Ribosomal protein biomarkers provide root nodule bacterial identification by MALDI-TOF MS

Applied Microbiology and Biotechnology
Dominik ZieglerXavier Perret

Abstract

Accurate identification of soil bacteria that form nitrogen-fixing associations with legume crops is challenging given the phylogenetic diversity of root nodule bacteria (RNB). The labor-intensive and time-consuming 16S ribosomal RNA (rRNA) sequencing and/or multilocus sequence analysis (MLSA) of conserved genes so far remain the favored molecular tools to characterize symbiotic bacteria. With the development of mass spectrometry (MS) as an alternative method to rapidly identify bacterial isolates, we recently showed that matrix-assisted laser desorption ionization (MALDI) time-of-flight (TOF) can accurately characterize RNB found inside plant nodules or grown in cultures. Here, we report on the development of a MALDI-TOF RNB-specific spectral database built on whole cell MS fingerprints of 116 strains representing the major rhizobial genera. In addition to this RNB-specific module, which was successfully tested on unknown field isolates, a subset of 13 ribosomal proteins extracted from genome data was found to be sufficient for the reliable identification of nodule isolates to rhizobial species as shown in the putatively ascribed ribosomal protein masses (PARPM) database. These results reveal that data gathered from genome seq...Continue Reading

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Citations

Jun 27, 2017·Systematic and Applied Microbiology·María Antonieta ToniuttiMaría Florencia Del Papa
Apr 17, 2018·Bioinformatics·Douglas TomachewskiRafael Mazer Etto
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May 30, 2019·International Journal of Systematic and Evolutionary Microbiology·Philippe M de LajudiePeter Young
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Apr 3, 2021·Frontiers in Cellular and Infection Microbiology·Aline CuénodAdrian Egli
Mar 30, 2018·Analytical Chemistry·Dongxue ZhangLiang Qiao
Jul 28, 2020·Current Protein & Peptide Science·Madhuri JayathirthaCostel C Darie

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