Using matrix-assisted laser desorption ionization-time of flight (MALDI-TOF) complemented with selected 16S rRNA and gyrB genes sequencing to practically identify clinical important viridans group streptococci (VGS)
There are challenges in viridans group streptococci (VGS) identification especially for the mitis group. Few studies have investigated the performance of MALDI-TOF MS system in VGS identification. Using 16S rRNA gene and gyrB gene sequencing as a gold standard, the performance of two MALDI-TOF MS in...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2016-08-01
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| Series: | Frontiers in Microbiology |
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| Online Access: | http://journal.frontiersin.org/Journal/10.3389/fmicb.2016.01328/full |
| _version_ | 1811209469012475904 |
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| author | Menglan Zhou Qiwen Yang Timothy Kudinha Li Zhang Meng Xiao Fanrong Kong Yupei Zhao Yingchun Xu |
| author_facet | Menglan Zhou Qiwen Yang Timothy Kudinha Li Zhang Meng Xiao Fanrong Kong Yupei Zhao Yingchun Xu |
| author_sort | Menglan Zhou |
| collection | DOAJ |
| description | There are challenges in viridans group streptococci (VGS) identification especially for the mitis group. Few studies have investigated the performance of MALDI-TOF MS system in VGS identification. Using 16S rRNA gene and gyrB gene sequencing as a gold standard, the performance of two MALDI-TOF MS instruments in the identification of 181 VGS clinical isolates was studied. The Bruker Biotyper and Vitek MS IVD systems correctly identified 88.4% and 98.9% of the 181 isolates, respectively. The Vitek MS RUO system was the least reliable, only correctly identifying 38.7% of the isolates to species level with several misidentifications and invalid results. The Bruker Biotyper system was very unreliable in the identification of species within the mitis group. Among 22 non-pneumococci isolates (S. mitis/S. oralis/S. pseudopneumoniae), Biotyper misidentified 21 of them as S. pneumoniae leading to a low sensitivity and low positive predictive value in these species. In contrast, the Vitek MS IVD demonstrated a better resolution for pneumococci and non-pneumococci despite the inability to distinguish between S. mitis/S. oralis. For more accurate species-level identification, further improvements in the VGS spectra databases are needed. Based on MALDI-TOF analysis and selected 16S rRNA gene plus gyrB genes sequencing, we designed a practical VGS identification algorithm. |
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| id | doaj.art-4b3820935c5d46ca96b52a89f9f536fe |
| institution | Directory Open Access Journal |
| issn | 1664-302X |
| language | English |
| last_indexed | 2024-04-12T04:39:57Z |
| publishDate | 2016-08-01 |
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| series | Frontiers in Microbiology |
| spelling | doaj.art-4b3820935c5d46ca96b52a89f9f536fe2022-12-22T03:47:40ZengFrontiers Media S.A.Frontiers in Microbiology1664-302X2016-08-01710.3389/fmicb.2016.01328210647Using matrix-assisted laser desorption ionization-time of flight (MALDI-TOF) complemented with selected 16S rRNA and gyrB genes sequencing to practically identify clinical important viridans group streptococci (VGS)Menglan Zhou0Qiwen Yang1Timothy Kudinha2Li Zhang3Meng Xiao4Fanrong Kong5Yupei Zhao6Yingchun Xu7Department of Clinical Laboratory, Peking Union Medical College Hospital, Chinese Academy of Medical SciencesDepartment of Clinical Laboratory, Peking Union Medical College Hospital, Chinese Academy of Medical SciencesCharles Sturt University, Leeds Parade, OrangeDepartment of Clinical Laboratory, Peking Union Medical College Hospital, Chinese Academy of Medical SciencesDepartment of Clinical Laboratory, Peking Union Medical College Hospital, Chinese Academy of Medical SciencesCentre for Infectious Diseases and Microbiology Laboratory Services, Westmead HospitalDepartment