Identification of a piscine reovirus-related pathogen in proliferative darkening syndrome (PDS) infected brown trout (Salmo trutta fario) using a next-generation technology detection pipeline
The proliferative darkening syndrome (PDS) is an annually recurring disease that causes species-specific die-off of brown trout (Salmo trutta fario) with a mortality rate of near 100% in pre-alpine rivers of central Europe. So far the etiology and causation of this disease is still unclear. The obje...
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ftpubmed:oai:pubmedcentral.nih.gov:6197672 2023-05-15T18:09:58+02:00 Identification of a piscine reovirus-related pathogen in proliferative darkening syndrome (PDS) infected brown trout (Salmo trutta fario) using a next-generation technology detection pipeline Kuehn, Ralph Stoeckle, Bernhard C. Young, Marc Popp, Lisa Taeubert, Jens-Eike Pfaffl, Michael W. Geist, Juergen 2018-10-22 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6197672/ http://www.ncbi.nlm.nih.gov/pubmed/30346982 https://doi.org/10.1371/journal.pone.0206164 en eng Public Library of Science http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6197672/ http://www.ncbi.nlm.nih.gov/pubmed/30346982 http://dx.doi.org/10.1371/journal.pone.0206164 © 2018 Kuehn et al http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. CC-BY Research Article Text 2018 ftpubmed https://doi.org/10.1371/journal.pone.0206164 2018-11-25T01:11:05Z The proliferative darkening syndrome (PDS) is an annually recurring disease that causes species-specific die-off of brown trout (Salmo trutta fario) with a mortality rate of near 100% in pre-alpine rivers of central Europe. So far the etiology and causation of this disease is still unclear. The objective of this study was to identify the cause of PDS using a next-generation technology detection pipeline. Following the hypothesis that PDS is caused by an infectious agent, brown trout specimens were exposed to water from a heavily affected pre-alpine river with annual occurrence of the disease. Specimens were sampled over the entire time period from potential infection through death. Transcriptomic analysis (microarray) and RT-qPCR of brown trout liver tissue evidenced strong gene expression response of immune-associated genes. Messenger RNA of specimens with synchronous immune expression profiles were ultra-deep sequenced using next-generation sequencing technology (NGS). Bioinformatic processing of generated reads and gap-filling Sanger re-sequencing of the identified pathogen genome revealed strong evidence that a piscine-related reovirus is the causative organism of PDS. The identified pathogen is phylogenetically closely related to the family of piscine reoviruses (PRV) which are considered as the causation of different fish diseases in Atlantic and Pacific salmonid species such as Salmo salar and Onchorhynchus kisutch. This study also highlights that the approach of first screening immune responses along a timeline in order to identify synchronously affected stages in different specimens which subsequently were ultra-deep sequenced is an effective approach in pathogen detection. In particular, the identification of specimens with synchronous molecular immune response patterns combined with NGS sequencing and gap-filling re-sequencing resulted in the successful pathogen detection of PDS. Text Salmo salar PubMed Central (PMC) Pacific PLOS ONE 13 10 e0206164 |
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Research Article Kuehn, Ralph Stoeckle, Bernhard C. Young, Marc Popp, Lisa Taeubert, Jens-Eike Pfaffl, Michael W. Geist, Juergen Identification of a piscine reovirus-related pathogen in proliferative darkening syndrome (PDS) infected brown trout (Salmo trutta fario) using a next-generation technology detection pipeline |
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Research Article |
description |
The proliferative darkening syndrome (PDS) is an annually recurring disease that causes species-specific die-off of brown trout (Salmo trutta fario) with a mortality rate of near 100% in pre-alpine rivers of central Europe. So far the etiology and causation of this disease is still unclear. The objective of this study was to identify the cause of PDS using a next-generation technology detection pipeline. Following the hypothesis that PDS is caused by an infectious agent, brown trout specimens were exposed to water from a heavily affected pre-alpine river with annual occurrence of the disease. Specimens were sampled over the entire time period from potential infection through death. Transcriptomic analysis (microarray) and RT-qPCR of brown trout liver tissue evidenced strong gene expression response of immune-associated genes. Messenger RNA of specimens with synchronous immune expression profiles were ultra-deep sequenced using next-generation sequencing technology (NGS). Bioinformatic processing of generated reads and gap-filling Sanger re-sequencing of the identified pathogen genome revealed strong evidence that a piscine-related reovirus is the causative organism of PDS. The identified pathogen is phylogenetically closely related to the family of piscine reoviruses (PRV) which are considered as the causation of different fish diseases in Atlantic and Pacific salmonid species such as Salmo salar and Onchorhynchus kisutch. This study also highlights that the approach of first screening immune responses along a timeline in order to identify synchronously affected stages in different specimens which subsequently were ultra-deep sequenced is an effective approach in pathogen detection. In particular, the identification of specimens with synchronous molecular immune response patterns combined with NGS sequencing and gap-filling re-sequencing resulted in the successful pathogen detection of PDS. |
format |
Text |
author |
Kuehn, Ralph Stoeckle, Bernhard C. Young, Marc Popp, Lisa Taeubert, Jens-Eike Pfaffl, Michael W. Geist, Juergen |
author_facet |
Kuehn, Ralph Stoeckle, Bernhard C. Young, Marc Popp, Lisa Taeubert, Jens-Eike Pfaffl, Michael W. Geist, Juergen |
author_sort |
Kuehn, Ralph |
title |
Identification of a piscine reovirus-related pathogen in proliferative darkening syndrome (PDS) infected brown trout (Salmo trutta fario) using a next-generation technology detection pipeline |
title_short |
Identification of a piscine reovirus-related pathogen in proliferative darkening syndrome (PDS) infected brown trout (Salmo trutta fario) using a next-generation technology detection pipeline |
title_full |
Identification of a piscine reovirus-related pathogen in proliferative darkening syndrome (PDS) infected brown trout (Salmo trutta fario) using a next-generation technology detection pipeline |
title_fullStr |
Identification of a piscine reovirus-related pathogen in proliferative darkening syndrome (PDS) infected brown trout (Salmo trutta fario) using a next-generation technology detection pipeline |
title_full_unstemmed |
Identification of a piscine reovirus-related pathogen in proliferative darkening syndrome (PDS) infected brown trout (Salmo trutta fario) using a next-generation technology detection pipeline |
title_sort |
identification of a piscine reovirus-related pathogen in proliferative darkening syndrome (pds) infected brown trout (salmo trutta fario) using a next-generation technology detection pipeline |
publisher |
Public Library of Science |
publishDate |
2018 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6197672/ http://www.ncbi.nlm.nih.gov/pubmed/30346982 https://doi.org/10.1371/journal.pone.0206164 |
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Pacific |
geographic_facet |
Pacific |
genre |
Salmo salar |
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Salmo salar |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6197672/ http://www.ncbi.nlm.nih.gov/pubmed/30346982 http://dx.doi.org/10.1371/journal.pone.0206164 |
op_rights |
© 2018 Kuehn et al http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. |
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CC-BY |
op_doi |
https://doi.org/10.1371/journal.pone.0206164 |
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PLOS ONE |
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10 |
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