keyword(s):  
Whole Genome Sequencing ◽  
Genome Sequencing ◽  
Salmonella Enterica ◽  
Egg Production ◽  
Illumina Miseq ◽  
Whole Genome ◽  
Genome Sequences ◽  
Content Type ◽  
Poultry Farms

Five strains of Salmonella enterica subsp. enterica serovar Infantis and two strains of S. enterica subsp. enterica serovar Kentucky isolated in 2017 from Ecuadorian layer poultry farms were sequenced using Illumina MiSeq technology. These isolates were collected on layer farms in central Ecuador, one of the most important areas of egg production in the country. The genome sequences of these isolates show valuable information for surveillance purposes.

scholarly journals Highly Drug-Resistant Salmonella enterica Serovar Indiana Clinical Isolates Recovered from Broilers and Poultry Workers with Diarrhea in China

2016 ◽  
Vol 60 (3) ◽  
pp. 1943-1947 ◽  
Author(s):  
Jiansen Gong ◽  
Chengming Wang ◽  
Shourong Shi ◽  
Hongduo Bao ◽  
Chunhong Zhu ◽  
...  
Keyword(s):  
Salmonella Enterica ◽  
Clinical Isolates ◽  
Drug Resistant ◽  
Content Type ◽  
Class 1 Integrons ◽  
Class 1 ◽  
Poultry Workers

Highly drug-resistantSalmonella entericaserovar Indiana became the most common serovar in broilers with diarrhea in China over the course of this study (15% in 2010 to 70% in 2014). While mostS. Indiana isolates (87%, 384/440) were resistant to 13 to 16 of the 16 antibiotics tested, 89% of non-S. Indiana isolates (528/595) were resistant to 0 to 6 antibiotics. Class 1 integrons and IncHI2-type plasmids were detected in allS. Indiana isolates, but only in 39% and 1% of non-S. Indiana isolates.

scholarly journals Genome and Plasmid Sequences of Escherichia coli KV7, an Extended-Spectrum β-Lactamase Isolate Derived from Feces of a Healthy Pig

2017 ◽  
Vol 5 (38) ◽  
Author(s):  
Michael D. Bateman ◽  
Stefan P. W. de Vries ◽  
Srishti Gupta ◽  
Luca Guardabassi ◽  
Lina M. Cavaco ◽  
...  
Keyword(s):  
Escherichia Coli ◽  
Illumina Miseq ◽  
Phylogenetic Group ◽  
Illumina Miseq Sequencing ◽  
Miseq Sequencing ◽  
Content Type ◽  
Pacbio Rs Ii ◽  
Protein Encoding ◽  
Encoding Genes ◽  
Group D

ABSTRACT We present single-contig assemblies for Escherichia coli strain KV7 (serotype O27, phylogenetic group D) and its six plasmids, isolated from a healthy pig, as determined by PacBio RS II and Illumina MiSeq sequencing. The chromosome of 4,997,475 bp and G+C content of 50.75% harbored 4,540 protein-encoding genes.

scholarly journals Draft Genome Sequences of Two Strains of Salmonella enterica Serovar Typhimurium Displaying Different Virulence in an Experimental Chicken Model

2017 ◽  
Vol 5 (6) ◽  
Author(s):  
Dele Ogunremi ◽  
Burton Blais ◽  
Hongsheng Huang ◽  
Linru Wang ◽  
Mohamed Elmufti ◽  
...  
Keyword(s):  
Salmonella Enterica ◽  
Salmonella Enterica Serovar Typhimurium ◽  
Virulent Strain ◽  
Draft Genome ◽  
Illumina Miseq ◽  
Genome Sequences ◽  
Content Type ◽  
Serovar Typhimurium ◽  
Chicken Model ◽  
Roche 454

ABSTRACT Salmonella enterica serovar Typhimurium strains 22495 and 22792, obtained from wild birds, were found to display different virulence attributes in an experimental chicken model. Closed genome sequences were assembled after sequencing with the Roche 454 and Illumina MiSeq platforms. An additional plasmid was present in the more virulent strain 22495.

scholarly journals Complete Genome Sequence of Megasphaera stantonii AJH120T, Isolated from a Chicken Cecum

2018 ◽  
Vol 7 (18) ◽  
Author(s):  
Joel J. Maki ◽  
Torey Looft
Keyword(s):  
Complete Genome Sequence ◽  
Complete Genome ◽  
Brain Heart Infusion ◽  
Illumina Miseq ◽  
Illumina Miseq Sequencing ◽  
Miseq Sequencing ◽  
Content Type ◽  
Sequencing Technologies ◽  
Novel Bacterium ◽  
Chicken Cecum

A novel bacterium, Megasphaera stantonii (strain AJH120T), was isolated from the cecum of a chicken during a screen for microorganisms using a brain heart infusion (BHI) medium. PacBio and Illumina MiSeq sequencing technologies were used to produce a single contiguous chromosome.

scholarly journals Draft Genome Sequences of Two Multidrug-Resistant Salmonella enterica Serovar Typhimurium Clinical Isolates from Uruguay

