Comparative genomics and proteomics of Eubacterium maltosivorans: functional identification of trimethylamine methyltransferases and bacterial microcompartments in a human intestinal bacterium with a versatile lifestyle

Summary Eubacterium maltosivorans YIT is a human intestinal isolate capable of acetogenic, propionogenic and butyrogenic growth. Its 4.3‐Mb genome sequence contains coding sequences for 4227 proteins, including 41 different methyltransferases. Comparative proteomics of strain YIT showed the Wood–Lju...

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Published in:Environmental microbiology 2022-01, Vol.24 (1), p.517-534
Main Authors: Feng, Yuan, Bui, Thi Phuong Nam, Stams, Alfons J. M., Boeren, Sjef, Sánchez‐Andrea, Irene, Vos, Willem M.
Format: Article
Language:English
Subjects:
Acetates
Acetic acid
Amines
Bacteria
Betaine
Carbon dioxide
Carnitine
Choline
Conversion
Deamination
Eubacterium
Fermentation
Genomes
Growth
Humans
Intestine
Lactate
Lactic acid
Life Style
Methylamines
Methyltransferases - genetics
Microbiological strains
Nucleotide sequence
Propanol
Propionic acid
Proteins
Proteomics
Quaternary
Quaternary ammonium salts
Trimethylamine
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Summary:Summary Eubacterium maltosivorans YIT is a human intestinal isolate capable of acetogenic, propionogenic and butyrogenic growth. Its 4.3‐Mb genome sequence contains coding sequences for 4227 proteins, including 41 different methyltransferases. Comparative proteomics of strain YIT showed the Wood–Ljungdahl pathway proteins to be actively produced during homoacetogenic growth on H2 and CO2 while butyrogenic growth on a mixture of lactate and acetate significantly upregulated the production of proteins encoded by the recently identified lctABCDEF cluster and accessory proteins. Growth on H2 and CO2 unexpectedly induced the production of two related trimethylamine methyltransferases. Moreover, a set of 16 different trimethylamine methyltransferases together with proteins for bacterial microcompartments were produced during growth and deamination of the quaternary amines, betaine, carnitine and choline. Growth of strain YIT on 1,2‐propanediol generated propionate with propanol and induced the formation of bacterial microcompartments that were also prominently visible in betaine‐grown cells. The present study demonstrates that E. maltosivorans is highly versatile in converting low‐energy fermentation end‐products in the human gut into butyrate and propionate whilst being capable of preventing the formation of the undesired trimethylamine by converting betaine and other quaternary amines in bacterial microcompartments into acetate and butyrate.
ISSN:1462-2912
1462-2920
DOI:10.1111/1462-2920.15886