Genome-wide mapping using new AFLP markers to explore intraspecific variation among pathogenic Sporothrix species.
Sporotrichosis is a chronic subcutaneous mycosis caused by Sporothrix species, of which the main aetiological agents are S. brasiliensis, S. schenckii, and S. globosa. Infection occurs after a traumatic inoculation of Sporothrix propagules in mammals' skin and can follow either a classic route...
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ftdoajarticles:oai:doaj.org/article:ae8e8e1088424d05a225a59a36824110 2023-05-15T15:14:18+02:00 Genome-wide mapping using new AFLP markers to explore intraspecific variation among pathogenic Sporothrix species. Jamile Ambrósio de Carvalho Ferry Hagen Matthew C Fisher Zoilo Pires de Camargo Anderson Messias Rodrigues 2020-07-01T00:00:00Z https://doi.org/10.1371/journal.pntd.0008330 https://doaj.org/article/ae8e8e1088424d05a225a59a36824110 EN eng Public Library of Science (PLoS) https://doi.org/10.1371/journal.pntd.0008330 https://doaj.org/toc/1935-2727 https://doaj.org/toc/1935-2735 1935-2727 1935-2735 doi:10.1371/journal.pntd.0008330 https://doaj.org/article/ae8e8e1088424d05a225a59a36824110 PLoS Neglected Tropical Diseases, Vol 14, Iss 7, p e0008330 (2020) Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 article 2020 ftdoajarticles https://doi.org/10.1371/journal.pntd.0008330 2022-12-31T13:50:09Z Sporotrichosis is a chronic subcutaneous mycosis caused by Sporothrix species, of which the main aetiological agents are S. brasiliensis, S. schenckii, and S. globosa. Infection occurs after a traumatic inoculation of Sporothrix propagules in mammals' skin and can follow either a classic route through traumatic inoculation by plant debris (e.g., S. schenckii and S. globosa) or an alternative route through zoonotic transmission from animals (e.g., S. brasiliensis). Epizootics followed by a zoonotic route occur in Brazil, with Rio de Janeiro as the epicenter of a recent cat-transmitted epidemic. DNA-based markers are needed to explore the epidemiology of these Sporothrix expansions using molecular methods. This paper reports the use of amplified-fragment-length polymorphisms (AFLP) to assess the degree of intraspecific variability among Sporothrix species. We used whole-genome sequences from Sporothrix species to generate 2,304 virtual AFLP fingerprints. In silico screening highlighted 6 primer pair combinations to be tested in vitro. The protocol was used to genotype 27 medically relevant Sporothrix. Based on the overall scored AFLP markers (97-137 fragments), the values of polymorphism information content (PIC = 0.2552-0.3113), marker index (MI = 0.002-0.0039), effective multiplex ratio (E = 17.8519-35.2222), resolving power (Rp = 33.6296-63.1852), discriminating power (D = 0.9291-0.9662), expected heterozygosity (H = 0.3003-0.3857), and mean heterozygosity (Havp = 0.0001) demonstrated the utility of these primer combinations for discriminating Sporothrix. AFLP markers revealed cryptic diversity in species previously thought to be the most prevalent clonal type, such as S. brasiliensis, responsible for cat-transmitted sporotrichosis, and S. globosa responsible for large sapronosis outbreaks in Asia. Three combinations (#3 EcoRI-FAM-GA/MseI-TT, #5 EcoRI-FAM-GA/MseI-AG, and #6 EcoRI-FAM-TA/MseI-AA) provide the best diversity indices and lowest error rates. These methods make it easier to track routes of disease ... Article in Journal/Newspaper Arctic Directory of Open Access Journals: DOAJ Articles Arctic PLOS Neglected Tropical Diseases 14 7 e0008330 |
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Open Polar |
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Directory of Open Access Journals: DOAJ Articles |
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English |
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Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 |
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Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 Jamile Ambrósio de Carvalho Ferry Hagen Matthew C Fisher Zoilo Pires de Camargo Anderson Messias Rodrigues Genome-wide mapping using new AFLP markers to explore intraspecific variation among pathogenic Sporothrix species. |
