Evaluation of IR Biotyper for Lactiplantibacillus plantarum Typing and Its Application Potential in Probiotic Preliminary Screening
IR Biotyper (IRBT), which is a spectroscopic system for microorganism typing based on Fourier transform infrared (FTIR) technology, has been used to detect the spread of clones in clinical microbiology laboratories. However, the use of IRBT to detect probiotics has rarely been reported. Herein, we e...
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| Veröffentlicht in: | Frontiers in microbiology Jg. 13; S. 823120 |
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| Abstract | IR Biotyper (IRBT), which is a spectroscopic system for microorganism typing based on Fourier transform infrared (FTIR) technology, has been used to detect the spread of clones in clinical microbiology laboratories. However, the use of IRBT to detect probiotics has rarely been reported. Herein, we evaluated the discriminatory power of IRBT to type
Lactiplantibacillus plantarum
isolates at the strain level and explored its application potential in probiotic preliminary selection. Twenty
Lactiplantibacillus
isolates collected from pickled radishes during successive fermentation were used to test the robustness of IRBT at the strain level. IRBT was then compared with genotyping methods such as whole-genome sequencing (WGS), pulsed-field gel electrophoresis (PFGE), and multilocus sequence typing (MLST) to evaluate its discrimination power. IRBT distributed the 20 isolates into five clusters, with
L. argentoratensis
isolate C7-83 being the most distant from the other isolates, which belonged to
L. plantarum
. IRBT showed good reproducibility, although deviation in the discriminative power of IRBT was found at the strain level across laboratories, probably due to technical variance. All examined methods allowed bacterial identification at the strain level, but IRBT had higher discriminatory power than MLST and was comparable to the WGS and PFGE. In the phenotypic comparison study, we observed that the clustering results of probiotic physiological attributes (e.g., sensitivity to acid and bile salts, hydrophobicity of the cell surface, and resistance to antibiotics) were consistent with the typing results of IRBT. Our results indicated that IRBT is a robust tool for
L. plantarum
strain typing that could improve the efficiency of probiotic identification and preliminary screening, and can potentially be applied in probiotic traceability and quality control. |
|---|---|
| AbstractList | IR Biotyper (IRBT), which is a spectroscopic system for microorganism typing based on Fourier transform infrared (FTIR) technology, has been used to detect the spread of clones in clinical microbiology laboratories. However, the use of IRBT to detect probiotics has rarely been reported. Herein, we evaluated the discriminatory power of IRBT to type Lactiplantibacillus plantarum isolates at the strain level and explored its application potential in probiotic preliminary selection. Twenty Lactiplantibacillus isolates collected from pickled radishes during successive fermentation were used to test the robustness of IRBT at the strain level. IRBT was then compared with genotyping methods such as whole-genome sequencing (WGS), pulsed-field gel electrophoresis (PFGE), and multilocus sequence typing (MLST) to evaluate its discrimination power. IRBT distributed the 20 isolates into five clusters, with L. argentoratensis isolate C7-83 being the most distant from the other isolates, which belonged to L. plantarum. IRBT showed good reproducibility, although deviation in the discriminative power of IRBT was found at the strain level across laboratories, probably due to technical variance. All examined methods allowed bacterial identification at the strain level, but IRBT had higher discriminatory power than MLST and was comparable to the WGS and PFGE. In the phenotypic comparison study, we observed that the clustering results of probiotic physiological attributes (e.g., sensitivity to acid and bile salts, hydrophobicity of the cell surface, and resistance to antibiotics) were consistent with the typing results of IRBT. Our results indicated that IRBT is a robust tool for L. plantarum strain typing that could improve the efficiency of probiotic identification and preliminary screening, and can potentially be applied in probiotic traceability and quality control. IR Biotyper (IRBT), which is a spectroscopic system for microorganism typing based on Fourier transform infrared (FTIR) technology, has been used to detect the spread of clones in clinical microbiology laboratories. However, the use of IRBT to detect probiotics has rarely been reported. Herein, we evaluated the discriminatory power of IRBT to type Lactiplantibacillus plantarum isolates at the strain level and explored its application potential in probiotic preliminary selection. Twenty Lactiplantibacillus isolates collected from pickled radishes during