Research Publications (Food Safety)

Microbiology Resource Announcements, Ahead of Print. Here, we report three complete circular genome sequences of Salmonella enterica SalSpp07, SalSpp08, and SalSpp09, which were isolated from chicken meat and skin during quality control on the production line. The genomes were closed using a hybrid assembly method with short and long sequencing reads.

Microbiology Resource Announcements, Ahead of Print. Vibrio natriegens strain PWH3a, isolated from the Texas Gulf Coast, is used as a model organism in marine microbiology. Here, we report the complete genome sequence of strain PWH3a, which has two circular chromosomes, 4,650 coding sequences, 34 rRNA, 4 noncoding RNA (ncRNA), 131 tRNA genes, and one Mu-like prophage sequence.

Microbiology Resource Announcements, Ahead of Print. We report the circularized complete genome sequences, containing a circular chromosome and two circular plasmids, of strains SalSpp05 (4.9 Mbp) and SalSpp10 (4.8 Mbp), which were isolated from chicken carcass rinse water samples; the sequences were obtained by combining Oxford Nanopore Technologies long-read data and Illumina short-read data. Whole-genome alignments indicated that both strains belong to Salmonella enterica.

Microbiology Resource Announcements, Ahead of Print. Here, we present 20 draft genome sequences of Clostridium botulinum type A isolates originating from foodborne outbreaks in the United States and Ethiopia. Publicly available genomes enhance our understanding of C. botulinum genomics and are an asset in bioterrorism preparedness.

Microbiology Resource Announcements, Ahead of Print. The genome sequences of Escherichia coli O157:H7 strain 380-94, which was isolated from a 1994 dry-cured salami outbreak, and a stronger Congo red-binding variant, RV06, were determined using long-read sequencing technology and de novo assembly. Both strains possessed one chromosome and one plasmid. Strain RV06 possessed a 4,769-bp deletion in the rcs region.

Microbiology Resource Announcements, Ahead of Print. We identified a double-stranded DNA (dsDNA) bacteriophage appearing to belong to Herelleviridae, genus Kayvirus. The bacteriophage, Biyabeda-mokiny 1, was isolated from breast milk using a clinical isolate of Staphylococcus aureus. The genome is 141,091 bp in length and encodes 230 putative coding sequences.

Microbiology Resource Announcements, Ahead of Print. Pseudodesulfovibrio portus JCM 14722T is a strictly anaerobic, mesophilic sulfate-reducing bacterium isolated from estuarine sediments in Japan. Its draft genome sequence comprises 1 circular chromosome (3,403,863 bp), harboring 3,182 predicted protein- and 60 tRNA-encoding genes, as well as 2 rRNA operons.

Microbiology Resource Announcements, Ahead of Print. Two lytic double-stranded DNA (dsDNA) bacteriophages, belonging to the family Herelleviridae, were isolated from wastewater in Western Australia. Biyabeda-mokiny 2 appears to belong to the genus Kayvirus, and Koomba-kaat 1 to Silviavirus.

Microbiology Resource Announcements, Ahead of Print. Vibrio spp. were isolated from raw shrimps imported into Canada (2009 to 2019). A total of 92 isolates with various multidrug resistance profiles were sequenced, including 59 V. parahaemolyticus, 12 V. diabolicus, 10 V. cholerae, 7 V. alginolyticus, 1 V. campbellii, 1 V. harveyi, 1 V. owensii, and 1 V. vulnificus isolate.

Microbiology Resource Announcements, Ahead of Print. The complete genome sequence of the type strain Aliivibrio fischeri comb. nov. DSM 507 is presented. The genome consists of two circular chromosomes comprising 2,970,859 bp (chromosome 1) and 1,532,347 bp (chromosome 2) with GC contents of 38.94 and 37.13%, respectively.

Microbiology Resource Announcements, Ahead of Print. This work describes the draft genome sequence of Streptococcus agalactiae strain AH2, which was isolated from moribund farmed hybrid tilapia (Oreochromis niloticus × Oreochromis aureus) in Saudi Arabia. The draft genome is composed of a single chromosome of 2,104,071 bp, with a GC content of 35.7%.

Microbiology Resource Announcements, Ahead of Print. Vibrio spp. isolated from fresh retail mollusk samples were selected for sequencing based on their antimicrobial resistance burden. The de novo genomes include those for Vibrio alginolyticus (n = 48), V. diabolicus (n = 15), V. parahaemolyticus (n = 3), V. cholerae (n = 2), V.

