The draft genomes of Elizabethkingia anophelis of equine origin are genetically similar to three isolates from human clinical specimens

Johnson, William L.; Ramachandran, Akhilesh; Torres, Nathanial; Nicholson, Ainsley C.; Whitney, Anne M.; Bell, Melissa; Villarma, Aaron; Humrighouse, Ben W.; Sheth, Mili; Dowd, Scot E.; McQuiston, John R.; Gustafson, John E.

doi:10.1371/journal.pone.0200731

Cited by 12 publications

(8 citation statements)

References 105 publications

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“…The combination of clinical and environmental genomic data, with such low genetic diversity suggests these strains were transmitted via the common reservoir of the hand-washing sink given the extended time frame between patient infection and environmental collection. Near identical isolates have been described previously within E. anophelis , such as environmentally collected OSUVM-1 and 2 isolates 51 , hospital outbreak strains NUHP 52 and Wisconsin CSID 6 strains, suggesting low genetic variation is not unusual amongst E. anophelis infections. The relatedness of sink or toilet environment hospital isolates EK4 and EK5 from the transplant ward, to EK1 and EK3 in the oncology ward suggest that another transmission event may have also taken place, despite not identifying a related clinical isolate.…”

Section: Discussionsupporting

confidence: 68%

Comparative genomics and antimicrobial resistance profiling of Elizabethkingia isolates reveals nosocomial transmission and in vitro susceptibility to fluoroquinolones, tetracyclines and trimethoprim-sulfamethoxazole

Burnard

Gore

Henderson

et al. 2020

Preprint

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The Elizabethkingia genus has gained global attention in recent years as a nosocomial pathogen. Elizabethkingia spp. are intrinsically multidrug resistant, primarily infect immunocompromised individuals, and are associated with high mortality (~20-40%). Although Elizabethkingia infections appear sporadically worldwide, gaps remain in our understanding of transmission, global strain relatedness and patterns of antimicrobial resistance. To address these knowledge gaps, 22 clinical isolates collected in Queensland, Australia, over a 16-year period along with six hospital environmental isolates were examined using MALDI-TOF MS (VITEK MS) and whole-genome sequencing to compare with a global strain dataset. Phylogenomic reconstruction against all publicly available genomes (n=100) robustly identified 22 E. anophelis, three E. miricola, two E. meningoseptica and one E. bruuniana from our isolates, most with previously undescribed diversity. Global relationships show Australian E. anophelis isolates are genetically related to those from the USA, England and Asia, suggesting shared ancestry. Genomic examination of clinical and environmental strains identified evidence of nosocomial transmission in patients admitted several months apart, indicating probable infection from a hospital reservoir. Furthermore, broth microdilution of the 22 clinical Elizabethkingia spp. isolates against 39 antimicrobials revealed almost ubiquitous resistance to aminoglycosides, carbapenems, cephalosporins and penicillins, but susceptibility to minocycline, levofloxacin and trimethoprim/sulfamethoxazole. Our study demonstrates important new insights into the genetic diversity, environmental persistence and transmission of Australian Elizabethkingia species. Furthermore, we show that Australian isolates are highly likely to be susceptible to minocycline, levofloxacin and trimethoprim/sulfamethoxazole, suggesting that these antimicrobials may provide effective therapy for Elizabethkingia infections.

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Section: Discussionsupporting

confidence: 68%

Comparative genomics and antimicrobial resistance profiling of Elizabethkingia isolates reveals nosocomial transmission and in vitro susceptibility to fluoroquinolones, tetracyclines and trimethoprim-sulfamethoxazole

Burnard

Gore

Henderson

et al. 2020

Preprint

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“…Moreover, improperly processed animalderived food and companion animals are known reservoirs for this antibiotic resistant bacterial pathogen. Elizabethkingia anophelis isolated in clinical practice (Figueroa Castro et al, 2017;Lee et al, 2021) and E. anophelis isolated from horses (Johnson et al, 2018) were reportedly susceptible to ciprofloxacin; however, the E. anophelis isolated in the present study was ciprofloxacin-resistant. Further studies are required to determine whether this difference was due to mutation of one or more genes involved in bacterial DNA separation (Drlica and Zhao, 1997).…”

Section: Discussioncontrasting

confidence: 46%

Profiling of meropenem-resistant bacteria in a river receiving wastewater effluent from a pharmaceutical industrial unit

Sung¹,

Young²

2022

Afr. J. Microbiol. Res.

