Cargando…
AFRbase: a database of protein mutations responsible for antifungal resistance
MOTIVATION: Fungal pathogens are known to cause life threatening invasive infections with rising global mortality rates. Besides, the indiscriminate use of antifungals in both clinics and agriculture has promoted antifungal drug resistance in the last decade. Fungi can show drug resistance by a vari...
Autores principales: | , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2023
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10656092/ https://www.ncbi.nlm.nih.gov/pubmed/37947313 http://dx.doi.org/10.1093/bioinformatics/btad677 |
_version_ | 1785136938320134144 |
---|---|
author | Jain, Aakriti Singhal, Neelja Kumar, Manish |
author_facet | Jain, Aakriti Singhal, Neelja Kumar, Manish |
author_sort | Jain, Aakriti |
collection | PubMed |
description | MOTIVATION: Fungal pathogens are known to cause life threatening invasive infections with rising global mortality rates. Besides, the indiscriminate use of antifungals in both clinics and agriculture has promoted antifungal drug resistance in the last decade. Fungi can show drug resistance by a variety of mechanisms. But primary driver in all these hitherto documented mechanisms is stable and heritable point mutations in the key proteins. Therefore, cataloguing mutations that can confer resistance is the first step toward understanding the mechanisms leading to the emergence of antifungal resistance. RESULTS: In the present, work we have described a database of all the mutations responsible for antifungal resistance. Named as antifungal resistance database (AFRbase), it is better than the existing databases of antifungal resistance namely, FunResDB and MARDy which have a limited scope and inadequate information. Data of AFRbase was collected using both text mining and manual curation. AFRbase provides a separate window for visualization of mutations in the 2D and 3D formats making it easy for researchers to analyze the mutation data and ensures interoperability with other standard molecular biology databases like NCBI and UniProtKB. We hope AFRbase can be useful to both clinicians and basic biomedical scientists as we envision it as an important resource for genotypic susceptibility testing of fungi and to study/predict the course of evolution of antifungal resistance. The current version of AFRbase contains manually curated 3691 unique mutations present in 29 proteins of 32 fungal species along with the information of drugs against which resistance is caused. AVAILABILITY AND IMPLEMENTATION: AFRbase is an open access database available at http://proteininformatics.org/mkumar/afrbase/. |
format | Online Article Text |
id | pubmed-10656092 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-106560922023-11-08 AFRbase: a database of protein mutations responsible for antifungal resistance Jain, Aakriti Singhal, Neelja Kumar, Manish Bioinformatics Original Paper MOTIVATION: Fungal pathogens are known to cause life threatening invasive infections with rising global mortality rates. Besides, the indiscriminate use of antifungals in both clinics and agriculture has promoted antifungal drug resistance in the last decade. Fungi can show drug resistance by a variety of mechanisms. But primary driver in all these hitherto documented mechanisms is stable and heritable point mutations in the key proteins. Therefore, cataloguing mutations that can confer resistance is the first step toward understanding the mechanisms leading to the emergence of antifungal resistance. RESULTS: In the present, work we have described a database of all the mutations responsible for antifungal resistance. Named as antifungal resistance database (AFRbase), it is better than the existing databases of antifungal resistance namely, FunResDB and MARDy which have a limited scope and inadequate information. Data of AFRbase was collected using both text mining and manual curation. AFRbase provides a separate window for visualization of mutations in the 2D and 3D formats making it easy for researchers to analyze the mutation data and ensures interoperability with other standard molecular biology databases like NCBI and UniProtKB. We hope AFRbase can be useful to both clinicians and basic biomedical scientists as we envision it as an important resource for genotypic susceptibility testing of fungi and to study/predict the course of evolution of antifungal resistance. The current version of AFRbase contains manually curated 3691 unique mutations present in 29 proteins of 32 fungal species along with the information of drugs against which resistance is caused. AVAILABILITY AND IMPLEMENTATION: AFRbase is an open access database available at http://proteininformatics.org/mkumar/afrbase/. Oxford University Press 2023-11-08 /pmc/articles/PMC10656092/ /pubmed/37947313 http://dx.doi.org/10.1093/bioinformatics/btad677 Text en © The Author(s) 2023. Published by Oxford University Press. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Original Paper Jain, Aakriti Singhal, Neelja Kumar, Manish AFRbase: a database of protein mutations responsible for antifungal resistance |
title | AFRbase: a database of protein mutations responsible for antifungal resistance |
title_full | AFRbase: a database of protein mutations responsible for antifungal resistance |
title_fullStr | AFRbase: a database of protein mutations responsible for antifungal resistance |
title_full_unstemmed | AFRbase: a database of protein mutations responsible for antifungal resistance |
title_short | AFRbase: a database of protein mutations responsible for antifungal resistance |
title_sort | afrbase: a database of protein mutations responsible for antifungal resistance |
topic | Original Paper |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10656092/ https://www.ncbi.nlm.nih.gov/pubmed/37947313 http://dx.doi.org/10.1093/bioinformatics/btad677 |
work_keys_str_mv | AT jainaakriti afrbaseadatabaseofproteinmutationsresponsibleforantifungalresistance AT singhalneelja afrbaseadatabaseofproteinmutationsresponsibleforantifungalresistance AT kumarmanish afrbaseadatabaseofproteinmutationsresponsibleforantifungalresistance |