Development of a workflow for identification of nuclear genotyping markers for Cyclospora cayetanensis.

Houghton, KA; Lomsadze, A; Park, S; Nascimento, FS; Barratt, J; Arrowood, MJ; VanRoey, E; Talundzic, E; Borodovsky, M; Qvarnstrom, Y

Development of a workflow for identification of nuclear genotyping markers for Cyclospora cayetanensis.

Houghton, KA Lomsadze, A Park, S Nascimento, FS Barratt, J

Arrowood, MJ VanRoey, E Talundzic, E Borodovsky, M Qvarnstrom, Y

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Publisher:: EDP Sciences
Publication Type:: Journal Article
Citation:: Parasite (Paris, France), 2020, 27, (10)
Issue Date:: 2020-01

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Field	Value	Language
dc.contributor.author	Houghton, KA
dc.contributor.author	Lomsadze, A
dc.contributor.author	Park, S
dc.contributor.author	Nascimento, FS
dc.contributor.author	Barratt, J https://orcid.org/0000-0001-8711-2408
dc.contributor.author	Arrowood, MJ
dc.contributor.author	VanRoey, E
dc.contributor.author	Talundzic, E
dc.contributor.author	Borodovsky, M
dc.contributor.author	Qvarnstrom, Y
dc.date.accessioned	2020-11-19T02:53:13Z
dc.date.available	2020-04-02
dc.date.available	2020-11-19T02:53:13Z
dc.date.issued	2020-01
dc.identifier.citation	Parasite (Paris, France), 2020, 27, (10)
dc.identifier.issn	1252-607X
dc.identifier.issn	1776-1042
dc.identifier.uri	http://hdl.handle.net/10453/144143
dc.description.abstract	Cyclospora cayetanensis is an intestinal parasite responsible for the diarrheal illness, cyclosporiasis. Molecular genotyping, using targeted amplicon sequencing, provides a complementary tool for outbreak investigations, especially when epidemiological data are insufficient for linking cases and identifying clusters. The goal of this study was to identify candidate genotyping markers using a novel workflow for detection of segregating single nucleotide polymorphisms (SNPs) in C. cayetanensis genomes. Four whole C. cayetanensis genomes were compared using this workflow and four candidate markers were selected for evaluation of their genotyping utility by PCR and Sanger sequencing. These four markers covered 13 SNPs and resolved parasites from 57 stool specimens, differentiating C. cayetanensis into 19 new unique genotypes.
dc.format	Print-Electronic
dc.language	eng
dc.publisher	EDP Sciences
dc.relation.ispartof	Parasite (Paris, France)
dc.relation.isbasedon	10.1051/parasite/2020022
dc.rights	info:eu-repo/semantics/openAccess
dc.subject	1108 Medical Microbiology
dc.subject.classification	Mycology & Parasitology
dc.title	Development of a workflow for identification of nuclear genotyping markers for Cyclospora cayetanensis.
dc.type	Journal Article
utslib.citation.volume	27
utslib.location.activity	France
utslib.for	1108 Medical Microbiology
pubs.organisational-group	/University of Technology Sydney/Faculty of Science
pubs.organisational-group	/University of Technology Sydney/Faculty of Science/School of Life Sciences
pubs.organisational-group	/University of Technology Sydney
utslib.copyright.status	open_access	*
pubs.consider-herdc	false
dc.date.updated	2020-11-19T02:53:05Z
pubs.issue	10
pubs.publication-status	Published
pubs.volume	27
utslib.citation.issue	10

Abstract:

Cyclospora cayetanensis is an intestinal parasite responsible for the diarrheal illness, cyclosporiasis. Molecular genotyping, using targeted amplicon sequencing, provides a complementary tool for outbreak investigations, especially when epidemiological data are insufficient for linking cases and identifying clusters. The goal of this study was to identify candidate genotyping markers using a novel workflow for detection of segregating single nucleotide polymorphisms (SNPs) in C. cayetanensis genomes. Four whole C. cayetanensis genomes were compared using this workflow and four candidate markers were selected for evaluation of their genotyping utility by PCR and Sanger sequencing. These four markers covered 13 SNPs and resolved parasites from 57 stool specimens, differentiating C. cayetanensis into 19 new unique genotypes.

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http://hdl.handle.net/10453/144143