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The aim of the present study was to understand the seasonal occurrence and diversity of species of meropenem-resistant bacteria in the Gumuncheon river receiving effluents from a pharmaceutical industry in Seoul, Korea.Water samples were collected from the Gumuncheon river in Kyoung-gi province during winter (January), spring (April), summer (August), and fall (November) of 2018. Water samples were plated in triplicate on tryptic soy agar plates containing 16 mg/L meropenem. Meropenem-resistant bacteria were isolated and genetically identified using 16S rRNA analysis. The predominant bacterial genera identified were Elizabethkingia, Pseudomonas, Chryseobacterium and Stenotrophomonas. Among these; Pseudomonas species Pseudomonas chengduensis and Pseudomonas taiwanesis showed resistance against 15 antibiotics. To prevent the occurrence and spread of meropenem-resistant bacteria in rivers, it is necessary to implement methods that can simultaneously kill multi-drug resistant bacteria and remove antibioticsfrom pharmaceutical industry effluent discharge. Further, to stop the spread of meropenem-resistant bacteria in environment, effluent discharge water should be stringently assessed for their risk of being an environmental hazard.

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“…; Table S2: Potential virulence-associated features among Elizabethkingia spp. as predicted using the Virulence Factor Database (VFDB) [ 39 , 40 , 41 , 43 , 44 , 46 , 59 , 60 , 61 , 62 , 72 , 73 , 77 , 119 , 120 , 121 , 122 , 123 , 124 , 125 , 126 , 127 , 128 , 129 , 130 , 131 ].…”

mentioning

confidence: 99%

Epidemiology and Characteristics of Elizabethkingia spp. Infections in Southeast Asia

2022

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Elizabethkingia spp. is a ubiquitous pathogenic bacterium that has been identified as the causal agent for a variety of conditions such as meningitis, pneumonia, necrotizing fasciitis, endophthalmitis, and sepsis and is emerging as a global threat including in Southeast Asia. Elizabethkingia infections tend to be associated with high mortality rates (18.2–41%) and are mostly observed in neonates and immunocompromised patients. Difficulties in precisely identifying Elizabethkingia at the species level by traditional methods have hampered our understanding of this genus in human infections. In Southeast Asian countries, hospital outbreaks have usually been ascribed to E. meningoseptica, whereas in Singapore, E. anophelis was reported as the main Elizabethkingia spp. associated with hospital settings. Misidentification of Elizabethkingia spp. could, however, underestimate the number of cases attributed to the bacterium, as precise identification requires tools such as MALDI-TOF MS, and particularly whole-genome sequencing, which are not available in most hospital laboratories. Elizabethkingia spp. has an unusual antibiotic resistance pattern for a Gram-negative bacterium with a limited number of horizontal gene transfers, which suggests an intrinsic origin for its multidrug resistance. Efforts to prevent and further understand Elizabethkingia spp. infections and limit its spread must rise to this new challenge.

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The draft genomes of Elizabethkingia anophelis of equine origin are genetically similar to three isolates from human clinical specimens

Cited by 12 publications

References 105 publications

Comparative genomics and antimicrobial resistance profiling of Elizabethkingia isolates reveals nosocomial transmission and in vitro susceptibility to fluoroquinolones, tetracyclines and trimethoprim-sulfamethoxazole

Comparative genomics and antimicrobial resistance profiling of Elizabethkingia isolates reveals nosocomial transmission and in vitro susceptibility to fluoroquinolones, tetracyclines and trimethoprim-sulfamethoxazole

Profiling of meropenem-resistant bacteria in a river receiving wastewater effluent from a pharmaceutical industrial unit

Epidemiology and Characteristics of Elizabethkingia spp. Infections in Southeast Asia

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