Data from: Structural and compositional mismatch between captive and wild Atlantic salmon (Salmo salar) parrs gut microbiota highlights the relevance of integrating molecular ecology for management and conservation methods.

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Description:
Stocking methods are used in the Province of Quebec to restore Salmo salar populations. However, Atlantic salmon stocked juveniles show higher mortality rates than wild ones when introduced into nature. Hatchery environment, which greatly differs from the natural environment, is identified as the main driver of the phenotypic mismatch between captive and wild parrs. The latter is also suspected to impact the gut microbiota composition, which can be associated with essential metabolic functions for their host. We hypothesized that hatchery raised parrs potentially recruit gut microbial communities that are different from those recruited in the wild. This study evaluated the impacts of artificial rearing on gut microbiota composition in 0+ parrs meant for stocking in two distinct Canadian rivers: Rimouski and Malbaie (Quebec, Canada). Striking differences between hatchery and wild born parrs’ gut microbiota suggest that microbiota could be another factor that could impact their survival in the targeted river, since the microbiome is narrowly related to host physiology. For instance, major commensals belonging to Enterobacteriaceae and Clostridiacea from wild parrs’ gut microbiota were substituted in captive parrs by lactic acid bacteria from the Lactobacillaceae family. Overall, captive parrs host a generalist bacterial community whereas wild parrs’ microbiota is much more specialized. This is the very first study demonstrating extensive impact of captive rearing on intestinal microbiota composition in Atlantic salmon intended for wild population stocking. Our results strongly suggest the need to implement microbial ecology concepts into conservation management of endangered salmon stocks supplemented with hatchery reared parrs.

Usage Notes:

16S_reads_salmo_salar_V3_V4_gut_microbiota.tar

16S paired end reads from Salmo salar gut microbiota and water samples.
Author(s):
Lavoie, Camille

Lavoie, Camille

Université Laval
, Courcelle, Maxime

Courcelle, Maxime

Institut des Sciences de l'Evolution de Montpellier
, Redivo, Baptiste

Redivo, Baptiste

Université Laval
, Derome, Nicolas

Derome, Nicolas

Université Laval
, and Redivo, Baptise

Redivo, Baptise

University of Namur
Source Repository:
Dryad
Publisher(s):
Dryad
Access:
Public
URL:
http://datadryad.org/stash/dataset/doi:10.5061/dryad.5ff8m0q
Publication date:
2018-06-01
Keywords:
2013, Captive Populations, Salmo salar, Aquaculture, Stocking, 16S SSU rRNA gene, Endangered species management, and metabarcoding sequencing
Identifier:
https://doi.org/10.5061/dryad.5ff8m0q

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Citation

APA Citation:
Lavoie, C., Courcelle, M., Redivo, B., Derome, N., & Redivo, B. (2018). Data from: Structural and compositional mismatch between captive and wild Atlantic salmon (Salmo salar) parrs gut microbiota highlights the relevance of integrating molecular ecology for management and conservation methods. [Data set]. Dryad. http://datadryad.org/stash/dataset/doi:10.5061/dryad.5ff8m0q
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