Abstract
A Gram-stain-positive aerobic, rod-shaped, spore-producing bacterium forming colonies with convex elevation and a smooth, intact margin was isolated from a freshwater sample collected from a well situated in an agricultural field. The 16S rRNA gene sequence of the isolated strain BA0131T showed the highest sequence similarity to Lysinibacillus yapensis ylb-03T (99.25%) followed by Ureibacillus chungkukjangi 2RL3-2T (98.91%) and U. sinduriensis BLB-1T (98.65%). The strain BA0131T was oxidase and catalase positive and urease negative. It also tested positive for esculin hydrolysis and reduction of potassium nitrate, unlike its phylogenetically closest relatives. The predominant fatty acids in strain BA0131T included were anteiso-C15:0, iso-C16:0, iso-C15:0, iso-C14:0 and the major polar lipids comprised were phosphatidylglycerol, diphosphatidylglycerol and phosphatidylethanolamine. The respiratory quinones identified in strain BA0131T were MK8 (H2) (major) and MK8 (minor). The strain BA0131T shared the lowest dDDH values with L. yapensis ylb-03T (21%) followed by U. chungkukjangi 2RL3-2T (24.2%) and U. sinduriensis BLB-1T (26.4%) suggesting a closer genetic relationship U. sinduriensis BLB-1T. The ANI percentage supported the close relatedness with U. sinduriensis BLB-1T (83.61%) followed by U. chungkukjangi 2RL3-2T (82.03%) and U. yapensis ylb-03T (79.57%). The core genome-based phylogeny constructed using over 13,704 amino acid positions and 92 core genes revealed the distinct phylogenetic position of strain BA0131T among the genus Ureibacillus. The distinct physiological, biochemical characteristics and genotypic relatedness data indicate the strain BA0131T represents a novel species of the genus Ureibacillus for which the name Ureibacillus aquaedulcis sp. nov. (Type strain, BA0131T = MCC 5284 = JCM 36475) is proposed. Additionally, based on extensive genomic and phylogenetic analyses, we propose reclassification of two species, L. yapensis and L. antri, as U. yapensis comb. nov. (Type strain, ylb-03T = JCM 32871T = MCCC 1A12698T) and U. antri (Type strain, SYSU K30002T = CGMCC 1.13504T = KCTC 33955T).
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Data availability
The GenBank/EMBL/DDBJ accession number for the reference 16S rRNA gene sequences of the strain BA0131 is OR234368. The accession number of the whole-genome of BA0131 is JAUHTQ000000000.
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Acknowledgements
The authors express their gratitude to Dr. Tushar Lodha and Ms. Prachi Karodi for their contributions in generating the Polar Lipid profile. Additionally, Dr. Amaraja Joshi and Ms. Soniya Thite are acknowledged for their valuable analyses of the strains using BIOLOG and API methods. Special thanks are extended to Mr. Lucky Thakkar for his instrumental role in generating the SEM images.
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The authors acknowledge the funding by the Department of Biotechnology (DBT) through the project, grant no. BT/Coord.II/01/03/2016 for in-house facilities.
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RT and YB carried out and compiled the polyphasic characterization; KK performed genome sequencing; AB and KK constructed the phylogenetic trees and did bioinformatic analysis; AM carried out peptidoglycan analysis; VT isolated and identified the bacterial isolates; VR performed the quinone profiling; RT compiled the polyphasic data and wrote the first draft of the manuscript, KK revised; AY conceptualized, surveyed, collected the sample, coordinated the overall work, edited and finalized the manuscript.
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Dedication: This paper is dedicated to the memory of Dr. Mohan Wani, the Director of the National Centre for Cell Science (NCCS), who passed away on April 14, 2024. Dr. Wani’s unwavering commitment to advancing scientific research has left an indelible mark on the field of cell science and beyond. In humble tribute to Dr. Wani’s remarkable contributions, we dedicate this paper.
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Yadav, A., Teware, R., Bhatt, A. et al. Ureibacillus aquaedulcis sp. nov., isolated from freshwater well and reclassification of Lysinibacillus yapensis and Lysinibacillus antri as Ureibacillus yapensis comb. nov. and Ureibacillus antri comb. Nov. Arch Microbiol 206, 242 (2024). https://doi.org/10.1007/s00203-024-03970-0
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DOI: https://doi.org/10.1007/s00203-024-03970-0