Evaluation of MALDI-TOF mass spectrometry and MALDI BioTyper in comparison to 16S rDNA sequencing for the identification of bacteria isolated from Arctic sea water.
MALDI-TOF Mass Spectrometry in association with the MALDI BioTyper 3.1 software has been evaluated for the identification and classification of 45 Arctic bacteria isolated from Kandalaksha Bay (White Sea, Russia). The high reliability of this method has been already demonstrated, in clinical microbi...
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ftdoajarticles:oai:doaj.org/article:36834dcec8e046a98fba1fd6a1f0bbb5 2023-05-15T14:58:35+02:00 Evaluation of MALDI-TOF mass spectrometry and MALDI BioTyper in comparison to 16S rDNA sequencing for the identification of bacteria isolated from Arctic sea water. Anna Maria Timperio Susanna Gorrasi Lello Zolla Massimiliano Fenice 2017-01-01T00:00:00Z https://doi.org/10.1371/journal.pone.0181860 https://doaj.org/article/36834dcec8e046a98fba1fd6a1f0bbb5 EN eng Public Library of Science (PLoS) http://europepmc.org/articles/PMC5524297?pdf=render https://doaj.org/toc/1932-6203 1932-6203 doi:10.1371/journal.pone.0181860 https://doaj.org/article/36834dcec8e046a98fba1fd6a1f0bbb5 PLoS ONE, Vol 12, Iss 7, p e0181860 (2017) Medicine R Science Q article 2017 ftdoajarticles https://doi.org/10.1371/journal.pone.0181860 2022-12-30T21:27:45Z MALDI-TOF Mass Spectrometry in association with the MALDI BioTyper 3.1 software has been evaluated for the identification and classification of 45 Arctic bacteria isolated from Kandalaksha Bay (White Sea, Russia). The high reliability of this method has been already demonstrated, in clinical microbiology, by a number of studies showing high attribution concordance with other credited analyses. Recently, it has been employed also in other branches of microbiology with controversial performance. The phyloproteomic results reported in this study were validated with those obtained by the "gold standard" 16S rDNA analysis. Concordance between the two methods was 100% at the genus level, while at the species level it was 48%. These percentages appeared to be quite high compared with other studies regarding environmental bacteria. However, the performance of MALDI BioTyper changed in relation to the taxonomical group analyzed, reflecting known identification problems related to certain genera. In our case, attribution concordance for Pseudomonas species was rather low (29%), confirming the problematic taxonomy of this genus, whereas that of strains from other genera was quite high (> 60%). Among the isolates tested in this study, two strains (Exiguobacterium oxidotolerans and Pseudomonas costantinii) were misidentified by MALDI BioTyper due to absence of reference spectra in the database. Accordingly, missing spectra were acquired for the database implementation. Article in Journal/Newspaper Arctic White Sea Directory of Open Access Journals: DOAJ Articles Arctic White Sea Kandalaksha ENVELOPE(32.417,32.417,67.133,67.133) PLOS ONE 12 7 e0181860 |
institution |
Open Polar |
collection |
Directory of Open Access Journals: DOAJ Articles |
op_collection_id |
ftdoajarticles |
language |
English |
topic |
Medicine R Science Q |
spellingShingle |
Medicine R Science Q Anna Maria Timperio Susanna Gorrasi Lello Zolla Massimiliano Fenice Evaluation of MALDI-TOF mass spectrometry and MALDI BioTyper in comparison to 16S rDNA sequencing for the identification of bacteria isolated from Arctic sea water. |
topic_facet |
Medicine R Science Q |
description |
MALDI-TOF Mass Spectrometry in association with the MALDI BioTyper 3.1 software has been evaluated for the identification and classification of 45 Arctic bacteria isolated from Kandalaksha Bay (White Sea, Russia). The high reliability of this method has been already demonstrated, in clinical microbiology, by a number of studies showing high attribution concordance with other credited analyses. Recently, it has been employed also in other branches of microbiology with controversial performance. The phyloproteomic results reported in this study were validated with those obtained by the "gold standard" 16S rDNA analysis. Concordance between the two methods was 100% at the genus level, while at the species level it was 48%. These percentages appeared to be quite high compared with other studies regarding environmental bacteria. However, the performance of MALDI BioTyper changed in relation to the taxonomical group analyzed, reflecting known identification problems related to certain genera. In our case, attribution concordance for Pseudomonas species was rather low (29%), confirming the problematic taxonomy of this genus, whereas that of strains from other genera was quite high (> 60%). Among the isolates tested in this study, two strains (Exiguobacterium oxidotolerans and Pseudomonas costantinii) were misidentified by MALDI BioTyper due to absence of reference spectra in the database. Accordingly, missing spectra were acquired for the database implementation. |
format |
Article in Journal/Newspaper |
author |
Anna Maria Timperio Susanna Gorrasi Lello Zolla Massimiliano Fenice |
author_facet |
Anna Maria Timperio Susanna Gorrasi Lello Zolla Massimiliano Fenice |
author_sort |
Anna Maria Timperio |
title |
Evaluation of MALDI-TOF mass spectrometry and MALDI BioTyper in comparison to 16S rDNA sequencing for the identification of bacteria isolated from Arctic sea water. |
title_short |
Evaluation of MALDI-TOF mass spectrometry and MALDI BioTyper in comparison to 16S rDNA sequencing for the identification of bacteria isolated from Arctic sea water. |
title_full |
Evaluation of MALDI-TOF mass spectrometry and MALDI BioTyper in comparison to 16S rDNA sequencing for the identification of bacteria isolated from Arctic sea water. |
title_fullStr |
Evaluation of MALDI-TOF mass spectrometry and MALDI BioTyper in comparison to 16S rDNA sequencing for the identification of bacteria isolated from Arctic sea water. |
title_full_unstemmed |
Evaluation of MALDI-TOF mass spectrometry and MALDI BioTyper in comparison to 16S rDNA sequencing for the identification of bacteria isolated from Arctic sea water. |
title_sort |
evaluation of maldi-tof mass spectrometry and maldi biotyper in comparison to 16s rdna sequencing for the identification of bacteria isolated from arctic sea water. |
publisher |
Public Library of Science (PLoS) |
publishDate |
2017 |
url |
https://doi.org/10.1371/journal.pone.0181860 https://doaj.org/article/36834dcec8e046a98fba1fd6a1f0bbb5 |
long_lat |
ENVELOPE(32.417,32.417,67.133,67.133) |
geographic |
Arctic White Sea Kandalaksha |
geographic_facet |
Arctic White Sea Kandalaksha |
genre |
Arctic White Sea |
genre_facet |
Arctic White Sea |
op_source |
PLoS ONE, Vol 12, Iss 7, p e0181860 (2017) |
op_relation |
http://europepmc.org/articles/PMC5524297?pdf=render https://doaj.org/toc/1932-6203 1932-6203 doi:10.1371/journal.pone.0181860 https://doaj.org/article/36834dcec8e046a98fba1fd6a1f0bbb5 |
op_doi |
https://doi.org/10.1371/journal.pone.0181860 |
container_title |
PLOS ONE |
container_volume |
12 |
container_issue |
7 |
container_start_page |
e0181860 |
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