Evolution and Comparative Genomics of F33:A−:B− Plasmids Carrying
 bla
 CTX-M-55
 or
 bla
 CTX-M-65
 in
 Escherichia coli
 and
 Klebsiella pneumoniae
 Isolated from Animals, Food Products, and Humans in China

Wang, Jing; Zeng, Zhenling; Huang, Xinyi; Zhi-gang, MA; Guo, Zewen; Lv, Luchao; Xia, Ying-Bi; Zeng, Li; Song, Qianhua; Liu, Jianhua

doi:10.1128/msphere.00137-18

Cited by 45 publications

(40 citation statements)

References 36 publications

(42 reference statements)

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“…The type K genetic structure in pHNBC6-3 (F33:A-:B-) showed 99% nucleotide identity to that found in our previously described pHNMC02 F33:A-:B- plasmid ( MG197489 , chicken, E. coli ) and pHNGD4P177 ( MG197492 , pig, E. coli ) ( 24 ) and differed by only three nucleotide changes. The resistance region was bound by fragments of ΔIS 1 and contained four IS 26 elements flanking three different segments associated with a fosA3 resistance module ( Fig.…”

Section: Resultssupporting

confidence: 57%

“…In our study, fosA3 was found to be responsible for fosfomycin resistance in ESBL-producing Enterobacterales strains from vegetables. fosA3 has been detected in many countries around the world but mainly occurs in E. coli from food animals in China ( 5 , 10 , 24 – 27 ). However, there are very few related reports on vegetable sources, with only one related study on fosA3 (1.2%) in ESBL-producing E. coli isolates in Germany reported recently ( 13 ).…”

Section: Discussionmentioning

confidence: 99%

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Multiple Plasmid Vectors Mediate the Spread of fosA3 in Extended-Spectrum-β-Lactamase-Producing Enterobacterales Isolates from Retail Vegetables in China

Huang

Wang

et al. 2020

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The plasmid-mediated fosfomycin resistance gene fosA3 has been detected in Enterobacterales from various sources but has rarely been reported in vegetables. In this study, the aim was to investigate the prevalence of and, subsequently, to characterize fosA3-positive Enterobacterales isolates from retail vegetables. Seventeen (7.3%) fosA3-carrying strains were identified from 233 extended-spectrum-β-lactamase-producing Enterobacterales isolates from vegetables. All 17 isolates, including six Escherichia coli, seven Klebsiella pneumoniae, two Raoultella ornithinolytica, and two Citrobacter freundii isolates, carried blaCTX-M. S1-nuclease pulsed-field gel electrophoresis (S1-PFGE) and hybridization confirmed that the fosA3 genes in 16 isolates were located on plasmids ranging in size from ∼40 kb to ∼250 kb, except one located on chromosome of C. freundii. All the fosA3-carrying plasmids from 16 fosA3-positive isolates were successfully transferred into the recipient bacteria by transformation or conjugation. In agreement with data determined with isolates from food animals, the IncHI2/ST3 and IncN-F33:A-:B-/F33:A-:B plasmids were the main vectors of fosA3 in E. coli. Additionally, F24:A-:B1, IncFIIK-IncR, IncFIIS, IncR, and two untypeable plasmids were found for the first time to be vectors for fosA3 in Enterobacterales. The genetic contexts of fosA3 in 15 Enterobacterales isolates differed due to insertion and/or loss of molecular modules mediated by mobile elements. However, all fosA3 genes were flanked by IS26, as commonly observed in other fosA3-carrying plasmids. Here, we report a high rate of detection of fosA3 genes, mediated by multiple plasmid vectors, in ESBL-producing Enterobacterales from retail vegetables. FosA3-producing Enterobacterales could be transmitted to the human body by direct contact or consumption of vegetables, which might pose a potential threat to public health. IMPORTANCE This report provides important information on the transmission and epidemiology of fosA3 among Enterobacterales isolates from vegetables. The rate of occurrence of fosA3 in ESBL-producing Enterobacterales from retail vegetables is high, and fosA3 was found to be carried by diverse plasmids. Some novel genetic contexts of fosA3 and novel fosA3-carrying plasmids, including several plasmid types common in K. pneumoniae, were identified, increasing the number of known transfer vectors for the fosA3 gene and reflecting the complexity of fosA3 transmission in Enterobacterales. The capture of fosA3 by the resident plasmid of K. pneumoniae will accelerate the spread of fosA3 in K. pneumoniae, one of the most pathogenic species in clinical medicine. Considering the clinical importance of fosfomycin, and the fact that vegetables are directly consumed, the fosfomycin resistance genes present a risk of transmission to the human body through the food chain and thus pose a threat to public health.

