Complete Genome Sequence of blaIMP–6-Positive Metakosakonia sp. MRY16-398 Isolate From the Ascites of a Diverticulitis Patient

Sekizuka, Tsuyoshi; Matsui, Mari; Takahashi, Tomiyo; Hayashi, Michiko; Suzuki, Satowa; Tokaji, Akihiko; Kuroda, Makoto

doi:10.3389/fmicb.2018.02853

Cited by 21 publications

(24 citation statements)

References 38 publications

(44 reference statements)

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“…The first report of the novel species was in 2016 when [Kluyvera] intestini str. GT-16 was isolated from the stomach of a patient with gastric cancer [43], and in the following years, strains of this species were emergingly discovered [44,45]. Of note, AF18 is the first clear report of human infection of this novel species, as…”

Section: Discussionmentioning

confidence: 99%

“…Except AF18 which cause a co-infection with a typical pathogen, two of the other strains of this species ( [Kluyvera] intestini str. GT-16 [46], and Matakosakonia sp.MRY16_398 [44]) were both isolated from patients in Japan, while the other three strains (Enterobacter sp.NFR05, Enterobacter sp.Bisph2, and Enterobacteriaceae bacterium ENNIH2) were isolated from rhizoplane (China), sandy soil (Algeria) [47], and hospital sewage (USA) [45], respectively, indicating a wide range of environments that this species can inhabit.…”

Section: Discussionmentioning

confidence: 99%

“…For example, Enterobacteriaceae bacterium ENNIH2 is KPC-2 positive [45], Metakosakonia sp. MRY16-398 carries bla IMP-6 , bla CTX-M-2 , and aadA2 gene [44], and the [Kluyvera] intestini str. GT-16 contains many ARGs that even confer resistance to polymyxin [46].…”

Section: Annotation Of Genes In the Genome Supports That Af18 Possessmentioning

confidence: 99%

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Genomic Characterization of an Emerging Enterobacteriaceae Species: the First Case of Co-infection With a Typical Pathogen in a Human Patient

Zhang

Shi

et al. 2020

Preprint

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Background: Opportunistic pathogens are important for clinical practice as they often cause antibiotic-resistant infections. However, little is documented for many emerging opportunistic pathogens and their biological characteristics. Here, we isolated a strain of extended-spectrum β-lactamase-producing Enterobacteriaceae from a patient with a biliary tract infection. We explored the biological and genomic characteristics of this strain to provide new evidence and detailed information for opportunistic pathogens about the co-infection they may cause.Results: The isolate grew very slowly but conferred strong protection for the co-infected cephalosporin-sensitive Klebsiella pneumoniae. As the initial laboratory testing failed to identify the taxonomy of the strain, great perplexity was caused in the etiological diagnosis and anti-infection treatment for the patient. Rigorous sequencing efforts achieved the complete genome sequence of the isolate which we designated as AF18. AF18 is phylogenetically close to a few strains isolated from soil, clinical sewage, and patients, forming a novel species together, while the taxonomic nomenclature of which is still under discussion. And this is the first report of human infection of this novel species. Like its relatives, AF18 harbors many genes related to cell mobility, various genes adaptive to both the natural environment and animal host, over 30 mobile genetic elements, and a plasmid bearing blaCTX-M-3 gene, indicating its ability to disseminate antimicrobial-resistant genes from the natural environment to patients. Transcriptome sequencing identified two sRNAs that critically regulate the growth rate of AF18, which could serve as targets for novel antimicrobial strategies. Conclusions: Our findings imply that AF18 and its species are not only infection-relevant but also potential disseminators of antibiotic resistance genes, which highlights the need for continuous monitoring for this novel species and efforts to develop treatment strategies.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

See 1 more Smart Citation

Genomic Characterization of an Emerging Enterobacteriaceae Species: the First Case of Co-infection With a Typical Pathogen in a Human Patient

