Analysis of virulence potential of Escherichia coli O145 isolated from cattle feces and hide samples based on whole genome sequencing

• Published in: PloS one 2019-11, Vol.14 (11), p.e0225057-e0225057
• Main Authors: Shridhar, Pragathi B, Worley, Jay N, Gao, Xin, Yang, Xun, Noll, Lance W, Shi, Xiaorong, Bai, Jianfa, Meng, Jianghong, Nagaraja, T G
• Format: Article
• Language: English
• Subjects: Analysis; Animals; Antimicrobial agents; Bacteria; Base Sequence; Beef cattle; Biodiversity; Biology and Life Sciences; Biotechnology industries; Cattle; Clustering; CRISPR-Cas Systems - genetics; Deoxyribonucleic acid; DNA; DNA sequencing; Drug resistance; Drug Resistance, Bacterial - genetics; E coli; Epidemics; Escherichia coli; Escherichia coli - genetics; Escherichia coli - isolation & purification; Escherichia coli - pathogenicity; Feces; Feces - microbiology; Food safety; Food science; Foodborne diseases; Gene sequencing; Genes; Genetic analysis; Genetic diversity; Genome Size; Genome, Bacterial; Genomes; Genomics; Hindgut; Humans; Illnesses; Laboratories; Medicine and Health Sciences; Nutrition; Phylogeny; Plasmids; Plasmids - genetics; Prophages - genetics; Proteins; Research and Analysis Methods; Shiga toxin; Toxins; Transposons; Virulence; Virulence (Microbiology); Virulence - genetics; Whole Genome Sequencing
• ISSN: 1932-6203; 1932-6203
• DOI: 10.1371/journal.pone.0225057

Escherichia coli O145 serogroup is one of the big six non-O157 Shiga toxin producing E. coli (STEC) that causes foodborne illnesses in the United States and other countries. Cattle are a major reservoir of STEC, which harbor them in their hindgut and shed in the feces. Cattle feces is the main source of hide and subsequent carcass contaminations during harvest leading to foodborne illnesses in humans. The objective of our study was to determine the virulence potential of STEC O145 strains isolated from cattle feces and hide samples. A total of 71 STEC O145 strains isolated from cattle feces (n = 16), hide (n = 53), and human clinical samples (n = 2) were used in the study. The strains were subjected to whole genome sequencing using Illumina MiSeq platform. The average draft genome size of the fecal, hide, and human clinical strains were 5.41, 5.28, and 5.29 Mb, respectively. The average number of genes associated with mobile genetic elements was 260, 238, and 259, in cattle fecal, hide, and human clinical strains, respectively. All strains belonged to O145:H28 serotype and carried eae subtype γ. Shiga toxin 1a was the most common Shiga toxin gene subtype among the strains, followed by stx2a and stx2c. The strains also carried genes encoding type III secretory system proteins, nle, and plasmid-encoded virulence genes. Phylogenetic analysis revealed clustering of cattle fecal strains separately from hide strains, and the human clinical strains were more closely related to the hide strains. All the strains belonged to sequence type (ST)-32. The virulence gene profile of STEC O145 strains isolated from cattle sources was similar to that of human clinical strains and were phylogenetically closely related to human clinical strains. The genetic analysis suggests the potential of cattle STEC O145 strains to cause human illnesses. Inclusion of more strains from cattle and their environment in the analysis will help in further elucidation of the genetic diversity and virulence potential of cattle O145 strains.