scholarly journals MALDI-TOF MS versus 16S rRNA sequencing: Minor discrepancy between tools in identification of Bacteroides isolates

2018 ◽  
Vol 65 (2) ◽  
pp. 173-181
Author(s):  
Károly Péter Sárvári ◽  
József Sóki ◽  
Miklós Iván ◽  
Cecilia Miszti ◽  
Krisztina Latkóczy ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Sequencing ◽  
Maldi Tof Ms ◽  
Maldi Tof ◽  
Rrna Sequencing ◽  
Tof Ms

Identification of Lysinibacillus fusiformis Isolated from Cosmetic Samples Using MALDI-TOF MS and 16S rRNA Sequencing Methods

2018 ◽  
Vol 101 (6) ◽  
pp. 1757-1762 ◽  
Author(s):  
Irshad M Sulaiman ◽  
Ying-Hsin Hsieh ◽  
Emily Jacobs ◽  
Nancy Miranda ◽  
Steven Simpson ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Sequencing ◽  
Gram Positive ◽  
Maldi Tof Ms ◽  
Lysinibacillus Fusiformis ◽  
Maldi Tof ◽  
Microbiological Methods ◽  
Rrna Sequencing ◽  
Level Identification ◽  
Tof Ms

Abstract Background: Lysinibacillus fusiformis is a Gram-positive, rod-shaped bacterium that can cause tropical ulcers, severe sepsis, and respiratory illnesses in humans. Objective: In this study, we analyzed cosmetic samples for the presence of human pathogenic microorganisms. Methods: Five unopened jars of exfoliating cream were examined initially by microbiological methods. Afterward, matrix-assisted laser desorption ionization-time-of-flight (MALDI-TOF) MS and 16S ribosomal RNA (rRNA) sequencing techniques were applied to characterize the recovered isolates. Results: Of the eight recovered Gram-positive bacterial subs, the VITEK® MS could provide genus-level identification to five subs and species-level identification to two subs (L. fusiformis with a 99.9% confidence value); one sub was unidentified. Subsequently, the deoxyriboneucleic acid sequencing of the 16S rRNA gene was done on an ABI 3500XL Genetic Analyzer for the confirmation of species identification. An analysis of sequencing data revealed a complete absence of genetic variation among the eight subs sequenced at this locus and confirmed the eight bacterial subs to be L. fusiformis, as their respective 16S rRNA sequences were identical to the available sequence in public domain (GenBank accession No. KU179364). Conclusions: Our results suggest that the VITEK MS and the 16S rRNA sequencing can be used for the identification of human pathogenic bacteria of public health importance. Highlights: We characterized eight isolates of Lysinibacillus spp. from cosmetics by MALDI-TOF MS and 16S rRNA sequence analyses.

Identification and classification of seafood-borne pathogenic and spoilage bacteria: 16S rRNA sequencing versus MALDI-TOF MS fingerprinting

2013 ◽  
Vol 34 (6) ◽  
pp. 877-887 ◽  
Author(s):  
Karola Böhme ◽  
Inmaculada C. Fernández-No ◽  
Manuel Pazos ◽  
José M. Gallardo ◽  
Jorge Barros-Velázquez ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Sequencing ◽  
Maldi Tof Ms ◽  
Maldi Tof ◽  
Spoilage Bacteria ◽  
Rrna Sequencing ◽  
Tof Ms

Anaerobic blood culture isolates in a Norwegian university hospital: identification by MALDI-TOF MS vs 16S rRNA sequencing and antimicrobial susceptibility profiles

Apmis ◽  
2015 ◽  
Vol 123 (9) ◽  
pp. 749-758 ◽  
Author(s):  
Nina Handal ◽  
Silje Bakken Jørgensen ◽  
Hege Smith Tunsjø ◽  
Bjørn Odd Johnsen ◽  
Truls Michael Leegaard
Keyword(s):  
Blood Culture ◽  
16S Rrna ◽  
Antimicrobial Susceptibility ◽  
16S Rrna Sequencing ◽  
University Hospital ◽  
Maldi Tof Ms ◽  
Maldi Tof ◽  
Rrna Sequencing ◽  
Susceptibility Profiles ◽  
Tof Ms

scholarly journals Identification and Quantification of Nonviable Lactobacillus pentosus Cells in a Health Food Product

2020 ◽  
Vol 103 (1) ◽  
pp. 223-226
Author(s):  
Na Liu ◽  
Wei Zhou ◽  
Chune Wang ◽  
Xiu Ren ◽  
Haipeng Luo ◽  
...  
Keyword(s):  
16S Rrna ◽  
Metagenomic Analysis ◽  
Lactobacillus Pentosus ◽  
Purity Determination ◽  
Maldi Tof Ms ◽  
Cell Product ◽  
Maldi Tof ◽  
Nonviable Cell ◽  
Tof Ms