Microbiology Resource Announcements, Ahead of Print. A subset of Vibrio spp. isolated from fresh Canadian mollusks (2014 to 2018) were selected for sequencing based on antimicrobial resistance profiles. The resulting de novo draft genomes include 38 Vibrio alginolyticus, 32 V. diabolicus, 10 V. parahaemolyticus, 1 V. cholerae, 1 V. ordalii, and 1 Vibrio sp. isolate.

Microbiology Resource Announcements, Ahead of Print. We report the complete genomic sequences of two agarolytic Vibrio species strains, STUT-A11 and STUT-A16, isolated from the red algae Gracilaria. Genomic annotations revealed that both strains harbor four β-agarases, α-neoagarooligosaccharide hydrolase, and agarolytic β-galactosidase, which support efficient agarose catabolism.

Microbiology Resource Announcements, Ahead of Print. Pandoraea sp. strain NE5, an arsenite-oxidizing bacterium, was isolated from the rhizosphere of an arsenic hyperaccumulator fern (Pteris vittate). Here, the genome sequence of Pandoraea sp. strain NE5 is announced.

Microbiology Resource Announcements, Ahead of Print. Two pasteurization-resistant strains, VHT1 and VHT2, of environmental, viable but nonculturable, pathogenic Vibrio parahaemolyticus were isolated from environmental oysters. Their whole-genome sequences were constructed. The genome sizes for VHT1 and VHT2 are 5.11 Mbp and 5.26 Mbp, respectively.

Microbiology Resource Announcements, Ahead of Print. Cronobacter sakazakii is a foodborne pathogen that causes severe illness in neonates and the elderly. Here, we present the genome sequence of C. sakazakii H05 sequence type 156 (ST156), CC21 strain from Kitfo, resulting in a genome size of 4,495,386 bp, with 4,340 coding sequences and a G+C content of 56.85% after assembly and annotation.

Microbiology Resource Announcements, Ahead of Print. A recent outbreak of salmonellosis in wild birds sickened 29 individuals in 12 states, leading to 14 hospitalizations. Here, we report the draft genome sequence of a multidrug-resistant strain of Salmonella enterica serovar Typhimurium that was isolated from a bird experiencing symptoms of salmonellosis.

Microbiology Resource Announcements, Ahead of Print. Salmonella has been reported as a high-priority pathogen by the World Health Organization. Here, we report the draft genome sequence of 2 Salmonella enterica serovar Minnesota strains isolated from chicken meat in Saudi Arabia (named SA49317 and SA49319) belonging to sequence type (ST) 548, revealing mobile colistin resistance (mcr)-1.1 gene for colistin resistance.

Microbiology Resource Announcements, Ahead of Print. Staphylococcus aureus is one of the most important bacterial pathogens causing bovine mastitis, which leads to huge economic losses worldwide. Here, we report draft genome sequences and antimicrobial resistance gene profiles of five Staphylococcus aureus strains that were isolated from bovine milk in Pakistan.

Microbiology Resource Announcements, Ahead of Print. This report announces the genome of a newly confirmed Salmonella serovar (Salmonella enterica serovar Abeokuta) that was isolated from a poultry feed sample collected on a farm in Abeokuta, capital of Ogun State in Nigeria. Salmonella Abeokuta has not been identified outside Nigeria, nor does it appear to be a cause for concern for animal and human health.

Microbiology Resource Announcements, Ahead of Print. Mammaliicoccus sciuri (previously Staphylococcus sciuri) is a frequent colonizer of mammals. We report the draft genomes of a methicillin-resistant strain (2254A) isolated from an armadillo and a methicillin-susceptible strain (6942A) from a cow. Genomes were sequenced using long-read Nanopore sequencing.

Microbiology Resource Announcements, Ahead of Print. Campylobacter jejuni is the leading pathogen that causes foodborne infections. Here, we report the complete genome sequences of four C. jejuni strains isolated from retail chicken meat and broiler feces samples. Genes encoding type VI secretion and antibiotic resistance were detected among these isolates.

Microbiology Resource Announcements, Ahead of Print. We report the isolation, identification, and assemblies of three antibiotic-producing soil bacteria (Staphylococcus pasteuri, Peribacillus butanolivorans, and Micrococcus yunnanensis) that inhibit the growth of Neisseria commensals in coculture.

Microbiology Resource Announcements, Ahead of Print. Campylobacter coli is a leading bacterial cause of human gastroenteritis. We reported the circularized 1.8-Mbp complete genome of MLST type 1055 C. coli strain P4581 isolated from a rhesus monkey, Macaca mulatta, hybridizing Illumina short- and Nanopore long-reads.