Identification of acetic acid bacteria through matrix-assisted laser desorption/ionization time-of-flight mass spectrometry and report of Gluconobacter nephelii Kommanee et al. 2011 and Gluconobacter uchimurae Tanasupawat et al. 2012 as later heterotypic synonyms of Gluconobacter japonicus Malimas et al. 2009 and Gluconobacter oxydans (Henneberg 1897) De Ley 1961 (Approved Lists 1980) emend. Gosselé et al. 1983, respectively

Leilei Li; Ilse Cleenwerck; Luc De Vuyst; Peter Vandamme

doi:10.1016/j.syapm.2017.01.003

Identification of acetic acid bacteria through matrix-assisted laser desorption/ionization time-of-flight mass spectrometry and report of Gluconobacter nephelii Kommanee et al. 2011 and Gluconobacter uchimurae Tanasupawat et al. 2012 as later heterotypic synonyms of Gluconobacter japonicus Malimas et al. 2009 and Gluconobacter oxydans (Henneberg 1897) De Ley 1961 (Approved Lists 1980) emend. Gosselé et al. 1983, respectively

Syst Appl Microbiol. 2017 Apr;40(3):123-134. doi: 10.1016/j.syapm.2017.01.003. Epub 2017 Feb 15.

Authors

Leilei Li¹, Ilse Cleenwerck², Luc De Vuyst³, Peter Vandamme⁴

Affiliations

¹ Laboratory of Microbiology, Department of Biochemistry and Microbiology, Ghent University, K.L. Ledeganckstraat 35, B-9000 Gent, Belgium.
² BCCM/LMG Bacteria Culture Collection, Laboratory of Microbiology, Campus Ledeganck, K.L. Ledeganckstraat 35, B-9000 Gent, Belgium.
³ Research Group of Industrial Microbiology and Food Biotechnology (IMDO), Faculty of Sciences and Bioengineering Sciences, Vrije Universiteit Brussel (VUB), Pleinlaan 2, B-1050 Brussels, Belgium.
⁴ Laboratory of Microbiology, Department of Biochemistry and Microbiology, Ghent University, K.L. Ledeganckstraat 35, B-9000 Gent, Belgium; BCCM/LMG Bacteria Culture Collection, Laboratory of Microbiology, Campus Ledeganck, K.L. Ledeganckstraat 35, B-9000 Gent, Belgium. Electronic address: Peter.Vandamme@UGent.be.

PMID: 28237188
DOI: 10.1016/j.syapm.2017.01.003

Abstract

The classification and identification of acetic acid bacteria (AAB) underwent much change during the last two decades. However, several closely related AAB species are difficult to differentiate and rapid and correct species level identification remains challenging. In the present study, 281 well-characterized AAB strains representing AAB species of the family Acetobacteraceae were used to construct a matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) identification database. The database was evaluated using 270 poorly characterized AAB strains. 16S rRNA and/or multilocus gene sequence analysis and whole-genome sequencing for the calculation of average nucleotide identity values were performed on a selection of strains to verify the accuracy of the obtained results. Virtually all poorly characterized AAB strains were accurately identified to the species level. Most of the remaining strains were considered to represent novel AAB species or belonged to species represented by too few strains in the identification database. The data also revealed that Gluconobacter nephelii and Gluconobacter uchimurae are later heterotypic synonyms of Gluconobacter japonicus and Gluconobacter oxydans, respectively.

Keywords: ANI; Acetic acid bacteria; MALDI-TOF MS; Taxonomy; Whole genome sequencing.

MeSH terms

Acetic Acid / metabolism
Acetobacteraceae / classification*
Acetobacteraceae / genetics
Acetobacteraceae / metabolism
Bacterial Typing Techniques
Cluster Analysis
Genome, Bacterial
High-Throughput Nucleotide Sequencing
Multilocus Sequence Typing
Phenotype
Phylogeny
RNA, Ribosomal, 16S / genetics
Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization*

Substances

RNA, Ribosomal, 16S
Acetic Acid