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Sevillano L, Herrera C, Valdes Á, de la Hoz Á, Cardeñoso L, Domingo D, Semiglia MA. First report of a carbapenemase OXA-48-producing Hafnia alvei clinical isolate. Access Microbiol 2023; 5:acmi000498.v3. [PMID: 37424558 PMCID: PMC10323787 DOI: 10.1099/acmi.0.000498.v3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2022] [Accepted: 02/21/2023] [Indexed: 07/11/2023] Open
Abstract
Introduction Carbapenems are usually used in the treatment of infections caused by cephalosporin-resistant Enterobacterales ; however, the increase in carbapenem-resistant Enterobacterales (CRE) has become one of the most important problems in public health. Hafnia alvei is associated with intestinal and extraintestinal infections, especially in patients with any chronic disease or some type of immunosupression. H. alvei is resistant to first-generation aminopenicillins and cephalosporins owing to the β-lactamase (Amp C) in their chromosome; the only carbapenem-resistant Hafnia strain described until now was due to a lack of the OmpK36 protein that plays an important role in permeability to carbapenems. Case presentation We present the case of a 65-year-old male diagnosed with acute lithiasic cholecystitis. Culture of the biliary prosthesis yielded a OXA-48-producing H. alvei that was identified by MALDI-TOF (matrix-assisted laser desorption/ionization-time of flight) MS. Carbapenemase production was detected by immunochromatography and confirmed by sequencing. Conclusion To our knowledge, this is the first report of OXA-48-producing H. alvei probably obtained by horizontal transfer from Enterobacter cloacae OXA-48 isolated in previous samples.
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Affiliation(s)
- Laura Sevillano
- Servicio de Microbiología, Hospital Universitario de La Princesa, Madrid, Spain
| | - Cristhian Herrera
- Servicio de Microbiología, Hospital Universitario de La Princesa, Madrid, Spain
| | - Álvaro Valdes
- Servicio de Cirugía General y Digestivo, Hospital Universitario de La Princesa, C/Diego de León, 62. 28006, Madrid, Spain
| | - Ángela de la Hoz
- Servicio de Cirugía General y Digestivo, Hospital Universitario de La Princesa, C/Diego de León, 62. 28006, Madrid, Spain
| | - Laura Cardeñoso
- Servicio de Microbiología, Hospital Universitario de La Princesa, Madrid, Spain
| | - Diego Domingo
- Servicio de Microbiología, Hospital Universitario de La Princesa, Madrid, Spain
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Turbett SE, Bronson RA, Worby CJ, McGrath GEG, Hodgkins E, Becker M, Belford B, Kogut L, Oliver E, Ryan ET, LaRocque RC, Earl AM, Pierce VM. Intrinsic Resistance to Colistin in the Genus Hafnia. J Clin Microbiol 2023; 61:e0132622. [PMID: 37022168 PMCID: PMC10204633 DOI: 10.1128/jcm.01326-22] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2022] [Accepted: 02/20/2023] [Indexed: 04/07/2023] Open
Abstract
A bacterial species is considered to be intrinsically resistant to an antimicrobial when nearly all of the wild-type isolates (i.e., those without acquired resistance) exhibit minimum inhibitory concentration (MIC) values that are sufficiently high such that susceptibility testing is unnecessary, and that the antimicrobial should not be considered for therapy. Accordingly, knowledge of intrinsic resistance influences both the selection of treatment regimens and the approach to susceptibility testing in the clinical laboratory, where unexpected results also facilitate the recognition of microbial identification or susceptibility testing errors. Previously, limited data have suggested that Hafnia spp. may be intrinsically resistant to colistin. We evaluated the in vitro activity of colistin against 119 Hafniaceae that were isolated from human samples: 75 (63%) from routine clinical cultures and 44 (37%) from stool samples of travelers undergoing screening for antimicrobial resistant organisms. Broth microdilution colistin MICs were ≥4 μg/mL for 117 of 119 (98%) isolates. Whole-genome sequencing of 96 of the isolates demonstrated that the colistin-resistant phenotype was not lineage-specific. 2 of the 96 (2%) isolates harbored mobile colistin resistance genes. Compared to whole-genome sequencing, VITEK MS matrix-assisted laser desorption/ionization time-of-flight mass spectrometry and VITEK 2 GN ID failed to consistently distinguish between Hafnia alvei, Hafnia paralvei, and Obesumbacterium proteus. In conclusion, using a reference antimicrobial susceptibility testing method and a genetically diverse collection of isolates, we found Hafnia spp. to be intrinsically resistant to colistin. The recognition of this phenotype will help inform rational approaches by which to perform antimicrobial susceptibility testing and therapy for patients with infections that are caused by Hafnia spp.
