Geomesophilobacter sediminis gen. nov., sp. nov., Geomonas propionica sp. nov. and Geomonas anaerohicana sp. nov., three novel members in the family Geobacterecace isolated from river sediment and paddy soil |
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| Institution: | 1. Department of Applied Biological Chemistry, Graduate School of Agricultural and Life Sciences, The University of Tokyo, Tokyo, Japan;2. Support Section for Education and Research, Graduate School of Dental Medicine, Hokkaido University, Japan;3. Niigata Agricultural Research Institute, Niigata, Japan;4. Collaborative Research Institute for Innovative Microbiology, The University of Tokyo, Tokyo, Japan;5. Bioproduction Research Institute, National Institute of Advanced Industrial Science and Technology, Hokkaido, Japan;1. AixMarseille Univ., Université de Toulon, CNRS, IRD, MIO UM 110, 13288, Marseille, France;2. Université de Paris, Institut de Physique du Globe de Paris, CNRS UMR 7154, Paris, France;1. Marine College, Shandong University, Weihai, Shandong 264209, PR China;2. State Key Laboratory of Microbial Technology, Shandong University, Qingdao, Shandong 266237, PR China;1. State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing 102206, PR China;2. Shanghai Institute for Emerging and Re-emerging Infectious Diseases, Shanghai Public Health Clinical Center, Fudan University, Shanghai 201508, PR China;3. Research Units of Discovery of Unknown Bacteria and Function, Chinese Academy of Medical Sciences, Beijing 102206, PR China;4. Henan Key Laboratory of Biomolecular Recognition and Sensing, College of Chemistry and Chemical Engineering, Henan Joint International Research Laboratory of Chemo/Biosensing and Early Diagnosis of Major Diseases, Shangqiu Normal University, Shangqiu 476000, PR China;5. Department of Epidemiology and Biostatistics, School of Public Health, Peking University, Beijing 100191, PR China;6. Guangxi Key Laboratory of AIDS Prevention and Treatment & Guangxi Collaborative Innovation Center for Biomedicine, School of Public Health, Guangxi Medical University, Nanning 530021, Guangxi, PR China;7. Department of Epidemiology, School of Public Health, Shanxi Medical University, Taiyuan 030001, PR China;8. Research Institute of Public Health, Nankai University, Tianjin 300350, PR China |
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| Abstract: | Bacteria in the family Geobacteraceae have been proven to fill important niches in a diversity of anaerobic environments and global biogeochemical processes. Here, three bacterial strains in this family, designated Red875T, Red259T, and Red421T were isolated from river sediment and paddy soils in Japan. All of them are Gram-staining-negative, strictly anaerobic, motile, flagellum-harboring cells that form red colonies on agar plates and are capable of utilizing Fe(III)-NTA, Fe(III) citrate, ferrihydrite, MnO2, fumarate, and nitrate as electron acceptors with acetate, propionate, pyruvate, and glucose as electron donors. Phylogenetic analysis based on the 16S rRNA gene and 92 concatenated core proteins sequences revealed that strains Red259T and Red421T clustered with the type strains of Geomonas species, whereas strain Red875T formed an independent lineage within the family Geobacteraceae. Genome comparison based on ? average nucleotide identity (ANI) and ?digital DNA–DNA hybridization (dDDH) values clearly distinguished these three strains from other Geobacteraceae members, with lower values than the thresholds for species delineation. Moreover, strain Red875T also shared low average amino acid identity (AAI) and percentage of conserved proteins (POCP) values with the type species of the family Geobacteraceae. Based on these physiological, chemotaxonomic, and phylogenetic distinctions, we propose that strain Red875T (=NBRC 114290T = MCCC 1K04407T) represents a novel genus in the family Geobacteraceae, namely, Geomesophilobacter sediminis gen. nov., sp. nov., and strains Red259T (=NBRC 114288T = MCCC 1K05016T) and Red421T (=NBRC 114289T = MCCC 1K06216T) represent two novel independent species in the genus Geomonas, namely, Geomonas propionica sp. nov. and Geomonas anaerohicana sp. nov., respectively. |
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| Keywords: | Paddy soil River sediment Iron-reducing bacteria |
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