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Enrichment and characterization of a bacterial mixture capable of utilizing C-mannosyl tryptophan as a carbon source

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Abstract

C-Mannosylation, a protein-modification found in various eukaryotes, involves the attachment of a single mannose molecule to selected tryptophan residues of proteins. Since C-mannosyl tryptophan (CMW) was detected in human urine, it is generally thought that CMW is not catabolized inside our body and instead is excreted via the urine. This paper reports enrichment of a bacterial consortium from soil that degrades CMW. The bacteria grew in minimal medium supplemented with CMW as the carbon source. Interestingly, even after successive clonal picks of individual colonies, several species were still present in each colony as revealed by 16S rRNA gene sequence analysis, indicating that a single species may not be responsible for this activity. A next generation sequencing (NGS) analysis was therefore carried out in order to determine which bacteria were responsible for the catabolism of CMW. It was found that a species of Sphingomonadaceae family, but not others, increased with simultaneous decrease of CMW in the media, suggesting that this species is most likely the one that is actively involved in the degradation of CMW.

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Abbreviations

CMW:

C-Mannosyl tryptophan

MM3Y:

Minimal medium with yeast extract

NGS:

Next generation sequencing

SEM:

Scanning electron microscopy

JCM:

Japan collection of microorganisms

NBRC:

NITE biological resource center

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Acknowledgements

We gratefully acknowledge Dr. Minoru Yoshida (Chemical Genetics Laboratory and Center for Sustainable Resource Science, RIKEN) for his generous guidance and discussions concerning this project. We also wish to thank Dr. Futoshi Kurisu (Research Center for Water Environment Technology, The University of Tokyo) for helpful discussions, and Dr. Naoshi Dohmae (Biomolecular Characterization Unit, RIKEN) and Dr. Yoshiki Yamaguchi (Structural Glycobiology Team, RIKEN) for their generous help on this project. We also thank the members of the Glycometabolome Team, RIKEN for fruitful discussions. TJH was an International Program Associate (IPA) and financially supported by RIKEN.

Funding

This study was funded by management expenses grant from RIKEN and Saitama University.

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Author notes

  1. Tanim J. Hossain

    Present address: Department of Biochemistry and Molecular Biology, University of Chittagong, Chittagong, 4331, Bangladesh

  2. Akira Hosomi

    Present address: Graduate School of Agriculture, Shinshu University, 3−1−1 Asahi, Matsumoto, Nagano, 390-8621, Japan

Authors and Affiliations

  1. Glycometabolome Team, Systems Glycobiology Research Group, Global Research Cluster, RIKEN, 2-1 Hirosawa, Wako, Saitama, 351-0198, Japan

    Tanim J. Hossain, Akira Hosomi & Tadashi Suzuki

  2. Graduate School of Science and Engineering, Saitama University, 255 Shimo-Okubo, Sakura, Saitama, 338-8570, Japan

    Tanim J. Hossain & Tadashi Suzuki

  3. Synthetic Cellular Chemistry Laboratory, RIKEN, 2-1 Hirosawa, Wako, Saitama, 351-0198, Japan

    Shino Manabe & Yukishige Ito

  4. Japan Collection of Microorganisms/Microbe Division, RIKEN BioResource Center, 3-1-1 Koyadai, Tsukuba, Ibaraki, 305-0074, Japan

    Toshiya Iida

  5. Biotechnology Research Center, The University of Tokyo, 1-1-1 Yayoi, Bunkyo, Tokyo, 113-8657, Japan

    Saori Kosono

  6. Life Science Research Center, College of Bioresource Sciences, Nihon University, 1866 Kameino, Fujisawa, 252-0880, Japan

    Kenji Ueda

  7. Materials Characterization Support Unit, Supramolecular Chemistry Division, RIKEN, 2-1 Hirosawa, Wako, Saitama, 351-0198, Japan

    Daishi Inoue

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Hossain, T.J., Manabe, S., Ito, Y. et al. Enrichment and characterization of a bacterial mixture capable of utilizing C-mannosyl tryptophan as a carbon source. Glycoconj J 35, 165–176 (2018). https://doi.org/10.1007/s10719-017-9807-2

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