successive fermentation were used to test the robustness of IRBT at the strain level. IRBT was then compared with genotyping methods such as whole-genome sequencing (WGS), pulsed-field gel electrophoresis (PFGE), and multilocus sequence typing (MLST) to evaluate its discrimination power. IRBT distributed the 20 isolates into five clusters, with L. argentoratensis isolate C7-83 being the most distant from the other isolates, which belonged to L. plantarum . IRBT showed good reproducibility, although deviation in the discriminative power of IRBT was found at the strain level across laboratories, probably due to technical variance. All examined methods allowed bacterial identification at the strain level, but IRBT had higher discriminatory power than MLST and was comparable to the WGS and PFGE. In the phenotypic comparison study, we observed that the clustering results of probiotic physiological attributes (e.g., sensitivity to acid and bile salts, hydrophobicity of the cell surface, and resistance to antibiotics) were consistent with the typing results of IRBT. Our results indicated that IRBT is a robust tool for L. plantarum strain typing that could improve the efficiency of probiotic identification and preliminary screening, and can potentially be applied in probiotic traceability and quality control. IR Biotyper (IRBT), which is a spectroscopic system for microorganism typing based on Fourier transform infrared (FTIR) technology, has been used to detect the spread of clones in clinical microbiology laboratories. However, the use of IRBT to detect probiotics has rarely been reported. Herein, we evaluated the discriminatory power of IRBT to type Lactiplantibacillus plantarum isolates at the strain level and explored its application potential in probiotic preliminary selection. Twenty Lactiplantibacillus isolates collected from pickled radishes during successive fermentation were used to test the robustness of IRBT at the strain level. IRBT was then compared with genotyping methods such as whole-genome sequencing (WGS), pulsed-field gel electrophoresis (PFGE), and multilocus sequence typing (MLST) to evaluate its discrimination power. IRBT distributed the 20 isolates into five clusters, with L. argentoratensis isolate C7-83 being the most distant from the other isolates, which belonged to L. plantarum. IRBT showed good reproducibility, although deviation in the discriminative power of IRBT was found at the strain level across laboratories, probably due to technical variance. All examined methods allowed bacterial identification at the strain level, but IRBT had higher discriminatory power than MLST and was comparable to the WGS and PFGE. In the phenotypic comparison study, we observed that the clustering results of probiotic physiological attributes (e.g., sensitivity to acid and bile salts, hydrophobicity of the cell surface, and resistance to antibiotics) were consistent with the typing results of IRBT. Our results indicated that IRBT is a robust tool for L. plantarum strain typing that could improve the efficiency of probiotic identification and preliminary screening, and can potentially be applied in probiotic traceability and quality control.IR Biotyper (IRBT), which is a spectroscopic system for microorganism typing based on Fourier transform infrared (FTIR) technology, has been used to detect the spread of clones in clinical microbiology laboratories. However, the use of IRBT to detect probiotics has rarely been reported. Herein, we evaluated the discriminatory power of IRBT to type Lactiplantibacillus plantarum isolates at the strain level and explored its application potential in probiotic preliminary selection. Twenty Lactiplantibacillus isolates collected from pickled radishes during successive fermentation were used to test the robustness of IRBT at the strain level. IRBT was then compared with genotyping methods such as whole-genome sequencing (WGS), pulsed-field gel electrophoresis (PFGE), and multilocus sequence typing (MLST) to evaluate its discrimination power. IRBT distributed the 20 isolates into five clusters, with L. argentoratensis isolate C7-83 being the most distant from the other isolates, which belonged to L. plantarum. IRBT showed good reproducibility, although deviation in the discriminative power of IRBT was found at the strain level across laboratories, probably due to technical variance. All examined methods allowed bacterial identification at the strain level, but IRBT had higher discriminatory power than MLST and was comparable to the WGS and PFGE. In the phenotypic comparison study, we observed that the clustering results of probiotic physiological attributes (e.g., sensitivity to acid and bile salts, hydrophobicity of the cell surface, and resistance to antibiotics) were consistent with the typing results of IRBT. Our results indicated that IRBT is a robust tool for L. plantarum strain typing that could improve the efficiency of probiotic identification and