Complete Genome Sequencing of
            <i>Elizabethkingia</i>
            sp. Strain 2-6

Liu, Kuan-Ming; Chang, Huilan; Hsu, Ming-Hong; Lin, Yi-Zhen; Lee, Yu-Lin; Chen, Ying-Tsong

doi:10.1128/mra.00805-19

Cited by 5 publications

(4 citation statements)

References 9 publications

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“…Whole-genome sequencing were performed using Illumina iSeq100 for short-read sequencing and Nanopore MinION platforms for long-read sequencing as reported previously ( 34 ). Briefly, the libraries of short-read sequencing were constructed using the Nextera DNA CD Indexes (Illumina) and analyzed by Agilent 2100 Bioanalyzer that generated 150 bp paired end reads, followed by adaptor trimming.…”

Section: Methodsmentioning

confidence: 99%

“…Briefly, the libraries of short-read sequencing were constructed using the Nextera DNA CD Indexes (Illumina) and analyzed by Agilent 2100 Bioanalyzer that generated 150 bp paired end reads, followed by adaptor trimming. For long-read sequencing, libraries were constructed using Rapid Barcoding kit SQK-RBK004 (Oxford Nanopore Technologies) and sequenced on a Nanopore MinION following standard protocols ( 34 ). Hybrid assembly of the Illumina short paired-end reads and Nanopore long reads were performed using Unicycler version 0.4.8 to result in a single circular chromosome of all isolates ( 4 ).…”

Section: Methodsmentioning

confidence: 99%

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The Evolutionary Trend and Genomic Features of an Emerging Lineage of Elizabethkingia anophelis Strains in Taiwan

et al. 2022

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Elizabethkingia anophelis is an emerging multidrug resistant pathogen caused several global outbreaks recently. E. anophelis was frequently misidentified as E. meningoseptica in the past by conventional culture methods; therefore, the prevalence was often underestimated. Through revised identification, an increasing trend of E. anophelis infection was noted in a tertiary hospital and a dominant lineage of strains was recognized by genotyping.

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Section: Methodsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

The Evolutionary Trend and Genomic Features of an Emerging Lineage of Elizabethkingia anophelis Strains in Taiwan

et al. 2022

Self Cite

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“…sinks, faucets, mechanical ventilation equipment, medical devices, healthcare worker hands) and its ability to colonize and persist over long periods of time in water systems (such as tap water pipes) highlight the potential for sporadic outbreak emergence in hospitals 7 , 19 , 29 . In the last decade, E. anophelis has been confirmed as the responsible agent of several outbreaks across the world, including in Singapore 25 , the United States 23 , 30 , Hong Kong 15 and Taiwan 31 , 32 . Here, we report for the first time the detection of four multi-resistant E. anophelis clinical isolates in a hospital of Hanoi, Vietnam.…”

Section: Introductionmentioning

confidence: 99%

Whole-genome sequence and resistance determinants of four Elizabethkingia anophelis clinical isolates collected in Hanoi, Vietnam

Commans,

Hayer,

et al. 2024

Sci Rep

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Four isolates of the opportunistic pathogen Elizabethkingia anophelis were identified for the first time in a Vietnamese hospital and underwent antimicrobial susceptibility testing and genomic characterization by whole-genome sequencing. Complete, fully circularized genome sequences were obtained for all four isolates. Average Nucleotide Identity analysis and single nucleotide polymorphism phylogenetic analysis on the core genome showed that three of the four isolates were genetically distinct, ruling out the hypothesis of a single strain emergence. Antibiotic susceptibility testing highlighted multi-resistant phenotypes against most antimicrobial families, including beta-lactams, carbapenems, aminoglycosides, quinolones, macrolides, amphenicols, rifamycins and glycopeptides. Additionally, in silico genomic analysis was used to correlate the phenotypic susceptibility to putative resistance determinants, including resistance genes, point mutations and multidrug efflux pumps. Nine different resistance genes were located inside a single resistance pocket predicted to be a putative Integrative and Conjugative Element (ICE). This novel ICE was shared by three isolates from two different lineages and displayed similarity with ICEs previously reported in various Elizabethkingia and Chryseobacterium species. The role of such ICEs in pathogenicity, genome plasticity and antimicrobial resistance gene spread within the Flavobacteriaceae family needs to be further elucidated.

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“…Prior to a 2015-2016 E. anophelis community outbreak in the US Midwest involving 66 patients and 20 fatalities [4], outbreaks were primarily healthcare-related and often associated with water or a water source [5]. Three other species (Elizabethkingia umeracha, Elizabethkingia argenteiflava and an unnamed genomospecies) not yet associated with human infection were isolated from environmental and agricultural sources [6][7][8].…”

Section: Introductionmentioning

confidence: 99%

A Genetic Locus in Elizabethkingia anophelis Associated with Elevated Vancomycin Resistance and Multiple Antibiotic Reduced Susceptibility

Johnson,

Gupta,

Maharjan

et al. 2024

Antibiotics

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The Gram-negative Elizabethkingia express multiple antibiotic resistance and cause severe opportunistic infections. Vancomycin is commonly used to treat Gram-positive infections and has also been used to treat Elizabethkingia infections, even though Gram-negative organisms possess a vancomycin permeability barrier. Elizabethkingia anophelis appeared relatively vancomycin-susceptible and challenge with this drug led to morphological changes indicating cell lysis. In stark contrast, vancomycin growth challenge revealed that E. anophelis populations refractory to vancomycin emerged. In addition, E. anophelis vancomycin-selected mutants arose at high frequencies and demonstrated elevated vancomycin resistance and reduced susceptibility to other antimicrobials. All mutants possessed a SNP in a gene (vsr1 = vancomycin-susceptibility regulator 1) encoding a PadR family transcriptional regulator located in the putative operon vsr1-ORF551, which is conserved in other Elizabethkingia spp as well. This is the first report linking a padR homologue (vsr1) to antimicrobial resistance in a Gram-negative organism. We provide evidence to support that vsr1 acts as a negative regulator of vsr1-ORF551 and that vsr1-ORF551 upregulation is observed in vancomycin-selected mutants. Vancomycin-selected mutants also demonstrated reduced cell length indicating that cell wall synthesis is affected. ORF551 is a membrane-spanning protein with a small phage shock protein conserved domain. We hypothesize that since vancomycin-resistance is a function of membrane permeability in Gram-negative organisms, it is likely that the antimicrobial resistance mechanism in the vancomycin-selected mutants involves altered drug permeability.

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Complete Genome Sequencing of Elizabethkingia sp. Strain 2-6

Cited by 5 publications

References 9 publications

The Evolutionary Trend and Genomic Features of an Emerging Lineage of Elizabethkingia anophelis Strains in Taiwan

The Evolutionary Trend and Genomic Features of an Emerging Lineage of Elizabethkingia anophelis Strains in Taiwan

Whole-genome sequence and resistance determinants of four Elizabethkingia anophelis clinical isolates collected in Hanoi, Vietnam

A Genetic Locus in Elizabethkingia anophelis Associated with Elevated Vancomycin Resistance and Multiple Antibiotic Reduced Susceptibility

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