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Please use this identifier to cite or link to this item: https://doi.org/10.21256/zhaw-1649
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dc.contributor.authorZiegler, Dominik-
dc.contributor.authorPothier, Joël F.-
dc.contributor.authorArdley, Julie-
dc.contributor.authorKouakou Fossou, Romain-
dc.contributor.authorPflüger, Valentin-
dc.contributor.authorde Meyer, Sofie-
dc.contributor.authorVogel, Guido-
dc.contributor.authorTonolla, Mauro-
dc.contributor.authorHowieson, John-
dc.contributor.authorReeve, Wayne-
dc.contributor.authorPerret, Xavier-
dc.date.accessioned2017-11-30T15:38:15Z-
dc.date.available2017-11-30T15:38:15Z-
dc.date.issued2015-03-18-
dc.identifier.issn0175-7598de_CH
dc.identifier.issn1432-0614de_CH
dc.identifier.urihttps://digitalcollection.zhaw.ch/handle/11475/1649-
dc.descriptionErworben im Rahmen der Schweizer Nationallizenzen (http://www.nationallizenzen.ch)de_CH
dc.description.abstractAccurate 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 sequences can be used to expand spectral libraries to aid the accurate identification of bacterial species by MALDI-TOF MS.de_CH
dc.language.isoende_CH
dc.publisherSpringerde_CH
dc.relation.ispartofApplied Microbiology and Biotechnologyde_CH
dc.rightsLicence according to publishing contractde_CH
dc.subjectBacterial fingerprintsde_CH
dc.subjectPhylogenyde_CH
dc.subjectRhizobiade_CH
dc.subjectLegume nodulesde_CH
dc.subjectGEBA-RNBde_CH
dc.subjectCluster analysisde_CH
dc.subject.ddc570: Biologiede_CH
dc.titleRibosomal protein biomarkers provide root nodule bacterial identification by MALDI-TOF MSde_CH
dc.typeBeitrag in wissenschaftlicher Zeitschriftde_CH
dcterms.typeTextde_CH
zhaw.departementLife Sciences und Facility Managementde_CH
zhaw.organisationalunitInstitut für Umwelt und Natürliche Ressourcen (IUNR)de_CH
zhaw.publisher.placeBerlinde_CH
dc.identifier.doi10.1007/s00253-015-6515-3de_CH
dc.identifier.doi10.21256/zhaw-1649-
zhaw.funding.euNode_CH
zhaw.issue13de_CH
zhaw.originated.zhawYesde_CH
zhaw.pages.end5562de_CH
zhaw.pages.start5547de_CH
zhaw.publication.statuspublishedVersionde_CH
zhaw.volume99de_CH
zhaw.publication.reviewPeer review (Publikation)de_CH
zhaw.webfeedUmweltgenomikde_CH
zhaw.funding.zhawMALDI-TOF MS for microorganism identification: from pattern recognition towards marker based approachesde_CH
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Ziegler, D., Pothier, J. F., Ardley, J., Kouakou Fossou, R., Pflüger, V., de Meyer, S., Vogel, G., Tonolla, M., Howieson, J., Reeve, W., & Perret, X. (2015). Ribosomal protein biomarkers provide root nodule bacterial identification by MALDI-TOF MS. Applied Microbiology and Biotechnology, 99(13), 5547–5562. https://doi.org/10.1007/s00253-015-6515-3
Ziegler, D. et al. (2015) ‘Ribosomal protein biomarkers provide root nodule bacterial identification by MALDI-TOF MS’, Applied Microbiology and Biotechnology, 99(13), pp. 5547–5562. Available at: https://doi.org/10.1007/s00253-015-6515-3.
D. Ziegler et al., “Ribosomal protein biomarkers provide root nodule bacterial identification by MALDI-TOF MS,” Applied Microbiology and Biotechnology, vol. 99, no. 13, pp. 5547–5562, Mar. 2015, doi: 10.1007/s00253-015-6515-3.
ZIEGLER, Dominik, Joël F. POTHIER, Julie ARDLEY, Romain KOUAKOU FOSSOU, Valentin PFLÜGER, Sofie DE MEYER, Guido VOGEL, Mauro TONOLLA, John HOWIESON, Wayne REEVE und Xavier PERRET, 2015. Ribosomal protein biomarkers provide root nodule bacterial identification by MALDI-TOF MS. Applied Microbiology and Biotechnology. 18 März 2015. Bd. 99, Nr. 13, S. 5547–5562. DOI 10.1007/s00253-015-6515-3
Ziegler, Dominik, Joël F. Pothier, Julie Ardley, Romain Kouakou Fossou, Valentin Pflüger, Sofie de Meyer, Guido Vogel, et al. 2015. “Ribosomal Protein Biomarkers Provide Root Nodule Bacterial Identification by MALDI-TOF MS.” Applied Microbiology and Biotechnology 99 (13): 5547–62. https://doi.org/10.1007/s00253-015-6515-3.
Ziegler, Dominik, et al. “Ribosomal Protein Biomarkers Provide Root Nodule Bacterial Identification by MALDI-TOF MS.” Applied Microbiology and Biotechnology, vol. 99, no. 13, Mar. 2015, pp. 5547–62, https://doi.org/10.1007/s00253-015-6515-3.


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