Rapid screening of marine bacterial symbionts using MALDI-TOF MS
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Rapid screening of marine bacterial symbionts using MALDI‑TOF MS Livia M. R. Vidal1 · Tainá M. Venas1 · Aline R. P. Gonçalves1 · Hannah K. Mattsson1 · Raphael V. P. Silva1 · Maria S. Nóbrega1 · Gustavo P. R. Azevedo1 · Gizele D. Garcia1,2 · Diogo A. Tschoeke1,3 · Verônica V. Vieira4 · Fabiano L. Thompson1 · Cristiane C. Thompson1 Received: 19 March 2020 / Revised: 14 May 2020 / Accepted: 16 May 2020 © Springer-Verlag GmbH Germany, part of Springer Nature 2020
Abstract Matrix-Assisted Laser Desorption Ionization Time-Of-Flight Mass Spectrometry (MALDI-TOF MS) is a rapid, cost-effective and high-throughput method for bacteria characterization. However, most previous studies focused on clinical isolates. In this study, we evaluated the use of MALDI-TOF MS as a rapid screening tool for marine bacterial symbionts. A set of 255 isolates from different marine sources (corals, sponge, fish and seawater) was analyzed using cell lysates to obtain a rapid grouping. Cluster analysis of mass spectra and 16S rRNA showed 18 groups, including Vibrio, Bacillus, Pseudovibrio, Alteromonas and Ruegeria. MALDI-TOF distance similarity scores ≥ 60% and ≥ 70% correspond to ≥ 98.7% 16S rRNA gene sequence similarity and ≥ 95% pyrH gene sequence similarity, respectively. MALDI-TOF MS is a useful tool for Vibrio species groups’ identification. Keywords MALDI-TOF · Screening tool · Marine bacterial symbionts · Vibrio · pyrH gene
Introduction Rapid and reliable identification of marine bacteria remains challenging. Several approaches target the DNA sequence analyzes (Rohwer and Kelley 2004; Polz et al. 2006; De Long 2005). However, DNA sequence based methods are still costly and time consuming. An alternative is the use of mass spectrometry (MS). The application of MS for Communicated by Erko Stackebrandt. Electronic supplementary material The online version of this article (https://doi.org/10.1007/s00203-020-01917-9) contains supplementary material, which is available to authorized users. * Cristiane C. Thompson [email protected] 1
Institute of Biology, Federal University of Rio de Janeiro (UFRJ), Rio de Janeiro, Brazil
2
Departamento de Ensino de Graduação, Campus UFRJ ‑ Macaé Professor Aloisio Teixeira, Universidade Federal do Rio de Janeiro (UFRJ), Macaé RJ, Brazil
3
Biomedical Engineer Program – COPPE (UFRJ), Rio de Janeiro, Brazil
4
Interdisciplinary Medical Research Laboratory, Oswaldo Cruz Foundation (FIOCRUZ), Rio de Janeiro, Brazil
bacterial characterization was proposed using cell extracts that produced unique mass spectra (Anhalt and Fenselau, 1975). The use of matrix-assisted laser desorption/ionization (MALDI) is a common tool for rapid characterization of microbes mainly in clinical settings (Hou et al. 2019; Jang and Kim 2018; Clark et al. 2013). This tool involves simple and low-cost sample preparation and includes a database (Biotyping) for high-throughput identification (Sauget et al. 2017). Only recently, MALDI-TOF MS has been used for identification of certain marine b
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