Identification of pathogenic Leptospira species and serovars in New Zealand using metabarcoding.

Leptospirosis is a zoonotic disease of global importance. The breadth of Leptospira diversity associated with both human and animal disease poses major logistical challenges to the use of classical diagnostic techniques, and increasingly molecular diagnostic tools are used for their detection. In Ne...

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Autores principales:	David A Wilkinson, Matthew Edwards, Jackie Benschop, Shahista Nisa
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/b1e6dcac174b4f73aec9fa3c0a7d1139
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spelling	oai:doaj.org-article:b1e6dcac174b4f73aec9fa3c0a7d11392021-12-02T20:14:00ZIdentification of pathogenic Leptospira species and serovars in New Zealand using metabarcoding.1932-620310.1371/journal.pone.0257971https://doaj.org/article/b1e6dcac174b4f73aec9fa3c0a7d11392021-01-01T00:00:00Zhttps://doi.org/10.1371/journal.pone.0257971https://doaj.org/toc/1932-6203Leptospirosis is a zoonotic disease of global importance. The breadth of Leptospira diversity associated with both human and animal disease poses major logistical challenges to the use of classical diagnostic techniques, and increasingly molecular diagnostic tools are used for their detection. In New Zealand, this has resulted in an increase in positive cases reported nationally that have not been attributed to the infecting serovar or genomospecies. In this study, we used data from all pathogenic Leptospira genomes to identify a partial region of the glmU gene as a suitable locus for the discrimination of the infecting species and serovars of New Zealand-endemic Leptospira. This method can be used in culture and culture-independent scenarios making it flexible for diagnostics in humans, animals, and environmental samples. We explored the use of this locus as a molecular barcoding tool via the Oxford Nanopore Technology (ONT) sequencing platform MinION. Sequences obtained by this method allowed specific identification of Leptospira species in mixed and enriched environmental cultures, however read error inherent in the MinION sequencing system reduced the accuracy of strain/variant identification. Using this approach to characterise Leptospira in enriched environmental cultures, we detected the likely presence of Leptospira genomospecies that have not been reported in New Zealand to date. This included a strain of L. borgpetersenii that has recently been identified in dairy cattle and sequences similar to those of L. mayottensis. L. tipperaryensis, L. dzianensis and L. alstonii.David A WilkinsonMatthew EdwardsJackie BenschopShahista NisaPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 16, Iss 9, p e0257971 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q David A Wilkinson Matthew Edwards Jackie Benschop Shahista Nisa Identification of pathogenic Leptospira species and serovars in New Zealand using metabarcoding.
description	Leptospirosis is a zoonotic disease of global importance. The breadth of Leptospira diversity associated with both human and animal disease poses major logistical challenges to the use of classical diagnostic techniques, and increasingly molecular diagnostic tools are used for their detection. In New Zealand, this has resulted in an increase in positive cases reported nationally that have not been attributed to the infecting serovar or genomospecies. In this study, we used data from all pathogenic Leptospira genomes to identify a partial region of the glmU gene as a suitable locus for the discrimination of the infecting species and serovars of New Zealand-endemic Leptospira. This method can be used in culture and culture-independent scenarios making it flexible for diagnostics in humans, animals, and environmental samples. We explored the use of this locus as a molecular barcoding tool via the Oxford Nanopore Technology (ONT) sequencing platform MinION. Sequences obtained by this method allowed specific identification of Leptospira species in mixed and enriched environmental cultures, however read error inherent in the MinION sequencing system reduced the accuracy of strain/variant identification. Using this approach to characterise Leptospira in enriched environmental cultures, we detected the likely presence of Leptospira genomospecies that have not been reported in New Zealand to date. This included a strain of L. borgpetersenii that has recently been identified in dairy cattle and sequences similar to those of L. mayottensis. L. tipperaryensis, L. dzianensis and L. alstonii.
format	article
author	David A Wilkinson Matthew Edwards Jackie Benschop Shahista Nisa
author_facet	David A Wilkinson Matthew Edwards Jackie Benschop Shahista Nisa
author_sort	David A Wilkinson
title	Identification of pathogenic Leptospira species and serovars in New Zealand using metabarcoding.
title_short	Identification of pathogenic Leptospira species and serovars in New Zealand using metabarcoding.
title_full	Identification of pathogenic Leptospira species and serovars in New Zealand using metabarcoding.
title_fullStr	Identification of pathogenic Leptospira species and serovars in New Zealand using metabarcoding.
title_full_unstemmed	Identification of pathogenic Leptospira species and serovars in New Zealand using metabarcoding.
title_sort	identification of pathogenic leptospira species and serovars in new zealand using metabarcoding.
publisher	Public Library of Science (PLoS)
publishDate	2021
url	https://doaj.org/article/b1e6dcac174b4f73aec9fa3c0a7d1139
work_keys_str_mv	AT davidawilkinson identificationofpathogenicleptospiraspeciesandserovarsinnewzealandusingmetabarcoding AT matthewedwards identificationofpathogenicleptospiraspeciesandserovarsinnewzealandusingmetabarcoding AT jackiebenschop identificationofpathogenicleptospiraspeciesandserovarsinnewzealandusingmetabarcoding AT shahistanisa identificationofpathogenicleptospiraspeciesandserovarsinnewzealandusingmetabarcoding
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Identification of pathogenic Leptospira species and serovars in New Zealand using metabarcoding.

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