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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ftdoajarticles:oai:doaj.org/article:af79c1b7c0d14deebf7690a0cc38ac9e 2023-05-15T18:10:01+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. Ralph Kuehn Bernhard C Stoeckle Marc Young Lisa Popp Jens-Eike Taeubert Michael W Pfaffl Juergen Geist 2018-01-01T00:00:00Z https://doi.org/10.1371/journal.pone.0206164 https://doaj.org/article/af79c1b7c0d14deebf7690a0cc38ac9e EN eng Public Library of Science (PLoS) http://europepmc.org/articles/PMC6197672?pdf=render https://doaj.org/toc/1932-6203 1932-6203 doi:10.1371/journal.pone.0206164 https://doaj.org/article/af79c1b7c0d14deebf7690a0cc38ac9e PLoS ONE, Vol 13, Iss 10, p e0206164 (2018) Medicine R Science Q article 2018 ftdoajarticles https://doi.org/10.1371/journal.pone.0206164 2022-12-31T02:40:52Z 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. Article in Journal/Newspaper Salmo salar Directory of Open Access Journals: DOAJ Articles Pacific PLOS ONE 13 10 e0206164 |
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topic |
Medicine R Science Q |
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Medicine R Science Q Ralph Kuehn Bernhard C Stoeckle Marc Young Lisa Popp Jens-Eike Taeubert Michael W Pfaffl Juergen Geist 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. |
topic_facet |
Medicine R Science Q |
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 |
Article in Journal/Newspaper |
author |
Ralph Kuehn Bernhard C Stoeckle Marc Young Lisa Popp Jens-Eike Taeubert Michael W Pfaffl Juergen Geist |
author_facet |
Ralph Kuehn Bernhard C Stoeckle Marc Young Lisa Popp Jens-Eike Taeubert Michael W Pfaffl Juergen Geist |
author_sort |
Ralph Kuehn |
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 (PLoS) |
publishDate |
2018 |
url |
https://doi.org/10.1371/journal.pone.0206164 https://doaj.org/article/af79c1b7c0d14deebf7690a0cc38ac9e |
geographic |
Pacific |
geographic_facet |
Pacific |
genre |
Salmo salar |
genre_facet |
Salmo salar |
op_source |
PLoS ONE, Vol 13, Iss 10, p e0206164 (2018) |
op_relation |
http://europepmc.org/articles/PMC6197672?pdf=render https://doaj.org/toc/1932-6203 1932-6203 doi:10.1371/journal.pone.0206164 https://doaj.org/article/af79c1b7c0d14deebf7690a0cc38ac9e |
op_doi |
https://doi.org/10.1371/journal.pone.0206164 |
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PLOS ONE |
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13 |
container_issue |
10 |
container_start_page |
e0206164 |
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1766182735329624064 |