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Affiliation(s)
- Sarah E Turbett
- Department of Pathology, Massachusetts General Hospital, Boston, Massachusetts, USA
- Division of Infectious Diseases, Department of Medicine, Massachusetts General Hospital, Boston, Massachusetts, USA
- Harvard Medical School, Department of Medicine, Boston, Massachusetts, USA
- Harvard Medical School, Department of Pathology, Boston, Massachusetts, USA
| | - Ryan A Bronson
- Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Boston, Massachusetts, USA
| | - Colin J Worby
- Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Boston, Massachusetts, USA
| | - Graham E G McGrath
- Division of Infectious Diseases, Department of Medicine, Massachusetts General Hospital, Boston, Massachusetts, USA
| | - Emily Hodgkins
- Department of Pathology, Massachusetts General Hospital, Boston, Massachusetts, USA
| | - Margaret Becker
- Department of Pathology, Massachusetts General Hospital, Boston, Massachusetts, USA
| | - Barbara Belford
- Department of Pathology, Massachusetts General Hospital, Boston, Massachusetts, USA
| | - Lucyna Kogut
- Division of Infectious Diseases, Department of Medicine, Massachusetts General Hospital, Boston, Massachusetts, USA
| | - Elizabeth Oliver
- Division of Infectious Diseases, Department of Medicine, Massachusetts General Hospital, Boston, Massachusetts, USA
| | - Edward T Ryan
- Division of Infectious Diseases, Department of Medicine, Massachusetts General Hospital, Boston, Massachusetts, USA
- Harvard Medical School, Department of Medicine, Boston, Massachusetts, USA
| | - Regina C LaRocque
- Division of Infectious Diseases, Department of Medicine, Massachusetts General Hospital, Boston, Massachusetts, USA
- Harvard Medical School, Department of Medicine, Boston, Massachusetts, USA
| | - Ashlee M Earl
- Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Boston, Massachusetts, USA
| | - Virginia M Pierce
- Department of Pathology, Massachusetts General Hospital, Boston, Massachusetts, USA
- Harvard Medical School, Department of Pathology, Boston, Massachusetts, USA
- Pediatric Infectious Disease Unit, MassGeneral Hospital for Children, Boston, Massachusetts, USA
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Yin Z, Yuan C, Du Y, Yang P, Qian C, Wei Y, Zhang S, Huang D, Liu B. Comparative genomic analysis of the Hafnia genus reveals an explicit evolutionary relationship between the species alvei and paralvei and provides insights into pathogenicity. BMC Genomics 2019; 20:768. [PMID: 31646960 PMCID: PMC6806506 DOI: 10.1186/s12864-019-6123-1] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2019] [Accepted: 09/20/2019] [Indexed: 12/28/2022] Open
Abstract
Background The Hafnia genus is an opportunistic pathogen that has been implicated in both nosocomial and community-acquired infections. Although Hafnia is fairly often isolated from clinical material, its taxonomy has remained an unsolved riddle, and the involvement and importance of Hafnia in human disease is also uncertain. Here, we used comparative genomic analysis to define the taxonomy of Hafnia, identify species-specific genes that may be the result of ecological and pathogenic specialization, and reveal virulence-related genetic profiles that may contribute to pathogenesis. Results One complete genome sequence and 19 draft genome sequences for Hafnia strains were generated and combined with 27 publicly available genomes. We provided high-resolution typing methods by constructing phylogeny and population structure based on single-copy core genes in combination with whole genome average nucleotide identity to identify two distant Hafnia species (alvei and paralvei) and one mislabeled strain. The open pan-genome and the presence of numerous mobile genetic elements reveal that Hafnia has undergone massive gene rearrangements. Presence of species-specific core genomes associated with metabolism and transport suggests the putative niche differentiation between alvei and paralvei. We also identified possession of diverse virulence-related profiles in both Hafnia species., including the macromolecular secretion system, virulence, and antimicrobial resistance. In the macromolecular system, T1SS, Flagellum 1, Tad pilus and T6SS-1 were conserved in Hafnia, whereas T4SS, T5SS, and other T6SSs