Avrilella dinanensis gen. nov., sp. nov., a novel bacterium of the family Flavobacteriaceae isolated from human blood |
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| Institution: | 1. CHU de Rennes, Service de Bactériologie-Hygiène hospitalière, Rennes, France;2. Université de Rennes 1, Unité Inserm U1230, Rennes, France;3. CH de Saint-Malo, Laboratoire de Biologie médicale, Saint-Malo, France;4. Univ Rennes, MRic TEM, CNRS, Inserm, BIOSIT - UMS 3480, US_S 018, Rennes, France;5. CHU Clermont-Ferrand, Laboratoire de Bactériologie & CNR de la Résistance aux Antibiotiques, Clermont-Ferrand, France;6. CNR de la Résistance aux Antibiotiques (laboratoire associé «Entérobactéries: résistance aux C3G et colistine»), Clermont-Ferrand, France;7. Université Clermont Auvergne, UMR INSERM 1071 USC INRA2018, Clermont-Ferrand, France;8. CNR de la Résistance aux Antibiotiques (laboratoire associé «Entérocoques»), Rennes, France;1. Department of Aquatic Animals Disease, Faculty of Veterinary Medicine, Bursa Uludag University, 16059 Bursa, Turkey;2. Microbiologia, Departament de Biologia, Edifici Guillem Colom, Universitat de les Illes Balears, Campus UIB, 07122 Palma de Mallorca, Spain;3. Department of Aquatic Animal Disease, Faculty of Veterinary Medicine, Erciyes University, 38280 Kayseri, Turkey;4. Institut Mediterrani d’Estudis Avançats (IMEDEA, CSIC-UIB), Campus UIB, 07122 Palma de Mallorca, Spain;1. Department of Immunology, Microbiology and Parasitology, Faculty of Pharmacy. University of the Basque Country (UPV/EHU), Vitoria-Gasteiz, Spain;2. Unitat de Microbiologia, Departament de Ciències Mèdiques Bàsiques, Facultat de Medicina i Ciències de la Salut, IISPV, Universitat Rovira i Virgili, Reus, Spain;3. Departamento de Microbiología y Parasitología, CIBUS-Facultad de Biología & Instituto CRETUS, Universidade de Santiago de Compostela, Santiago de Compostela, 15782 Spain;1. Microbiology and Functionality Research Group, World Institute of Kimchi, Gwangju 61755, Republic of Korea;2. Department of Food Science and Engineering, Ewha Womans University, Seoul 03760, Republic of Korea;3. Department of Biology, Kyung Hee University, Seoul 02447, Republic of Korea;4. Biological Resource Center, Korea Research Institute of Bioscience and Biotechnology, Jeollabuk-do 56212, Republic of Korea;5. Korea Zoonosis Research Institute, Chonbuk National University, Jeollabuk-do 54531, Republic of Korea;6. Microorganism Resources Division, National Institute of Biological Resources, Incheon 22689, Republic of Korea;1. Winogradsky Institute of Microbiology, Research Center of Biotechnology of the Russian Academy of Sciences, Moscow 119071, Russia;2. Institute of Bioengineering, Research Center of Biotechnology of the Russian Academy of Sciences, Moscow 119071, Russia;3. NIOZ Royal Netherlands Institute for Sea Research, Department of Marine Microbiology and Biogeochemistry, and Utrecht University, P.O. Box 59, 1790 AB Den Burg, The Netherlands;4. Utrecht University, Faculty of Geosciences, Department of Earth Sciences, Geochemistry, Utrecht, The Netherlands |
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| Abstract: | Polyphasic taxonomic analysis was performed on a novel bacterium, designated UR159T, isolated in 2016 from human blood of a septic patient hospitalized in France. Preliminary 16S rRNA gene sequence-based phylogenetic analysis indicated that strain UR159T belonged to the family Flavobacteriaceae, forming a distinct phyletic line distantly related (<94% sequence similarity) to known species of the family. Further phenotypic, chemotaxonomic and genomic analyses were performed. Cells were non-motile, oxidase-negative, catalase-positive Gram-negative rods. It was strictly aerobic yielding yellow-pigmented colonies, and was metabolically rather inert. Major fatty acids were iso-branched fatty acids, predominantly iso-C15:0 (55.5%) and iso-C17:1ω9c (8.8%). Whole genome sequencing revealed a 2.3-Mbp genome encoding a total of 2262 putative genes with a genomic DNA G + C content at 37.6 mol%. The average nucleotide identity (ANI) and in silico DNA-DNA hybridization (isDDH) values between strain UR159T and the most closely related members of the Flavobacteriaceae family were <75% and <39%, respectively, much below the established cut-offs for ANI (<95–96%) and isDDH (<70%) for species and genus delineation. Average Amino Acid Identity (AAI) percentages were also estimated and were lower than 65% (cut-off proposed for genus delineation for uncultivated prokaryotes) in all cases, except for F. marinum that was just at the limit (65.1%). Based on these findings, we propose it as a new genus and species, Avrilella dinanensis gen. nov., sp. nov. (type strain UR159T = CIP 111616T = DSM 105483T). |
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| Keywords: | Gram-negative rod Bacteremia |
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