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Section: Resultssupporting

confidence: 57%

Section: Discussionmentioning

confidence: 99%

Multiple Plasmid Vectors Mediate the Spread of fosA3 in Extended-Spectrum-β-Lactamase-Producing Enterobacterales Isolates from Retail Vegetables in China

Huang

Wang

et al. 2020

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“…Plasmids play a critical role in the global dissemination of ESBL genes . The bla CTX-M-55 gene was frequently found on IncF, IncI1, and IncHI2 plasmids of E. coli in many countries, including China (Yang et al, 2014;Wang et al, 2018), France (Lupo et al, 2018), and United States (McGann et al, 2016). Similarly, the presence of I1-Iγ, F, and P plasmids in bla CTX-M-55 -positive ESBL-EC isolates from pigs has been documented in South Korea (Tamang et al, 2013b).…”

Section: Discussionmentioning

confidence: 90%

Clinically Relevant Extended-Spectrum β-Lactamase–Producing Escherichia coli Isolates From Food Animals in South Korea

Song

Kim

et al. 2020

Front. Microbiol.

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Extended-spectrum β-lactam antimicrobials have been broadly used in food animals and humans to control infectious diseases. However, the emergence and rapid spread of extended-spectrum β-lactamase (ESBL)-producing Enterobacteriaceae, mainly Escherichia coli, have seriously threatened global health in recent decades. In this study, we determined the prevalence, antimicrobial susceptibility, and genetic properties of ESBL-producing E. coli (ESBL-EC) strains isolated from food animals in South Korea. A total of 150 fecal samples from healthy chickens (n = 34), pigs (n = 59), and cattle (n = 57) were screened from January to July 2018. Among these, 77 non-duplicate cefotaxime-resistant ESBL-EC strains were isolated from 32 chicken, 41 pig, and 4 cattle samples, with the corresponding occurrence rates of 94.1, 69.5, and 7.0%, respectively. All the isolates showed multidrug resistance (MDR) and produced at least one type of β-lactamase, including CTX-M (98.7%) and TEM (40.3%). CTX-M-14 (53.1%), CTX-M-55 (53.7%), and CTX-M-65 (50.0%) were the predominant genotypes in the chicken, pig, and cattle samples, respectively. Multilocus sequence typing revealed 46 different sequence types (STs), including the human-associated extraintestinal pathogenic E. coli ST131 (n = 2), ST10 (n = 5), ST38 (n = 1), ST410 (n = 4), ST354 (n = 2), ST58 (n = 3), ST117 (n = 1), and ST457 (n = 1). To the best of our knowledge, this is the first report of pandemic E. coli ST131 in non-human isolates in South Korea. Our results demonstrate the high prevalence and diversity of MDR-ESBL-EC in food animals and highlight them as potential pathogenic ESBL-EC reservoirs that may pose a high risk to human health.

