Highly specific and sensitive detection of Burkholderia pseudomallei genomic DNA by CRISPR-Cas12a.
Detection of Burkholderia pseudomallei, a causative bacterium for melioidosis, remains a challenging undertaking due to long assay time, laboratory requirements, and the lack of specificity and sensitivity of many current assays. In this study, we are presenting a novel method that circumvents those...
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ftdoajarticles:oai:doaj.org/article:2f9ad828e6bc48c8b9a67dcb8de54915 2023-05-15T15:06:39+02:00 Highly specific and sensitive detection of Burkholderia pseudomallei genomic DNA by CRISPR-Cas12a. Somsakul Pop Wongpalee Hathairat Thananchai Claire Chewapreecha Henrik B Roslund Chalita Chomkatekaew Warunya Tananupak Phumrapee Boonklang Sukritpong Pakdeerat Rathanin Seng Narisara Chantratita Piyawan Takarn Phadungkiat Khamnoi 2022-08-01T00:00:00Z https://doi.org/10.1371/journal.pntd.0010659 https://doaj.org/article/2f9ad828e6bc48c8b9a67dcb8de54915 EN eng Public Library of Science (PLoS) https://doi.org/10.1371/journal.pntd.0010659 https://doaj.org/toc/1935-2727 https://doaj.org/toc/1935-2735 1935-2727 1935-2735 doi:10.1371/journal.pntd.0010659 https://doaj.org/article/2f9ad828e6bc48c8b9a67dcb8de54915 PLoS Neglected Tropical Diseases, Vol 16, Iss 8, p e0010659 (2022) Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 article 2022 ftdoajarticles https://doi.org/10.1371/journal.pntd.0010659 2022-12-30T21:59:06Z Detection of Burkholderia pseudomallei, a causative bacterium for melioidosis, remains a challenging undertaking due to long assay time, laboratory requirements, and the lack of specificity and sensitivity of many current assays. In this study, we are presenting a novel method that circumvents those issues by utilizing CRISPR-Cas12a coupled with isothermal amplification to identify B. pseudomallei DNA from clinical isolates. Through in silico search for conserved CRISPR-Cas12a target sites, we engineered the CRISPR-Cas12a to contain a highly specific spacer to B. pseudomallei, named crBP34. The crBP34-based detection assay can detect as few as 40 copies of B. pseudomallei genomic DNA while discriminating against other tested common pathogens. When coupled with a lateral flow dipstick, the assay readout can be simply performed without the loss of sensitivity and does not require expensive equipment. This crBP34-based detection assay provides high sensitivity, specificity and simple detection method for B. pseudomallei DNA. Direct use of this assay on clinical samples may require further optimization as these samples are complexed with high level of human DNA. Article in Journal/Newspaper Arctic Directory of Open Access Journals: DOAJ Articles Arctic PLOS Neglected Tropical Diseases 16 8 e0010659 |
institution |
Open Polar |
collection |
Directory of Open Access Journals: DOAJ Articles |
op_collection_id |
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 Somsakul Pop Wongpalee Hathairat Thananchai Claire Chewapreecha Henrik B Roslund Chalita Chomkatekaew Warunya Tananupak Phumrapee Boonklang Sukritpong Pakdeerat Rathanin Seng Narisara Chantratita Piyawan Takarn Phadungkiat Khamnoi Highly specific and sensitive detection of Burkholderia pseudomallei genomic DNA by CRISPR-Cas12a. |
topic_facet |
Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 |
description |
Detection of Burkholderia pseudomallei, a causative bacterium for melioidosis, remains a challenging undertaking due to long assay time, laboratory requirements, and the lack of specificity and sensitivity of many current assays. In this study, we are presenting a novel method that circumvents those issues by utilizing CRISPR-Cas12a coupled with isothermal amplification to identify B. pseudomallei DNA from clinical isolates. Through in silico search for conserved CRISPR-Cas12a target sites, we engineered the CRISPR-Cas12a to contain a highly specific spacer to B. pseudomallei, named crBP34. The crBP34-based detection assay can detect as few as 40 copies of B. pseudomallei genomic DNA while discriminating against other tested common pathogens. When coupled with a lateral flow dipstick, the assay readout can be simply performed without the loss of sensitivity and does not require expensive equipment. This crBP34-based detection assay provides high sensitivity, specificity and simple detection method for B. pseudomallei DNA. Direct use of this assay on clinical samples may require further optimization as these samples are complexed with high level of human DNA. |
format |
Article in Journal/Newspaper |
author |
Somsakul Pop Wongpalee Hathairat Thananchai Claire Chewapreecha Henrik B Roslund Chalita Chomkatekaew Warunya Tananupak Phumrapee Boonklang Sukritpong Pakdeerat Rathanin Seng Narisara Chantratita Piyawan Takarn Phadungkiat Khamnoi |
author_facet |
Somsakul Pop Wongpalee Hathairat Thananchai Claire Chewapreecha Henrik B Roslund Chalita Chomkatekaew Warunya Tananupak Phumrapee Boonklang Sukritpong Pakdeerat Rathanin Seng Narisara Chantratita Piyawan Takarn Phadungkiat Khamnoi |
author_sort |
Somsakul Pop Wongpalee |
title |
Highly specific and sensitive detection of Burkholderia pseudomallei genomic DNA by CRISPR-Cas12a. |
title_short |
Highly specific and sensitive detection of Burkholderia pseudomallei genomic DNA by CRISPR-Cas12a. |
title_full |
Highly specific and sensitive detection of Burkholderia pseudomallei genomic DNA by CRISPR-Cas12a. |
title_fullStr |
Highly specific and sensitive detection of Burkholderia pseudomallei genomic DNA by CRISPR-Cas12a. |
title_full_unstemmed |
Highly specific and sensitive detection of Burkholderia pseudomallei genomic DNA by CRISPR-Cas12a. |
title_sort |
highly specific and sensitive detection of burkholderia pseudomallei genomic dna by crispr-cas12a. |
publisher |
Public Library of Science (PLoS) |
publishDate |
2022 |
url |
https://doi.org/10.1371/journal.pntd.0010659 https://doaj.org/article/2f9ad828e6bc48c8b9a67dcb8de54915 |
geographic |
Arctic |
geographic_facet |
Arctic |
genre |
Arctic |
genre_facet |
Arctic |
op_source |
PLoS Neglected Tropical Diseases, Vol 16, Iss 8, p e0010659 (2022) |
op_relation |
https://doi.org/10.1371/journal.pntd.0010659 https://doaj.org/toc/1935-2727 https://doaj.org/toc/1935-2735 1935-2727 1935-2735 doi:10.1371/journal.pntd.0010659 https://doaj.org/article/2f9ad828e6bc48c8b9a67dcb8de54915 |
op_doi |
https://doi.org/10.1371/journal.pntd.0010659 |
container_title |
PLOS Neglected Tropical Diseases |
container_volume |
16 |
container_issue |
8 |
container_start_page |
e0010659 |
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1766338212967481344 |