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Bhatt A, Pujari S, Mantri S, Kirdat K, Thakkar L, Poojary R, Kuyare S, Patil K, Yadav A. A rare urinary tract infection of multidrug-resistant Chryseobacterium urinae sp. nov. isolated from a diabetic, non-catheterized patient. Arch Microbiol 2024; 206:150. [PMID: 38466448 DOI: 10.1007/s00203-024-03881-0] [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: 12/14/2023] [Revised: 01/23/2024] [Accepted: 01/29/2024] [Indexed: 03/13/2024]
Abstract
Chryseobacterium demonstrates a diverse environmental presence and a significant pathogenic potential across various ecosystems. This clinical case showcases a rare instance of bacterial infection in a 75-year-old male with untreated diabetes and recurrent urinary tract infections (UTIs). The patient presented symptoms of abdominal pain, burning urination, fever, and an elevated eosinophil count. A subsequent urine culture identified a Chryseobacterium-related bacterium as the causative agent, exhibiting sensitivity to piperacillin/tazobactam, trimethoprim/sulfamethoxazole, and nitrofurantoin, which led to successful treatment using oral nitrofurantoin. Analysis of the 16S rRNA gene sequence of APV-1T revealed a close relationship of 98.2% similarity to Chryseobacterium gambrini strain 5-1St1aT (AM232810). Furthermore, comparative genome analysis, incorporating Average Nucleotide Identity (ANI), Digital DNA-DNA Hybridization (dDDH) values, and comprehensive phylogenetic assessments utilizing 16S rRNA gene sequences, core genes, and amino acid sequences of core proteins, highlighted the unique phylogenetic positioning of APV-1T within the Chryseobacterium genus. Distinct carbon utilization and assimilation patterns, along with major fatty acid content, set APV-1T apart from C. gambrini strain 5-1St1aT. These findings, encompassing phenotypic, genotypic, and chemotaxonomic characteristics, strongly support the proposal of a novel species named Chryseobacterium urinae sp. nov., with APV-1T designated as the type strain (= MCC 50690 = JCM 36476). Despite its successful treatment, the strain displayed resistance to multiple antibiotics. Genomic analysis further unveiled core-conserved genes, strain-specific clusters, and genes associated with antibiotic resistance and virulence. This report underscores the vital importance of elucidating susceptibility patterns of rare pathogens like Chryseobacterium, particularly in immunocompromised individuals. It advocates for further analyses to understand the functional significance of identified genes and their implications in treatment and pathogenesis.
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Affiliation(s)
- Agrima Bhatt
- Department of Biosciences and Technology, Vishwanath Karad MIT World Peace University, Kothrud, Pune, 411038, India
| | - Sujata Pujari
- Sujata Clinic, Mulund Colony, Mulund West, Mumbai, 400082, India
| | - Shailesh Mantri
- National Centre for Microbial Resource, National Centre for Cell Science, NCCS Complex, Ganeshkhind, 411007, Pune, India
| | - Kiran Kirdat
- National Centre for Microbial Resource, National Centre for Cell Science, NCCS Complex, Ganeshkhind, 411007, Pune, India
| | - Lucky Thakkar
- National Centre for Microbial Resource, National Centre for Cell Science, NCCS Complex, Ganeshkhind, 411007, Pune, India
| | - Reshma Poojary
- Apoorva Diagnostic and Healthcare, Kandivali (East), Mumbai, 400101, India
| | - Sunil Kuyare
- Apoorva Diagnostic and Healthcare, Kandivali (East), Mumbai, 400101, India
| | - Kritika Patil
- Vedantaa Institute of Medical Sciences, Saswand, Palghar, 401606, India
| | - Amit Yadav
- National Centre for Microbial Resource, National Centre for Cell Science, NCCS Complex, Ganeshkhind, 411007, Pune, India.