of General Surgery, Peking Union Medical College Hospital, Chinese Academy of Medical SciencesDepartment of Clinical Laboratory, Peking Union Medical College Hospital, Chinese Academy of Medical SciencesThere are challenges in viridans group streptococci (VGS) identification especially for the mitis group. Few studies have investigated the performance of MALDI-TOF MS system in VGS identification. Using 16S rRNA gene and gyrB gene sequencing as a gold standard, the performance of two MALDI-TOF MS instruments in the identification of 181 VGS clinical isolates was studied. The Bruker Biotyper and Vitek MS IVD systems correctly identified 88.4% and 98.9% of the 181 isolates, respectively. The Vitek MS RUO system was the least reliable, only correctly identifying 38.7% of the isolates to species level with several misidentifications and invalid results. The Bruker Biotyper system was very unreliable in the identification of species within the mitis group. Among 22 non-pneumococci isolates (S. mitis/S. oralis/S. pseudopneumoniae), Biotyper misidentified 21 of them as S. pneumoniae leading to a low sensitivity and low positive predictive value in these species. In contrast, the Vitek MS IVD demonstrated a better resolution for pneumococci and non-pneumococci despite the inability to distinguish between S. mitis/S. oralis. For more accurate species-level identification, further improvements in the VGS spectra databases are needed. Based on MALDI-TOF analysis and selected 16S rRNA gene plus gyrB genes sequencing, we designed a practical VGS identification algorithm.http://journal.frontiersin.org/Journal/10.3389/fmicb.2016.01328/fullStreptococcus16S rRNA genegyrB geneMatrix-Assisted Laser Desorption Ionization-Time Of Flight (MALDI-TOF)viridans group streptococci (VGS) |
| spellingShingle | Menglan Zhou Qiwen Yang Timothy Kudinha Li Zhang Meng Xiao Fanrong Kong Yupei Zhao Yingchun Xu Using matrix-assisted laser desorption ionization-time of flight (MALDI-TOF) complemented with selected 16S rRNA and gyrB genes sequencing to practically identify clinical important viridans group streptococci (VGS) Frontiers in Microbiology Streptococcus 16S rRNA gene gyrB gene Matrix-Assisted Laser Desorption Ionization-Time Of Flight (MALDI-TOF) viridans group streptococci (VGS) |
| title | Using matrix-assisted laser desorption ionization-time of flight (MALDI-TOF) complemented with selected 16S rRNA and gyrB genes sequencing to practically identify clinical important viridans group streptococci (VGS) |
| title_full | Using matrix-assisted laser desorption ionization-time of flight (MALDI-TOF) complemented with selected 16S rRNA and gyrB genes sequencing to practically identify clinical important viridans group streptococci (VGS) |
| title_fullStr | Using matrix-assisted laser desorption ionization-time of flight (MALDI-TOF) complemented with selected 16S rRNA and gyrB genes sequencing to practically identify clinical important viridans group streptococci (VGS) |
| title_full_unstemmed | Using matrix-assisted laser desorption ionization-time of flight (MALDI-TOF) complemented with selected 16S rRNA and gyrB genes sequencing to practically identify clinical important viridans group streptococci (VGS) |
| title_short | Using matrix-assisted laser desorption ionization-time of flight (MALDI-TOF) complemented with selected 16S rRNA and gyrB genes sequencing to practically identify clinical important viridans group streptococci (VGS) |
| title_sort | using matrix assisted laser desorption ionization time of flight maldi tof complemented with selected 16s rrna and gyrb genes sequencing to practically identify clinical important viridans group streptococci vgs |
| topic | Streptococcus 16S rRNA gene gyrB gene Matrix-Assisted Laser Desorption Ionization-Time Of Flight (MALDI-TOF) viridans group streptococci (VGS) |
| url | http://journal.frontiersin.org/Journal/10.3389/fmicb.2016.01328/full |
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