Diagnostic potential of gut microbiota in Parkinson’s disease
Background. Nowadays many efforts are taken in searching for Parkinson’s disease biomarkers, especially for an early recognition of the disease. The gut microbiota is one of the potential sources of biomarkers, changes in the composition of which in PD are actively studied.The aim of this study is t...
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Siberian State Medical University (Tomsk)
2020-01-01
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| Series: | Бюллетень сибирской медицины |
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| Online Access: | https://bulletin.ssmu.ru/jour/article/view/2560 |
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| author | V. A. Petrov V. M. Alifirova I. V. Saltykova I. A. Zhukova N. G. Zhukova Yu. B. Dorofeeva O. P. Ikkert M. A. Titova Yu. S. Mironova A. E. Sazonov M. R. Karpova |
| author_facet | V. A. Petrov V. M. Alifirova I. V. Saltykova I. A. Zhukova N. G. Zhukova Yu. B. Dorofeeva O. P. Ikkert M. A. Titova Yu. S. Mironova A. E. Sazonov M. R. Karpova |
| author_sort | V. A. Petrov |
| collection | DOAJ |
| description | Background. Nowadays many efforts are taken in searching for Parkinson’s disease biomarkers, especially for an early recognition of the disease. The gut microbiota is one of the potential sources of biomarkers, changes in the composition of which in PD are actively studied.The aim of this study is to identify microbiota biomarkers in the Parkinson’s disease with an estimated accuracy of the diagnostics, including differential diagnostics, relative to other neurological diseases for patients of the Russian population.Material and methods. One hundred ninety-two metagenomics profiles from patients with Parkinson’s disease (n = 93), people with other neurological diagnoses (n = 33), and healthy controls (n = 66) were included in this study. These profiles were obtained with amplicon sequencing of bacterial 16S rRNA genes. Classifying models were made using the naive Bayes classifier, the artificial neural network, support vector machine, generalized linear model, and partial least squares regression.As a result we established that an optimal classification by the composition of the gut microbiota on the validation sample (sensitivity 91.30%, specificity 91.67% at 91.49% accuracy) amid patients was demonstrated with a naive Bayes classifier using the representation of the following genera as predictors: Christensenella, Methanobrevibacter, Leuconostoc, Enterococcus, Catabacter, Desulfovibrio, Sphingomonas, Yokenella, Atopobium, Fusicatenibacter, Cloacibacillus, Bulleidia, Acetanaerobacterium, and Staphylococcus.Conclusions. Information of the gut microbiota taxonomic composition may be used in differential diagnosis of Parkinson’s disease. |
| format | Article |
| id | doaj-art-ec166f606546436f90e2a034fb083085 |
| institution | Kabale University |
| issn | 1682-0363 1819-3684 |
| language | English |
| publishDate | 2020-01-01 |
| publisher | Siberian State Medical University (Tomsk) |
| record_format | Article |
| series | Бюллетень сибирской медицины |
| spelling | doaj-art-ec166f606546436f90e2a034fb0830852025-08-20T04:00:12ZengSiberian State Medical University (Tomsk)Бюллетень сибирской медицины1682-03631819-36842020-01-011849210110.20538/1682-0363-2019-4-92-1011569Diagnostic potential of gut microbiota in Parkinson’s diseaseV. A. Petrov0V. M. Alifirova1I. V. Saltykova2I. A. Zhukova3N. G. Zhukova4Yu. B. Dorofeeva5O. P. Ikkert6M. A. Titova7Yu. S. Mironova8A. E. Sazonov9M. R. Karpova10Siberian State Medical University (SSMU)Siberian State Medical University (SSMU)Siberian State Medical University (SSMU)Siberian State Medical University (SSMU)Siberian State Medical University (SSMU)Siberian State Medical University (SSMU)Siberian State Medical University (SSMU); National Research Tomsk State UniversitySiberian State Medical University (SSMU)Siberian State Medical University (SSMU)Siberian State Medical University (SSMU)Siberian State Medical University (SSMU)Background. Nowadays many efforts are taken in searching for Parkinson’s disease biomarkers, especially for an early recognition of the disease. The gut microbiota is one of the potential sources of biomarkers, changes in the composition of which in PD are actively studied.The aim of this study is to identify microbiota biomarkers in the Parkinson’s disease with an estimated accuracy of the diagnostics, including differential diagnostics, relative to other neurological diseases for patients of the Russian population.Material and methods. One hundred ninety-two metagenomics profiles from patients with Parkinson’s disease (n = 93), people with other neurological diagnoses (n = 33), and healthy controls (n = 66) were included in this study. These profiles were obtained with amplicon sequencing of bacterial 16S rRNA genes. Classifying models were made using the naive Bayes classifier, the artificial neural network, support vector machine, generalized linear model, and partial least squares regression.As a result we established that an optimal classification by the composition of the gut microbiota on the validation sample (sensitivity 91.30%, specificity 91.67% at 91.49% accuracy) amid patients was demonstrated with a naive Bayes classifier using the representation of the following genera as predictors: Christensenella, Methanobrevibacter, Leuconostoc, Enterococcus, Catabacter, Desulfovibrio, Sphingomonas, Yokenella, Atopobium, Fusicatenibacter, Cloacibacillus, Bulleidia, Acetanaerobacterium, and Staphylococcus.Conclusions. Information of the gut microbiota taxonomic composition may be used in differential diagnosis of Parkinson’s disease.https://bulletin.ssmu.ru/jour/article/view/2560gut microbiotaparkinson’s disease16s rrna gene sequencingmachine learningdiagnostics |
| spellingShingle | V. A. Petrov V. M. Alifirova I. V. Saltykova I. A. Zhukova N. G. Zhukova Yu. B. Dorofeeva O. P. Ikkert M. A. Titova Yu. S. Mironova A. E. Sazonov M. R. Karpova Diagnostic potential of gut microbiota in Parkinson’s disease Бюллетень сибирской медицины gut microbiota parkinson’s disease 16s rrna gene sequencing machine learning diagnostics |
| title | Diagnostic potential of gut microbiota in Parkinson’s disease |
| title_full | Diagnostic potential of gut microbiota in Parkinson’s disease |
| title_fullStr | Diagnostic potential of gut microbiota in Parkinson’s disease |
| title_full_unstemmed | Diagnostic potential of gut microbiota in Parkinson’s disease |
| title_short | Diagnostic potential of gut microbiota in Parkinson’s disease |
| title_sort | diagnostic potential of gut microbiota in parkinson s disease |
| topic | gut microbiota parkinson’s disease 16s rrna gene sequencing machine learning diagnostics |
| url | https://bulletin.ssmu.ru/jour/article/view/2560 |
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