exhibited the evolution of diversity. The virulence factors in Hafnia are related to adherence, toxin, iron uptake, stress adaptation, and efflux pump. The identified resistance genes are associated with aminoglycoside, beta-lactam, bacitracin, cationic antimicrobial peptide, fluoroquinolone, and rifampin. These virulence-related profiles identified at the genomic level provide insights into Hafnia pathogenesis and the differentiation between alvei and paralvei. Conclusions Our research using core genome phylogeny and comparative genomics analysis of a larger collection of strains provides a comprehensive view of the taxonomy and species-specific traits between Hafnia species. Deciphering the genome of Hafnia strains possessing a reservoir of macromolecular secretion systems, virulence factors, and resistance genes related to pathogenicity may provide insights into addressing its numerous infections and devising strategies to combat the pathogen.
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Affiliation(s)
- Zhiqiu Yin
- Key Laboratory of Molecular Microbiology and Technology of the Ministry of Education, TEDA College, Nankai University, Tianjin, People's Republic of China.,TEDA institute of Biological Sciences and Biotechnology, Nankai University, Tianjin, People's Republic of China.,Tianjin Key Laboratory of Microbial Functional Genomeics, TEDA college, Nankai university, Tianjin, People's Republic of China
| | - Chao Yuan
- Key Laboratory of Molecular Microbiology and Technology of the Ministry of Education, TEDA College, Nankai University, Tianjin, People's Republic of China.,TEDA institute of Biological Sciences and Biotechnology, Nankai University, Tianjin, People's Republic of China.,Tianjin Key Laboratory of Microbial Functional Genomeics, TEDA college, Nankai university, Tianjin, People's Republic of China
| | - Yuhui Du
- Key Laboratory of Molecular Microbiology and Technology of the Ministry of Education, TEDA College, Nankai University, Tianjin, People's Republic of China.,TEDA institute of Biological Sciences and Biotechnology, Nankai University, Tianjin, People's Republic of China.,Tianjin Key Laboratory of Microbial Functional Genomeics, TEDA college, Nankai university, Tianjin, People's Republic of China
| | - Pan Yang
- Key Laboratory of Molecular Microbiology and Technology of the Ministry of Education, TEDA College, Nankai University, Tianjin, People's Republic of China.,TEDA institute of Biological Sciences and Biotechnology, Nankai University, Tianjin, People's Republic of China.,Tianjin Key Laboratory of Microbial Functional Genomeics, TEDA college, Nankai university, Tianjin, People's Republic of China
| | - Chengqian Qian
- Key Laboratory of Molecular Microbiology and Technology of the Ministry of Education, TEDA College, Nankai University, Tianjin, People's Republic of China.,TEDA institute of Biological Sciences and Biotechnology, Nankai University, Tianjin, People's Republic of China.,Tianjin Key Laboratory of Microbial Functional Genomeics, TEDA college, Nankai university, Tianjin, People's Republic of China
| | - Yi Wei
- Key Laboratory of Molecular Microbiology and Technology of the Ministry of Education, TEDA College, Nankai University, Tianjin, People's Republic of China.,TEDA institute of Biological Sciences and Biotechnology, Nankai University, Tianjin, People's Republic of China.,Tianjin Key Laboratory of Microbial Functional Genomeics, TEDA college, Nankai university, Tianjin, People's Republic of China
| | - Si Zhang
- Key Laboratory of Molecular Microbiology and Technology of the Ministry of Education, TEDA College, Nankai University, Tianjin, People's Republic of China.,TEDA institute of Biological Sciences and Biotechnology, Nankai University, Tianjin, People's Republic of China.,Tianjin Key Laboratory of Microbial Functional Genomeics, TEDA college, Nankai university, Tianjin, People's Republic of China
| | - Di Huang
- Key Laboratory of Molecular Microbiology and Technology of the Ministry of Education, TEDA College, Nankai University, Tianjin, People's Republic of China. .,TEDA institute of Biological Sciences and Biotechnology, Nankai University, Tianjin, People's Republic of China. .,Tianjin Key Laboratory of Microbial Functional Genomeics, TEDA college, Nankai university, Tianjin, People's Republic of China.