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“…Furthermore, additional results have confirmed relatively high genomic correlation between Sc. and Lm., further supporting a high degree of relatedness based on both sequence homology and evolutionary history 44 . Here, comparative genomics was conducted to comprehensively analyze the relationship between Sc.…”

Section: Comparative Genomics Analysismentioning

confidence: 64%

Genome-scale analyses and characteristics of putative pathogenicity genes of Stagonosporopsis cucurbitacearum, a pumpkin gummy stem blight fungus

Zhao

Zhang

et al. 2020

Sci Rep

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Outbreaks of gummy stem blight (GSB), an emerging seed pumpkin disease, have increased in number and have become more widespread in recent years. Previously we reported that Stagonosporopsis cucurbitacearum (Sc.) is the dominant fungal cause of pumpkin seedling GSB in Northeast China, where it has greatly reduced crop yields in that region. Here, high-throughput whole-genome sequencing and assembly of the Sc. genome were conducted toward revealing pathogenic molecular regulatory mechanisms involved in fungal growth and development. Zq-1 as representative Sc. strain, DNA of Zq-1was prepared for genomic sequencing, we obtained 5.24 Gb of high-quality genomic sequence data via PacBio RS II sequencing. After sequence data was processed to filter out low quality reads, a hierarchical genome-assembly process was employed that generated a genome sequence of 35.28 Mb in size. A total of 9844 genes were predicted, including 237 non-coding RNAs, 1024 genes encoding proteins with signal peptides, 2066 transmembrane proteins and 756 secretory proteins.Transcriptional identification revealed 54 differentially expressed secretory proteins. Concurrently, 605, 130 and 2869 proteins were matched in the proprietary databases Carbohydrate-Active EnZymes database (CAZyme), Transporter Classification Database (TCDB) and Pathogen–Host Interactions database (PHI), respectively. And 96 and 36 DEGs were identified form PHI database and CAZyme database, respectively. In addition, contig00011.93 was an up-regulated DEG involving ATP-binding cassette metabolism in the procession of infection. In order to test relevance of gene predictions to GSB, DEGs with potential pathogenic relevance were revealed through transcriptome data analysis of Sc. strains pre- and post-infection of pumpkin. Interestingly, Sc. and Leptosphaeria maculans (Lm.) exhibited relatively similar with genome lengths, numbers of protein-coding genes and other characteristics. This work provides a foundation for future exploration of additional Sc. gene functions toward the development of more effective GSB control strategies.

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Evolution and Comparative Genomics of F33:A−:B− Plasmids Carrying bla _CTX-M-55 or bla _CTX-M-65 in Escherichia coli and Klebsiella pneumoniae Isolated from Animals, Food Products, and Humans in China

Cited by 45 publications

References 36 publications

Multiple Plasmid Vectors Mediate the Spread of fosA3 in Extended-Spectrum-β-Lactamase-Producing Enterobacterales Isolates from Retail Vegetables in China

Multiple Plasmid Vectors Mediate the Spread of fosA3 in Extended-Spectrum-β-Lactamase-Producing Enterobacterales Isolates from Retail Vegetables in China

Clinically Relevant Extended-Spectrum β-Lactamase–Producing Escherichia coli Isolates From Food Animals in South Korea

Genome-scale analyses and characteristics of putative pathogenicity genes of Stagonosporopsis cucurbitacearum, a pumpkin gummy stem blight fungus

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Evolution and Comparative Genomics of F33:A−:B− Plasmids Carrying bla CTX-M-55 or bla CTX-M-65 in Escherichia coli and Klebsiella pneumoniae Isolated from Animals, Food Products, and Humans in China

Cited by 45 publications

References 36 publications

Multiple Plasmid Vectors Mediate the Spread of fosA3 in Extended-Spectrum-β-Lactamase-Producing Enterobacterales Isolates from Retail Vegetables in China

Multiple Plasmid Vectors Mediate the Spread of fosA3 in Extended-Spectrum-β-Lactamase-Producing Enterobacterales Isolates from Retail Vegetables in China

Clinically Relevant Extended-Spectrum β-Lactamase–Producing Escherichia coli Isolates From Food Animals in South Korea

Genome-scale analyses and characteristics of putative pathogenicity genes of Stagonosporopsis cucurbitacearum, a pumpkin gummy stem blight fungus

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Product

Resources

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Evolution and Comparative Genomics of F33:A−:B− Plasmids Carrying bla _CTX-M-55 or bla _CTX-M-65 in Escherichia coli and Klebsiella pneumoniae Isolated from Animals, Food Products, and Humans in China