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Heckman TI, Yazdi Z, Pomaranski EK, Sebastião FDA, Mukkatira K, Vuglar BM, Cain KD, Loch TP, Soto E. Atypical flavobacteria recovered from diseased fish in the Western United States. Front Cell Infect Microbiol 2023; 13:1149032. [PMID: 37153143 PMCID: PMC10161732 DOI: 10.3389/fcimb.2023.1149032] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2023] [Accepted: 03/07/2023] [Indexed: 05/09/2023] Open
Abstract
Flavobacterial diseases, caused by bacteria in the order Flavobacteriales, are responsible for devastating losses in farmed and wild fish populations worldwide. The genera Flavobacterium (Family Flavobacteriaceae) and Chryseobacterium (Weeksellaceae) encompass the most well-known agents of fish disease in the order, but the full extent of piscine-pathogenic species within these diverse groups is unresolved, and likely underappreciated. To identify emerging agents of flavobacterial disease in US aquaculture, 183 presumptive Flavobacterium and Chryseobacterium isolates were collected from clinically affected fish representing 19 host types, from across six western states. Isolates were characterized by 16S rRNA gene sequencing and phylogenetic analysis using the gyrB gene. Antimicrobial susceptibility profiles were compared between representatives from each major phylogenetic clade. Of the isolates, 52 were identified as Chryseobacterium species and 131 as Flavobacterium. The majority of Chryseobacterium isolates fell into six clades (A-F) consisting of ≥ 5 fish isolates with ≥ 70% bootstrap support, and Flavobacterium into nine (A-I). Phylogenetic clades showed distinct patterns in antimicrobial susceptibility. Two Chryseobacterium clades (F & G), and four Flavobacterium clades (B, G-I) had comparably high minimal inhibitory concentrations (MICs) for 11/18 antimicrobials tested. Multiple clades in both genera exhibited MICs surpassing the established F. psychrophilum breakpoints for oxytetracycline and florfenicol, indicating potential resistance to two of the three antimicrobials approved for use in finfish aquaculture. Further work to investigate the virulence and antigenic diversity of these genetic groups will improve our understanding of flavobacterial disease, with applications for treatment and vaccination strategies.
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Affiliation(s)
- Taylor I. Heckman
- Department of Medicine and Epidemiology, School of Veterinary Medicine, University of California, Davis, Davis, CA, United States
| | - Zeinab Yazdi
- Department of Medicine and Epidemiology, School of Veterinary Medicine, University of California, Davis, Davis, CA, United States
| | - Eric K. Pomaranski
- Department of Medicine and Epidemiology, School of Veterinary Medicine, University of California, Davis, Davis, CA, United States
| | - Fernanda de Alexandre Sebastião
- Department of Medicine and Epidemiology, School of Veterinary Medicine, University of California, Davis, Davis, CA, United States
- Fisheries, Embrapa Amazônia Ocidental, Manaus, Amazonas, Brazil
| | - Kaveramma Mukkatira
- Fish Health Laboratory, California Department of Fish and Wildlife, Rancho Cordova, CA, United States
| | - Brent M. Vuglar
- Department of Fish and Wildlife Sciences, College of Natural Resources, University of Idaho, Moscow, ID, United States
| | - Kenneth D. Cain
- Department of Fish and Wildlife Sciences, College of Natural Resources, University of Idaho, Moscow, ID, United States
| | - Thomas P. Loch
- Department of Fisheries and Wildlife, College of Agriculture and Natural Resources, Department of Pathobiology and Diagnostic Investigation, College of Veterinary Medicine, Michigan State University, East Lansing, MI, United States
| | - Esteban Soto
- Department of Medicine and Epidemiology, School of Veterinary Medicine, University of California, Davis, Davis, CA, United States
- *Correspondence: Esteban Soto,
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Chong SM, Douay G, Heng Y, Chng YR, Tay YH, Wong WK. Fatal Chryseobacterium indologenes infection in a captive red-shanked Douc langur (Pygathrix nemaeus). J Med Primatol 2022; 51:256-258. [PMID: 35318690 DOI: 10.1111/jmp.12582] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2022] [Revised: 03/14/2022] [Accepted: 03/15/2022] [Indexed: 11/28/2022]
Abstract
We report a case of fatal Chryseobacterium indologenes infection in a captive juvenile red-shanked Douc langur in Singapore Zoo. The animal was treated for suspected melioidosis but died within 48 h. Chryseobacterium indolegenes was isolated from the liver and should be included as a differential for bacterial infections in the tropics.
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Affiliation(s)
- Shin Min Chong
- Singapore Zoo, Department of Conservation, Research and Veterinary, Mandai Wildlife Group, Singapore, Singapore
| | - Guillaume Douay
- Singapore Zoo, Department of Conservation, Research and Veterinary, Mandai Wildlife Group, Singapore, Singapore
| | - Yirui Heng
- Singapore Zoo, Department of Conservation, Research and Veterinary, Mandai Wildlife Group, Singapore, Singapore
| | - You Rong Chng
- National Parks Board, Animal & Veterinary Service, Centre for Animal & Veterinary Sciences, Singapore, Singapore
| | - Yih Hong Tay
- National Parks Board, Animal & Veterinary Service, Centre for Animal & Veterinary Sciences, Singapore, Singapore
| | - Wai Kwan Wong
- National Parks Board, Animal & Veterinary Service, Centre for Animal & Veterinary Sciences, Singapore, Singapore
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