Probio-Ichnos: A Database of Microorganisms with In Vitro Probiotic Properties
Probiotics are live microorganisms that, when consumed in adequate amounts, exert health benefits on the host by regulating intestinal and extraintestinal homeostasis. Common probiotic microorganisms include lactic acid bacteria (LAB), yeasts, and Bacillus species. Here, we present Probio-ichnos, th...
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2024-09-01
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| author | Margaritis Tsifintaris Despoina Eugenia Kiousi Panagiotis Repanas Christina S. Kamarinou Ioannis Kavakiotis Alex Galanis |
| author_facet | Margaritis Tsifintaris Despoina Eugenia Kiousi Panagiotis Repanas Christina S. Kamarinou Ioannis Kavakiotis Alex Galanis |
| author_sort | Margaritis Tsifintaris |
| collection | DOAJ |
| description | Probiotics are live microorganisms that, when consumed in adequate amounts, exert health benefits on the host by regulating intestinal and extraintestinal homeostasis. Common probiotic microorganisms include lactic acid bacteria (LAB), yeasts, and Bacillus species. Here, we present Probio-ichnos, the first manually curated, literature-based database that collects and comprehensively presents information on the microbial strains exhibiting in vitro probiotic characteristics (i.e., resistance to acid and bile, attachment to host epithelia, as well as antimicrobial, immunomodulatory, antiproliferative, and antioxidant activity), derived from human, animal or plant microbiota, fermented dairy or non-dairy food products, and environmental sources. Employing a rigorous methodology, we conducted a systematic search of the PubMed database utilizing the keyword ‘probiotic’ within the abstracts or titles, resulting in a total of 27,715 studies. Upon further manual filtering, 2207 studies presenting in vitro experiments and elucidating strain-specific probiotic attributes were collected and used for data extraction. The Probio-ichnos database consists of 12,993 entries on the in vitro probiotic characteristics of 11,202 distinct strains belonging to 470 species and 143 genera. Data are presented using a binary categorization approach for the presence of probiotic attributes according to the authors’ conclusions. Additionally, information about the availability of the whole-genome sequence (WGS) of strains is included in the database. Overall, the Probio-ichnos database aims to streamline the navigation of the available literature to facilitate targeted validation and comparative investigation of the probiotic properties of the microbial strains. |
| format | Article |
| id | doaj-art-6dabb1fbc49a4148a5dfe6c64299bf7c |
| institution | OA Journals |
| issn | 2076-2607 |
| language | English |
| publishDate | 2024-09-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Microorganisms |
| spelling | doaj-art-6dabb1fbc49a4148a5dfe6c64299bf7c2025-08-20T02:10:57ZengMDPI AGMicroorganisms2076-26072024-09-011210195510.3390/microorganisms12101955Probio-Ichnos: A Database of Microorganisms with In Vitro Probiotic PropertiesMargaritis Tsifintaris0Despoina Eugenia Kiousi1Panagiotis Repanas2Christina S. Kamarinou3Ioannis Kavakiotis4Alex Galanis5Department of Molecular Biology and Genetics, Democritus University of Thrace, 68100 Alexandroupolis, GreeceDepartment of Molecular Biology and Genetics, Democritus University of Thrace, 68100 Alexandroupolis, GreeceDepartment of Molecular Biology and Genetics, Democritus University of Thrace, 68100 Alexandroupolis, GreeceDepartment of Molecular Biology and Genetics, Democritus University of Thrace, 68100 Alexandroupolis, GreeceDepartment of Molecular Biology and Genetics, Democritus University of Thrace, 68100 Alexandroupolis, GreeceDepartment of Molecular Biology and Genetics, Democritus University of Thrace, 68100 Alexandroupolis, GreeceProbiotics are live microorganisms that, when consumed in adequate amounts, exert health benefits on the host by regulating intestinal and extraintestinal homeostasis. Common probiotic microorganisms include lactic acid bacteria (LAB), yeasts, and Bacillus species. Here, we present Probio-ichnos, the first manually curated, literature-based database that collects and comprehensively presents information on the microbial strains exhibiting in vitro probiotic characteristics (i.e., resistance to acid and bile, attachment to host epithelia, as well as antimicrobial, immunomodulatory, antiproliferative, and antioxidant activity), derived from human, animal or plant microbiota, fermented dairy or non-dairy food products, and environmental sources. Employing a rigorous methodology, we conducted a systematic search of the PubMed database utilizing the keyword ‘probiotic’ within the abstracts or titles, resulting in a total of 27,715 studies. Upon further manual filtering, 2207 studies presenting in vitro experiments and elucidating strain-specific probiotic attributes were collected and used for data extraction. The Probio-ichnos database consists of 12,993 entries on the in vitro probiotic characteristics of 11,202 distinct strains belonging to 470 species and 143 genera. Data are presented using a binary categorization approach for the presence of probiotic attributes according to the authors’ conclusions. Additionally, information about the availability of the whole-genome sequence (WGS) of strains is included in the database. Overall, the Probio-ichnos database aims to streamline the navigation of the available literature to facilitate targeted validation and comparative investigation of the probiotic properties of the microbial strains.https://www.mdpi.com/2076-2607/12/10/1955probioticsdatabasein vitro propertiesantimicrobial activityimmunomodulationantioxidant capacity |
| spellingShingle | Margaritis Tsifintaris Despoina Eugenia Kiousi Panagiotis Repanas Christina S. Kamarinou Ioannis Kavakiotis Alex Galanis Probio-Ichnos: A Database of Microorganisms with In Vitro Probiotic Properties Microorganisms probiotics database in vitro properties antimicrobial activity immunomodulation antioxidant capacity |
| title | Probio-Ichnos: A Database of Microorganisms with In Vitro Probiotic Properties |
| title_full | Probio-Ichnos: A Database of Microorganisms with In Vitro Probiotic Properties |
| title_fullStr | Probio-Ichnos: A Database of Microorganisms with In Vitro Probiotic Properties |
| title_full_unstemmed | Probio-Ichnos: A Database of Microorganisms with In Vitro Probiotic Properties |
| title_short | Probio-Ichnos: A Database of Microorganisms with In Vitro Probiotic Properties |
| title_sort | probio ichnos a database of microorganisms with in vitro probiotic properties |
| topic | probiotics database in vitro properties antimicrobial activity immunomodulation antioxidant capacity |
| url | https://www.mdpi.com/2076-2607/12/10/1955 |
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