| | - Bin Liu
- Key Laboratory of Molecular Microbiology and Technology of the Ministry of Education, TEDA College, Nankai University, Tianjin, People's Republic of China. .,TEDA institute of Biological Sciences and Biotechnology, Nankai University, Tianjin, People's Republic of China. .,Tianjin Key Laboratory of Microbial Functional Genomeics, TEDA college, Nankai university, Tianjin, People's Republic of China.
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Abstract
Background Deep infection following open both bone forearm fractures is a rare complication. Prophylactic antibiotic regimens are targeted at the most common pathogens, which include primarily Staph aureus followed by gram-negative bacteria. Hafnia alvei is an unusual pathogen that is rarely pathogenic in humans and has never been reported as a cause of infection following open fracture. Methods We present a 12-year-old male with an open forearm fracture who developed a late deep infection. Cultures grew only Hafnia alvei. The patient was treated with debridement, placement of antibiotic beads, and ciprofloxacin. Results At 6 months following the initial debridement, the patient had no clinical evidence of infection and regained full function of the affected forearm without any residual deficits. Conclusions This is the first report of deep infection following an open forearm fracture owing to Hafnia alvei, a pathogen rarely responsible for human infection.
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Affiliation(s)
- Jody Litrenta
- Dept. of Orthopaedic Surgery, Children's National Medical Center, 111 Michigan Ave., Washington, DC 20010, United States
| | - Matthew Oetgen
- Dept. of Orthopaedic Surgery, Children's National Medical Center, 111 Michigan Ave., Washington, DC 20010, United States
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Wittmann A, Lamprinaki D, Bowles KM, Katzenellenbogen E, Knirel YA, Whitfield C, Nishimura T, Matsumoto N, Yamamoto K, Iwakura Y, Saijo S, Kawasaki N. Dectin-2 Recognizes Mannosylated O-antigens of Human Opportunistic Pathogens and Augments Lipopolysaccharide Activation of Myeloid Cells. J Biol Chem 2016; 291:17629-38. [PMID: 27358401 PMCID: PMC5016159 DOI: 10.1074/jbc.m116.741256] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2016] [Indexed: 12/20/2022] Open
Abstract
LPS consists of a relatively conserved region of lipid A and core oligosaccharide and a highly variable region of O-antigen polysaccharide. Whereas lipid A is known to bind to the Toll-like receptor 4 (TLR4)-myeloid differentiation factor 2 (MD2) complex, the role of the O-antigen remains unclear. Here we report a novel molecular interaction between dendritic cell-associated C-type lectin-2 (Dectin-2) and mannosylated O-antigen found in a human opportunistic pathogen, Hafnia alvei PCM 1223, which has a repeating unit of [-Man-α1,3-Man-α1,2-Man-α1,2-Man-α1,2-Man-α1,3-]. H. alvei LPS induced higher levels of TNFα and IL-10 from mouse bone marrow-derived dendritic cells (BM-DCs), when compared with Salmonella enterica O66 LPS, which has a repeat of [-Gal-α1,6-Gal-α1,4-[Glc-β1,3]GalNAc-α1,3-GalNAc-β1,3-]. In a cell-based reporter assay, Dectin-2 was shown to recognize H. alvei LPS. This binding was inhibited by mannosidase treatment of H. alvei LPS and by mutations in the carbohydrate-binding domain of Dectin-2, demonstrating that H. alvei LPS is a novel glycan ligand of Dectin-2. The enhanced cytokine production by H. alvei LPS was Dectin-2-dependent, because Dectin-2 knock-out BM-DCs failed to do so. This receptor cross-talk between Dectin-2 and TLR4 involved events including spleen tyrosine kinase (Syk) activation and receptor juxtaposition. Furthermore, another mannosylated LPS from Escherichia coli O9a also bound to Dectin-2 and augmented TLR4 activation of BM-DCs. Taken together, these data indicate that mannosylated O-antigens from several Gram-negative bacteria augment TLR4 responses through interaction with Dectin-2.
