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Clostridium lamae sp. nov., a novel bacterium isolated from the fresh feces of alpaca

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Abstract

A novel Gram-positive, anaerobic, nonspore-forming, rod-shaped bacterium, designated strain NGMCC 1.200840 T, was isolated from the alpacas fresh feces. The taxonomic position of the novel strain was determined using a polyphasic approach. Phylogenetic analysis based on 16S rRNA gene sequences revealed strain NGMCC 1.200840 T was a member of the genus Clostridium and closely related to Clostridium tertium DSM 2485 T (98.16% sequence similarity). Between strains NGMCC 1.200840 T and C. tertium DSM 2485 T, the average nucleotide identity (ANI) and digital DNA˗DNA hybridization (dDDH) were 79.91% and 23.50%, respectively. Genomic DNA G + C content is 28.44 mol%. The strain can utilise D-glucose, D-mannitol, D-lactose, D-saccharose, D-maltose, D-xylose, L-arabinose, D-cellobiose, D-mannose, D-melezitose, D-raffinose, D-sorbitol, L-rhamnose, D-trehalose, D-galactose and Arbutin to produce acid. The optimal growth pH was 7, the temperature was 37 °C, and the salt concentration was 0–0.5% (w/v). The major cellular fatty acids (> 10%) included iso-C15:0, anteiso-C15:0 and iso-C17:0 3-OH. The polar lipids consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, three unidentified phospholipids and two unidentified aminolipids. Based on phenotypic, phylogenetic and chemotaxonomic characteristics, NGMCC 1.200840 T represents a novel species within the genus Clostridium, for which the named Clostridium lamae sp. nov. is proposed. The type strain is NGMCC 1.200840 T (= CGMCC 1.18014 T = JCM 35704 T).

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Data availability

The GenBank accession numbers for 16S rRNA gene sequences of strains NGMCC 1.200840 T is ON287258. The draft genome sequences of strains NGMCC 1.200840 T has been deposited at NCBI under the accession no. JASCQJ000000000.

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Funding

This research was supported by the National Key Research and Development Program of China (2021YFF0702900), CAMS initiative for Innovative Medicine of China (2021-I2M-1–039, 2021-I2M-1–034), and the open fund of Key Laboratory of Microbial Resources Collection and Preservation, Ministry of Agriculture and Rural Afairs (KLMRCP2021-09).

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  1. Xue Li and Ming Li contributed equally to this work.

Authors and Affiliations

  1. NHC Key Laboratory of Human Disease Comparative Medicine, Beijing Engineering Research Center for Experimental Animal Models of Human Critical Diseases, International Center for Technology and Innovation of Animal Model, Comparative Medicine Center, Institute of Laboratory Animal Sciences, Chinese Academy of Medical Sciences (CAMS) & Peking Union Medical College (PUMC), Beijing, 100021, China

    Xue Li, Weixiong Shi, Xia Li, Zhiguang Xiang & Lei Su

  2. Changping National Laboratory (CPNL), Beijing, 102299, China

    Xue Li, Weixiong Shi, Xia Li, Zhiguang Xiang & Lei Su

  3. Institute of Animal Science, Chinese Academy of Agricultural Sciences, Technology Support Platform, Beijing, 100193, China

    Ming Li

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Contributions

X. L. and L. S wrote the manuscript text and the main experiments. M.L was responsible for the analysis of the genome of the strain and figure 2. W. S finished collecting fecal samples and isolation of fecal strains. X.L and Z.X. undertaked some physiological characterization experiments. L.S. was responsible for article revision and experimental guidance.

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Correspondence to Lei Su.

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Li, X., Li, M., Shi, W. et al. Clostridium lamae sp. nov., a novel bacterium isolated from the fresh feces of alpaca. Antonie van Leeuwenhoek 117, 36 (2024). https://doi.org/10.1007/s10482-024-01931-7

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