2018 ◽  
Vol 7 (4) ◽  
Author(s):  
Nicolás F. Cordeiro ◽  
Bruno D’Alessandro ◽  
Andrés Iriarte ◽  
Derek Pickard ◽  
Lucía Yim ◽  
...  
Keyword(s):  
Salmonella Enterica ◽  
Salmonella Enterica Serovar Typhimurium ◽  
Draft Genome ◽  
Multidrug Resistant ◽  
Clinical Isolates ◽  
Genome Sequences ◽  
Content Type ◽  
Serovar Typhimurium

Multidrug-resistant Salmonella enterica isolates are an increasing problem worldwide; nevertheless, the mechanisms responsible for such resistance are rarely well defined. Multidrug-resistant S. enterica serovar Typhimurium isolates ST3224 and ST827 were collected from two patients.

scholarly journals Subtyping Salmonella enterica Serovar Enteritidis Isolates from Different Sources by Using Sequence Typing Based on Virulence Genes and Clustered Regularly Interspaced Short Palindromic Repeats (CRISPRs)

2011 ◽  
Vol 77 (13) ◽  
pp. 4520-4526 ◽  
Author(s):  
Fenyun Liu ◽  
Subhashinie Kariyawasam ◽  
Bhushan M. Jayarao ◽  
Rodolphe Barrangou ◽  
Peter Gerner-Smidt ◽  
...  
Keyword(s):  
Salmonella Enterica ◽  
Virulence Genes ◽  
Food System ◽  
The United States ◽  
Clinical Isolates ◽  
Salmonella Enterica Serovar Enteritidis ◽  
Specific Sequence ◽  
Content Type ◽  
System A ◽  
Food Borne

ABSTRACTSalmonella entericasubsp.entericaserovar Enteritidis is a major cause of food-borne salmonellosis in the United States. Two major food vehicles forS. Enteritidis are contaminated eggs and chicken meat. Improved subtyping methods are needed to accurately track specific strains ofS. Enteritidis related to human salmonellosis throughout the chicken and egg food system. A sequence typing scheme based on virulence genes (fimHandsseL) and clustered regularly interspaced short palindromic repeats (CRISPRs)—CRISPR-including multi-virulence-locus sequence typing (designated CRISPR-MVLST)—was used to characterize 35 human clinical isolates, 46 chicken isolates, 24 egg isolates, and 63 hen house environment isolates ofS. Enteritidis. A total of 27 sequence types (STs) were identified among the 167 isolates. CRISPR-MVLST identified three persistent and predominate STs circulating among U.S. human clinical isolates and chicken, egg, and hen house environmental isolates in Pennsylvania, and an ST that was found only in eggs and humans. It also identified a potential environment-specific sequence type. Moreover, cluster analysis based onfimHandsseLidentified a number of clusters, of which several were found in more than one outbreak, as well as 11 singletons. Further research is needed to determine if CRISPR-MVLST might help identify the ecological origins ofS. Enteritidis strains that contaminate chickens and eggs.

scholarly journals Draft Genome Sequences of Two Novel Salmonella enterica subsp. enterica Strains Isolated from Low-Moisture Foods with Applications in Food Safety Research

2018 ◽  
Vol 6 (13) ◽  
Author(s):  
Devon R. Radford ◽  
Carlos G. Leon-Velarde ◽  
Shu Chen ◽  
Amir M. Hamidi Oskouei ◽  
Sampathkumar Balamurugan
Keyword(s):  
Salmonella Enterica ◽  
De Novo ◽  
Draft Genome ◽  
Illumina Miseq ◽  
Consensus Method ◽  
Genome Sequences ◽  
Content Type ◽  
Illumina Miseq Platform ◽  
Safety Research ◽  
Miseq Platform

ABSTRACT The genomes of two strains of Salmonella enterica subsp. enterica serovar Cubana and serovar Muenchen, isolated from dry hazelnuts and chia seeds, respectively, were sequenced using the Illumina MiSeq platform, assembled de novo using the overlap-layout-consensus method, and aligned to their respective most identical sequence genome scaffolds using MUMMER and BLAST searches.

scholarly journals Complete Genome Sequence of Staphylococcus aureus Phage SA75, Isolated from Goat Feces

2020 ◽  
Vol 9 (16) ◽  
Author(s):  
Roshan D’Souza ◽  
Richard C. White ◽  
Rachel Buzzeo ◽  
Karrie Goglin ◽  
Sanjay Vashee ◽  
...  
Keyword(s):  
Staphylococcus Aureus ◽  
Hybrid Approach ◽  
Illumina Miseq ◽  
Opportunistic Pathogen ◽  
Open Reading Frames ◽  
Miseq Sequencing ◽  
Antibiotic Resistant ◽  
Content Type ◽  
Human Infections ◽  
Reading Frames

Antibiotic-resistant Staphylococcus aureus is an opportunistic pathogen causing serious human infections worldwide. Here, we report the complete annotated genome of bacteriophage SA75, a member of the Siphoviridae family which could be an alternative to traditional antibiotics for treating Staphylococcus infections. We used a hybrid approach combining MinION and Illumina MiSeq sequencing, which yielded a 43,134-bp genome and 65 open reading frames.

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