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Collinsella acetigenes sp. nov., an Anaerobic Actinobacterium Isolated from Human Feces, and Emended Description of the Genus Collinsella and Collinsella aerofaciens

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Abstract

A novel actinobacterial strain, Gram-positive, anaerobic, non-motile, and rod-shaped, designated KGMB02528T, was isolated from healthy human feces. Cells of strain KGMB02528T grew optimally at pH 7.0 and 37 °C and in the presence of 0% (w/v) NaCl. Based on 16S rRNA gene sequence similarity, strain KGMB04489T belonged to the genus Collinsella and was most closely related to Collinsella aerofaciens DSM 17552T (95.8%). The DNA G + C content was 58.0 mol%. The major cellular fatty acids (> 10%) were C16:0 DMA, C16:0 ALDE, C14:0 DMA, and C12:0. The predominant end product of fermentation was acetic acid. The cell wall peptidoglycan of strain KGMB02528T contained alanine, glutamic acid, and lysine, while diaminopimelic acid was not detected. The polar lipids were composed of two unidentified phospholipids and unidentified nine glycolipids. Based on the phenotypic, chemotaxonomic, and phylogenetic properties, strain KGMB02528T represents a novel species of the genus Collinsella, for which the name Collinsella acetigenes sp. nov. is proposed. The type strain is Collinsella acetigenes KGMB02528T (= KCTC 15847T = CCUG 73987T). The description of the genus Collinsella is emended to accommodate the new species.

The GenBank/EMBL/DDBJ accession number for the 16S rRNA gene sequence of Collinsella acetigenes KGMB02528T is MT117838. The whole-genome shotgun BioProject number is PRJNA623694 with the accession number JABBCP000000000.

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Data Availability

We agree to the transparency of the material. Data sharing is not applicable to this article as no datasets were generated or analyzed during the current study, or all data generated or analyzed during this study are included in this published article [and its supplementary information files].

Abbreviations

ALDE:

Aldehyde

ANI:

Average nucleotide identity

CCUG:

Culture Collection University of Gothenburg

DAP:

Diaminopimelic acid

dDDH:

digital DNA–DNA hybridization

DMA:

Dimethyl acetate

GL:

Glycolipid

HPLC:

High-performance liquid chromatography

KCTC:

Korean Collection for Type Cultures

PL:

Phospholipid

TLC:

Thin-layer chromatography

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Acknowledgements

We thank Professor Bernhard Schink for his advice in naming the novel strain.

Funding

This work was supported by the Bio & Medical Technology Development program (Project No. NRF-2016H3A9F3947962) of the National Research Foundation of Korea (NRF) funded by the Ministry of Science and ICT (MSIT) of the Republic of Korea and a grant from the Korea Research Institute of Bioscience & Biotechnology (KRIBB) Research initiative program.

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  1. Kook-Il Han, Ji-Sun Kim and Mi Kyung Eom have contributed equally to this manuscript.

Authors and Affiliations

  1. Korean Collection for Type Cultures, Korea Research Institute of Bioscience and Biotechnology, 181 Ipsin-gil, Jeongeup-si, Jeollabuk-do, 56212, Republic of Korea

    Kook-Il Han, Ji-Sun Kim, Mi Kyung Eom, Keun Chul Lee, Min Kuk Suh, Han Sol Kim, Seung-Hwan Park, Ju Huck Lee, Se Won Kang, Jam-Eon Park, Byeong Seob Oh, Seoung Woo Ryu, Seung Yeob Yu, Seung-Hyeon Choi & Jung-Sook Lee

  2. Seoul National University Bundang Hospital, 82 Gumi-ro, 173 Beon-gil, Bundang-Gu, Seongnam-si, Gyeonggi-do, 13620, Republic of Korea

    Dong Ho Lee & Hyuk Yoon

  3. ChunLab, Inc., 2477 Nambusunhwan-ro, Seocho-gu, Seoul, 06725, Republic of Korea

    Byung-Yong Kim & Je Hee Lee

  4. University of Science and Technology (UST), 217 Gajeong-ro, Yuseong-gu, Daejeon, 34113, Republic of Korea

    Jung-Sook Lee

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  1. Kook-Il Han
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Contributions

All authors participating in this study were supported by NRF-2016H3A9F3947962 [Supervision: JSL]. Sampling by the IRB: DHL, HY. Gut microbial isolation and taxonomy analysis were performed by JSK, MKE, KCL, MKS, HSK, SHP, JHL, SWK, JEP, BSO, SWR, SYY, and SHC. Gut microbial whole-genome analysis was performed by BYK, JHL. The first draft of the manuscript was written by KIH and all authors commented on previous versions of the manuscript. All authors read and approved the final manuscript. Conceptualization: JSL. Formal analysis and investigation: KIH and MKE. Writing—original draft preparation: KIH. Writing—revised draft preparation and experiment: JSK. Review and editing: JSL. Funding acquisition: JSL. Resources: JSK, KCL, MKS, HSK, SHP, JHL, SWK, JEP, BSO, SWR, SYY, SHC, DHL, HY, BYK, JHL. Supervision: JSL.

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Correspondence to Jung-Sook Lee.

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The study was approved by the Institutional Review Board (IRB) of Korea Research Institute of Bioscience & Biotechnology (Approval number: P01-201702-31-007).

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Han, KI., Kim, JS., Eom, M.K. et al. Collinsella acetigenes sp. nov., an Anaerobic Actinobacterium Isolated from Human Feces, and Emended Description of the Genus Collinsella and Collinsella aerofaciens. Curr Microbiol 78, 3667–3673 (2021). https://doi.org/10.1007/s00284-021-02625-3

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