Detection of multiple mycetoma pathogens using fungal metabarcoding analysis of soil DNA in an endemic area of Sudan.
Mycetoma is a tropical disease caused by several fungi and bacteria present in the soil. Fungal mycetoma and eumycetoma are especially challenging to treat; therefore, prevention, early diagnosis, and early treatment are important, but it is also necessary to understand the geographic distribution o...
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ftdoajarticles:oai:doaj.org/article:28f1967e1bda489789d4a5a6600372da 2023-05-15T15:10:01+02:00 Detection of multiple mycetoma pathogens using fungal metabarcoding analysis of soil DNA in an endemic area of Sudan. Hiroki Hashizume Suguru Taga Masayuki K Sakata Mahmoud Hussein Mohamed Taha Emmanuel Edwar Siddig Toshifumi Minamoto Ahmed Hassan Fahal Satoshi Kaneko 2022-03-01T00:00:00Z https://doi.org/10.1371/journal.pntd.0010274 https://doaj.org/article/28f1967e1bda489789d4a5a6600372da EN eng Public Library of Science (PLoS) https://doi.org/10.1371/journal.pntd.0010274 https://doaj.org/toc/1935-2727 https://doaj.org/toc/1935-2735 1935-2727 1935-2735 doi:10.1371/journal.pntd.0010274 https://doaj.org/article/28f1967e1bda489789d4a5a6600372da PLoS Neglected Tropical Diseases, Vol 16, Iss 3, p e0010274 (2022) Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 article 2022 ftdoajarticles https://doi.org/10.1371/journal.pntd.0010274 2022-12-30T22:04:24Z Mycetoma is a tropical disease caused by several fungi and bacteria present in the soil. Fungal mycetoma and eumycetoma are especially challenging to treat; therefore, prevention, early diagnosis, and early treatment are important, but it is also necessary to understand the geographic distribution of these pathogenic fungi. In this study, we used DNA metabarcoding methodology to identify fungal species from soil samples. Soil sampling was implemented at seven villages in an endemic area of Sennar State in Sudan in 2019, and ten sampling sites were selected in each village according to land-use conditions. In total, 70 soil samples were collected from ground surfaces, and DNA in the soil was extracted with a combined method of alkaline DNA extraction and a commercial soil DNA extraction kit. The region for universal primers was selected to be the ribosomal internal transcribed spacer one region for metabarcoding. After the second PCR for DNA library preparation, the amplicon-based DNA analysis was performed using next-generation sequencing with two sets of universal primers. A total of twelve mycetoma-causative fungal species were identified, including the prime agent, Madurella mycetomatis, and additional pathogens, Falciformispora senegalensis and Falciformispora tompkinsii, in 53 soil samples. This study demonstrated that soil DNA metabarcoding can elucidate the presence of multiple mycetoma-causative fungi, which may contribute to accurate diagnosis for patient treatment and geographical mapping. Article in Journal/Newspaper Arctic Directory of Open Access Journals: DOAJ Articles Arctic PLOS Neglected Tropical Diseases 16 3 e0010274 |
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Open Polar |
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Directory of Open Access Journals: DOAJ Articles |
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ftdoajarticles |
language |
English |
topic |
Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 |
spellingShingle |
Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 Hiroki Hashizume Suguru Taga Masayuki K Sakata Mahmoud Hussein Mohamed Taha Emmanuel Edwar Siddig Toshifumi Minamoto Ahmed Hassan Fahal Satoshi Kaneko Detection of multiple mycetoma pathogens using fungal metabarcoding analysis of soil DNA in an endemic area of Sudan. |
topic_facet |
Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 |
description |
Mycetoma is a tropical disease caused by several fungi and bacteria present in the soil. Fungal mycetoma and eumycetoma are especially challenging to treat; therefore, prevention, early diagnosis, and early treatment are important, but it is also necessary to understand the geographic distribution of these pathogenic fungi. In this study, we used DNA metabarcoding methodology to identify fungal species from soil samples. Soil sampling was implemented at seven villages in an endemic area of Sennar State in Sudan in 2019, and ten sampling sites were selected in each village according to land-use conditions. In total, 70 soil samples were collected from ground surfaces, and DNA in the soil was extracted with a combined method of alkaline DNA extraction and a commercial soil DNA extraction kit. The region for universal primers was selected to be the ribosomal internal transcribed spacer one region for metabarcoding. After the second PCR for DNA library preparation, the amplicon-based DNA analysis was performed using next-generation sequencing with two sets of universal primers. A total of twelve mycetoma-causative fungal species were identified, including the prime agent, Madurella mycetomatis, and additional pathogens, Falciformispora senegalensis and Falciformispora tompkinsii, in 53 soil samples. This study demonstrated that soil DNA metabarcoding can elucidate the presence of multiple mycetoma-causative fungi, which may contribute to accurate diagnosis for patient treatment and geographical mapping. |
format |
Article in Journal/Newspaper |
author |
Hiroki Hashizume Suguru Taga Masayuki K Sakata Mahmoud Hussein Mohamed Taha Emmanuel Edwar Siddig Toshifumi Minamoto Ahmed Hassan Fahal Satoshi Kaneko |
author_facet |
Hiroki Hashizume Suguru Taga Masayuki K Sakata Mahmoud Hussein Mohamed Taha Emmanuel Edwar Siddig Toshifumi Minamoto Ahmed Hassan Fahal Satoshi Kaneko |
author_sort |
Hiroki Hashizume |
title |
Detection of multiple mycetoma pathogens using fungal metabarcoding analysis of soil DNA in an endemic area of Sudan. |
title_short |
Detection of multiple mycetoma pathogens using fungal metabarcoding analysis of soil DNA in an endemic area of Sudan. |
title_full |
Detection of multiple mycetoma pathogens using fungal metabarcoding analysis of soil DNA in an endemic area of Sudan. |
title_fullStr |
Detection of multiple mycetoma pathogens using fungal metabarcoding analysis of soil DNA in an endemic area of Sudan. |
title_full_unstemmed |
Detection of multiple mycetoma pathogens using fungal metabarcoding analysis of soil DNA in an endemic area of Sudan. |
title_sort |
detection of multiple mycetoma pathogens using fungal metabarcoding analysis of soil dna in an endemic area of sudan. |
publisher |
Public Library of Science (PLoS) |
publishDate |
2022 |
url |
https://doi.org/10.1371/journal.pntd.0010274 https://doaj.org/article/28f1967e1bda489789d4a5a6600372da |
geographic |
Arctic |
geographic_facet |
Arctic |
genre |
Arctic |
genre_facet |
Arctic |
op_source |
PLoS Neglected Tropical Diseases, Vol 16, Iss 3, p e0010274 (2022) |
op_relation |
https://doi.org/10.1371/journal.pntd.0010274 https://doaj.org/toc/1935-2727 https://doaj.org/toc/1935-2735 1935-2727 1935-2735 doi:10.1371/journal.pntd.0010274 https://doaj.org/article/28f1967e1bda489789d4a5a6600372da |
op_doi |
https://doi.org/10.1371/journal.pntd.0010274 |
container_title |
PLOS Neglected Tropical Diseases |
container_volume |
16 |
container_issue |
3 |
container_start_page |
e0010274 |
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1766341089598373888 |