Abstract Background: The lack of formal protocol to verify the nonviable cell probiotic product authenticity blocks its registration and supervision process. Objective: To develop a protocol for identification, enumeration, and purity determination of a Lactobacillus pentosus nonviable cell product. Methods: The 16S ribosomal RNA (rRNA) sequencing, 16S rRNA metagenomic analysis, whole-genome sequencing, matrix-assisted laser desorption ionization–time of flight MS (MALDI-TOF-MS), and FACSMicroCount™ system were applied to establish a protocol of identification, enumeration and purity determination of a Lactobacillus pentosus nonviable cell product. Results: The 1530 bp of 16S rRNA sequence could only identify the bacteria at genus level, but the MALDI-TOF-MS could identify both the nonviable cell and fresh culture to species level with high confidence. Metagenomic analysis of the 16S rRNA amplicon could recognize Lactobacillus as the dominant genus in the nonviable cell product. The total number of matching k-mers between the nonviable cell product and the L. pentosus BGM48 in the GenBank was the highest. The 95% confidence interval of the nonviable cell concentration in the product was determined as 4.31–4.68 × 1010 cells/g through the BD FACSMicroCount system. Conclusions: This validation protocol offers an executable approach that can verify microbial contents in nonviable cell products and ensure the compliance with label claims. Highlights: The established validation protocol could determine the nonviable cell species through MALDI-TOF-MS, the concentration through FACSMicroCount system, and the purity and strain level identification through metagenomic analysis of 16S rRNA and the genomic deoxyribonucleic acid.

scholarly journals Acinetobacter gandensis sp. nov. isolated from horse and cattle

2014 ◽  
Vol 64 (Pt_12) ◽  
pp. 4007-4015 ◽  
Author(s):  
Annemieke Smet ◽  
Piet Cools ◽  
Lenka Krizova ◽  
Martina Maixnerova ◽  
Ondrej Sedo ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Rrna Gene ◽  
Content Type ◽  
Dna Relatedness ◽  
Maldi Tof Ms ◽  
Link Type ◽  
Maldi Tof ◽  
Tof Ms

We previously reported the presence of an OXA-23 carbapenemase in an undescribed species of the genus Acinetobacter isolated from horse dung at the Faculty of Veterinary Medicine, Ghent University, Belgium. Here we include six strains to corroborate the delineation of this taxon by phenotypic characterization, DNA–DNA hybridization, 16S rRNA gene and rpoB sequence analysis, % G+C determination, MALDI-TOF MS and fatty acid analysis. The nearly complete 16S rRNA gene sequence of strain UG 60467T showed the highest similarities with those of the type strains of Acinetobacter bouvetii (98.4 %), Acinetobacter haemolyticus (97.7 %), and Acinetobacter schindleri (97.2 %). The partial rpoB sequence of strain UG 60467T showed the highest similarities with ‘Acinetobacter bohemicus’ ANC 3994 (88.6 %), A. bouvetii NIPH 2281 (88.6 %) and A. schindleri CIP 107287T (87.3 %). Whole-cell MALDI-TOF MS analyses supported the distinctness of the group at the protein level. The predominant fatty acids of strain UG 60467T were C12 : 0 3-OH, C12 : 0, C16 : 0, C18 : 1ω9c and summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH). Strains UG 60467T and UG 60716 showed a DNA–DNA relatedness of 84 % with each other and a DNA–DNA relatedness with A. schindleri LMG 19576T of 17 % and 20 %, respectively. The DNA G+C content of strain UG 60467T was 39.6 mol%. The name Acinetobacter gandensis sp. nov. is proposed for the novel taxon. The type strain is UG 60467T ( = ANC 4275T = LMG 27960T = DSM 28097T).

scholarly journals Lactococcus garvieae endocarditis in a native valve identified by MALDI-TOF MS and PCR-based 16s rRNA in Spain: A case report

2015 ◽  
Vol 5 ◽  
pp. 13-15 ◽  
Author(s):  
V. Heras Cañas ◽  
M.D. Pérez Ramirez ◽  
F. Bermudez Jiménez ◽  
M.D. Rojo Martin ◽  
C. Miranda Casas ◽  
...  
Keyword(s):  
Case Report ◽  
16S Rrna ◽  
Native Valve ◽  
Maldi Tof Ms ◽  
Lactococcus Garvieae ◽  
Maldi Tof ◽  
Tof Ms
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