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Affiliation(s)
- Alexandra Wittmann
- From the Food and Health Institute Strategic Programme, Institute of Food Research, Norwich NR4 7UA, United Kingdom
| | - Dimitra Lamprinaki
- From the Food and Health Institute Strategic Programme, Institute of Food Research, Norwich NR4 7UA, United Kingdom
| | - Kristian M Bowles
- Norwich Medical School, University of East Anglia, Norwich NR4 7TJ, United Kingdom
| | - Ewa Katzenellenbogen
- the Ludwik Hirszfeld Institute of Immunology and Experimental Therapy, Wroclaw 53-114, Poland
| | - Yuriy A Knirel
- the N. D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Moscow 119991, Russia
| | - Chris Whitfield
- the Department of Molecular and Cellular Biology, University of Guelph, Guelph, Ontario N1G 2W1, Canada
| | - Takashi Nishimura
- the Department of Integrated Biosciences, Graduate School of Frontier Sciences, University of Tokyo, Chiba 277-8562, Japan
| | - Naoki Matsumoto
- the Department of Integrated Biosciences, Graduate School of Frontier Sciences, University of Tokyo, Chiba 277-8562, Japan
| | - Kazuo Yamamoto
- the Department of Integrated Biosciences, Graduate School of Frontier Sciences, University of Tokyo, Chiba 277-8562, Japan
| | - Yoichiro Iwakura
- the Center for Animal Disease Models, Research Institute for Biomedical Sciences, Tokyo University of Science, Chiba 278-0022, Japan, and
| | - Shinobu Saijo
- the Department of Molecular Immunology, Medical Mycology Research Center, Chiba University, Chiba 260-8673, Japan
| | - Norihito Kawasaki
- From the Food and Health Institute Strategic Programme, Institute of Food Research, Norwich NR4 7UA, United Kingdom, the Department of Integrated Biosciences, Graduate School of Frontier Sciences, University of Tokyo, Chiba 277-8562, Japan,
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Hafnia alvei Urosepsis in a Kidney Transplant Patient. Case Rep Transplant 2015; 2015:863131. [PMID: 25960912 PMCID: PMC4413887 DOI: 10.1155/2015/863131] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2015] [Accepted: 04/01/2015] [Indexed: 11/28/2022] Open
Abstract
Hafnia alvei, a gram-negative facultative anaerobic, rod-shaped bacterium, is a rare cause of infection in humans. We report on a renal transplant patient who developed H. alvei pyelonephritis and urosepsis. The source of infection remains enigmatic but is most likely the intestinal tract. Appropriate antibiotic therapy with cefepime followed by oral ciprofloxacin brought about rapid resolution of symptoms and complete recovery. H. alvei may cause severe infection in transplant patients without predisposing factors such as hospitalization, invasive procedures, or antibiotic treatment.
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Padilla D, Acosta F, Ramos-Vivas J, Grasso V, Bravo J, El Aamri F, Real F. The pathogenHafnia alveiin veterinary medicine: a review. JOURNAL OF APPLIED ANIMAL RESEARCH 2014. [DOI: 10.1080/09712119.2014.963086] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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