preliminary screening, and can potentially be applied in probiotic traceability and quality control. IR Biotyper (IRBT), which is a spectroscopic system for microorganism typing based on Fourier transform infrared (FTIR) technology, has been used to detect the spread of clones in clinical microbiology laboratories. However, the use of IRBT to detect probiotics has rarely been reported. Herein, we evaluated the discriminatory power of IRBT to type isolates at the strain level and explored its application potential in probiotic preliminary selection. Twenty isolates collected from pickled radishes during successive fermentation were used to test the robustness of IRBT at the strain level. IRBT was then compared with genotyping methods such as whole-genome sequencing (WGS), pulsed-field gel electrophoresis (PFGE), and multilocus sequence typing (MLST) to evaluate its discrimination power. IRBT distributed the 20 isolates into five clusters, with isolate C7-83 being the most distant from the other isolates, which belonged to . IRBT showed good reproducibility, although deviation in the discriminative power of IRBT was found at the strain level across laboratories, probably due to technical variance. All examined methods allowed bacterial identification at the strain level, but IRBT had higher discriminatory power than MLST and was comparable to the WGS and PFGE. In the phenotypic comparison study, we observed that the clustering results of probiotic physiological attributes (e.g., sensitivity to acid and bile salts, hydrophobicity of the cell surface, and resistance to antibiotics) were consistent with the typing results of IRBT. Our results indicated that IRBT is a robust tool for strain typing that could improve the efficiency of probiotic identification and preliminary screening, and can potentially be applied in probiotic traceability and quality control. |
| Author | Li, Xiaoqiong Li, Jinjun Tang, Biao Wang, Xin Zhu, Liying |
| AuthorAffiliation | 2 Institute of Agro-Product Safety and Nutrition, Zhejiang Academy of Agricultural Sciences , Hangzhou , China 1 State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Institute of Food Sciences, Zhejiang Academy of Agricultural Sciences , Hangzhou , China |
| AuthorAffiliation_xml | – name: 2 Institute of Agro-Product Safety and Nutrition, Zhejiang Academy of Agricultural Sciences , Hangzhou , China – name: 1 State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Institute of Food Sciences, Zhejiang Academy of Agricultural Sciences , Hangzhou , China |
| Author_xml | – sequence: 1 givenname: Xiaoqiong surname: Li fullname: Li, Xiaoqiong – sequence: 2 givenname: Liying surname: Zhu fullname: Zhu, Liying – sequence: 3 givenname: Xin surname: Wang fullname: Wang, Xin – sequence: 4 givenname: Jinjun surname: Li fullname: Li, Jinjun – sequence: 5 givenname: Biao surname: Tang fullname: Tang, Biao |
| BackLink | https://www.ncbi.nlm.nih.gov/pubmed/35401469$$D View this record in MEDLINE/PubMed |
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| Cites_doi | 10.1093/jac/dkaa345 10.3389/fmed.2018.00124 10.1016/j.fbio.2020.100581 10.4315/0362-028X-61.12.1636 10.1016/j.femsle.2004.08.024 10.1016/j.mib.2015.08.004 10.3389/fmicb.2021.712236 10.1111/1462-2920.13455 10.1128/AEM.01738-18 10.1016/j.phrs.2020.104663 10.1007/s12602-021-09791-7 10.1186/cc7109 10.1016/j.meegid.2019.103935 10.1128/JB.187.6.2093-2104.2005 10.1016/j.ijfoodmicro.2006.05.010 10.1093/bioinformatics/btv681 10.1111/1758-2229.12794 10.3389/fimmu.2021.643420 10.3389/fmicb.2019.01440 10.23822/eurannaci.1764-1489.200 10.1002/biot.201700449 10.1016/j.biotechadv.2018.09.003 10.3920/BM2012.0048 10.3389/fnut.2020.570344 10.3389/fcimb.2020.615876 10.1016/j.micres.2017.03.008 10.1631/jzus.B2000602 10.3389/fmicb.2021.692975 10.1371/journal.pone.0255160 10.1016/j.micpath.2019.03.016 10.1111/1751-7915.13709 10.1128/JB.187.17.6128-6136.2005 10.3390/foods4030283 10.1038/ismej.2010.61 10.1128/msystems.00190-20 10.1099/ijsem.0.004548 10.1111/1751-2980.12466 10.1128/JCM.00843-18 10.1128/AEM.00993-18 10.1155/2019/4973214 10.1111/j.1462-2920.2009.02119.x 10.1016/j.lwt.2013.10.036 10.1111/1751-7915.13871 10.1093/femsre/fux030 10.1016/j.resmic.2011.02.010 10.1007/s10096-019-03622-y 10.1186/s12866-021-02264-5 10.1039/c5fd00165j 10.1073/pnas.0906412106 10.1111/lam.12094 10.1038/s41579-020-0368-1 10.4014/jmb.1803.03029 10.3389/fmicb.2019.00739 10.1007/s10096-018-3431-3 10.1099/ijsem.0.004107 10.1099/mic.0.28482-0 10.1038/s41598-020-78721-4 10.1128/JB.187.17.6119-6127.2005 10.2903/j.efsa.2009.1247 10.1128/AEM.02116-15 10.1016/j.ijfoodmicro.2012.05.018 |
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| Keywords | probiotic screening strain typing IR Biotyper genotyping Lactiplantibacillus plantarum phenotypic |
| Language | English |
| License | Copyright © 2022 Li, Zhu, Wang, Li and Tang. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. |
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