topic_facet |
Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 |
description |
Sporotrichosis is a chronic subcutaneous mycosis caused by Sporothrix species, of which the main aetiological agents are S. brasiliensis, S. schenckii, and S. globosa. Infection occurs after a traumatic inoculation of Sporothrix propagules in mammals' skin and can follow either a classic route through traumatic inoculation by plant debris (e.g., S. schenckii and S. globosa) or an alternative route through zoonotic transmission from animals (e.g., S. brasiliensis). Epizootics followed by a zoonotic route occur in Brazil, with Rio de Janeiro as the epicenter of a recent cat-transmitted epidemic. DNA-based markers are needed to explore the epidemiology of these Sporothrix expansions using molecular methods. This paper reports the use of amplified-fragment-length polymorphisms (AFLP) to assess the degree of intraspecific variability among Sporothrix species. We used whole-genome sequences from Sporothrix species to generate 2,304 virtual AFLP fingerprints. In silico screening highlighted 6 primer pair combinations to be tested in vitro. The protocol was used to genotype 27 medically relevant Sporothrix. Based on the overall scored AFLP markers (97-137 fragments), the values of polymorphism information content (PIC = 0.2552-0.3113), marker index (MI = 0.002-0.0039), effective multiplex ratio (E = 17.8519-35.2222), resolving power (Rp = 33.6296-63.1852), discriminating power (D = 0.9291-0.9662), expected heterozygosity (H = 0.3003-0.3857), and mean heterozygosity (Havp = 0.0001) demonstrated the utility of these primer combinations for discriminating Sporothrix. AFLP markers revealed cryptic diversity in species previously thought to be the most prevalent clonal type, such as S. brasiliensis, responsible for cat-transmitted sporotrichosis, and S. globosa responsible for large sapronosis outbreaks in Asia. Three combinations (#3 EcoRI-FAM-GA/MseI-TT, #5 EcoRI-FAM-GA/MseI-AG, and #6 EcoRI-FAM-TA/MseI-AA) provide the best diversity indices and lowest error rates. These methods make it easier to track routes of disease ... |
format |
Article in Journal/Newspaper |
author |
Jamile Ambrósio de Carvalho Ferry Hagen Matthew C Fisher Zoilo Pires de Camargo Anderson Messias Rodrigues |
author_facet |
Jamile Ambrósio de Carvalho Ferry Hagen Matthew C Fisher Zoilo Pires de Camargo Anderson Messias Rodrigues |
author_sort |
Jamile Ambrósio de Carvalho |
title |
Genome-wide mapping using new AFLP markers to explore intraspecific variation among pathogenic Sporothrix species. |
title_short |
Genome-wide mapping using new AFLP markers to explore intraspecific variation among pathogenic Sporothrix species. |
title_full |
Genome-wide mapping using new AFLP markers to explore intraspecific variation among pathogenic Sporothrix species. |
title_fullStr |
Genome-wide mapping using new AFLP markers to explore intraspecific variation among pathogenic Sporothrix species. |
title_full_unstemmed |
Genome-wide mapping using new AFLP markers to explore intraspecific variation among pathogenic Sporothrix species. |
title_sort |
genome-wide mapping using new aflp markers to explore intraspecific variation among pathogenic sporothrix species. |
publisher |
Public Library of Science (PLoS) |
publishDate |
2020 |
url |
https://doi.org/10.1371/journal.pntd.0008330 https://doaj.org/article/ae8e8e1088424d05a225a59a36824110 |
geographic |
Arctic |
geographic_facet |
Arctic |
genre |
Arctic |
genre_facet |
Arctic |
op_source |
PLoS Neglected Tropical Diseases, Vol 14, Iss 7, p e0008330 (2020) |
op_relation |
https://doi.org/10.1371/journal.pntd.0008330 https://doaj.org/toc/1935-2727 https://doaj.org/toc/1935-2735 1935-2727 1935-2735 doi:10.1371/journal.pntd.0008330 https://doaj.org/article/ae8e8e1088424d05a225a59a36824110 |
op_doi |
https://doi.org/10.1371/journal.pntd.0008330 |
container_title |
PLOS Neglected Tropical Diseases |
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14 |
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7 |
container_start_page |
e0008330 |
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1766344767252201472 |