Zhang

Shi

et al. 2020

Preprint

View full text Add to dashboard Cite

show abstract

“…The first report of the novel species was in 2016 when [Kluyvera] intestini str. GT-16 was isolated from the stomach of a patient with gastric cancer [22], and in the following years, strains of this species were emergingly discovered [23,24]. Of note, AF18 is the first clear report of human infection of this novel species, as…”

Section: Discussionmentioning

confidence: 99%

“…Except AF18 which cause a co-infection with a typical pathogen, two of the other strains of this species ( [Kluyvera] intestini str. GT-16 [25], and Matakosakonia sp.MRY16_398 [23]) were both isolated from patients in Japan, while the other three strains (Enterobacter sp.NFR05, Enterobacter sp.Bisph2, and Enterobacteriaceae bacterium ENNIH2) were isolated from rhizoplane (China), sandy soil (Algeria) [26], and hospital sewage (USA) [24], respectively, indicating a wide range of environments that this species can inhabit.…”

Section: Discussionmentioning

confidence: 99%

Genomic Characterization of an Emerging Enterobacteriaceae Species: the First Case of Co-infection With a Typical Pathogen in a Human Patient

Zhang

Shi

et al. 2020

Preprint

View full text Add to dashboard Cite

Background Opportunistic pathogens are important for clinical practice as they often cause antibiotic-resistant infections. However, little is documented for many emerging opportunistic pathogens and their biological characteristics. Here, we isolated a novel species strain of extended-spectrum β-lactamase-producing Enterobacteriaceae from a patient of with a biliary tract infection. We explored the biological and genomic characteristics of this strain to provide new evidence and detailed information for opportunistic pathogens about the co-infection they may cause. Results The isolate grows grew very slowly but confers conferred strong protection for the co-infected cephalosporin-sensitive Klebsiella pneumonia pneumoniae . As the initial laboratory testing failed to identify the taxonomy of the strain, great perplexity was caused in the etiological diagnosis , and anti-infection treatment for the patient. Rigorous sequencing efforts achieved the complete genome sequence of the isolate which we designated as AF18. AF18 is phylogenetically close to a few strains respectively isolated from soil, clinical sewage, and patients, forming a novel species together, while the taxonomic nomenclature of which is still under discussion. And this is the first report of human infection of this novel species. Like As its relatives, AF18 harbors many genes related to cell mobility, various genes adaptive to both the natural wild environment and animal host, tens of over 30 mobile genetic mobile elements, and a plasmid bearing bla CTX-M-3 gene, indicating its ability to disseminate antimicrobial - resistant genes from the natural environment to patients. Transcriptome sequencing identified two sRNAs that critically regulate the growth rate of AF18 , which could serve as targets for novel antimicrobial strategies. Conclusions Our findings imply that AF18 and its species are not only infection-relevant but also potential disseminators of antibiotic resistance genes i n transferring antibiotic determinants , which highlights the need for continuous monitoring for this novel species and efforts to develop controlling treatment strategies.

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Proposal for Unification of the Genus Metakosakonia and the Genus Phytobacter to a Single Genus Phytobacter and Reclassification of Metakosakonia massiliensis as Phytobacter massiliensis comb. nov.

Yao

et al. 2020

Curr Microbiol

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Complete Genome Sequence of blaIMP–6-Positive Metakosakonia sp. MRY16-398 Isolate From the Ascites of a Diverticulitis Patient

Cited by 21 publications

References 38 publications

Genomic Characterization of an Emerging Enterobacteriaceae Species: the First Case of Co-infection With a Typical Pathogen in a Human Patient

Genomic Characterization of an Emerging Enterobacteriaceae Species: the First Case of Co-infection With a Typical Pathogen in a Human Patient

Genomic Characterization of an Emerging Enterobacteriaceae Species: the First Case of Co-infection With a Typical Pathogen in a Human Patient

Proposal for Unification of the Genus Metakosakonia and the Genus Phytobacter to a Single Genus Phytobacter and Reclassification of Metakosakonia massiliensis as Phytobacter massiliensis comb. nov.

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