Development of a non-lethal method for evaluating transcriptomic endpoints in Arctic grayling (Thymallus arcticus)

Veldhoen, Nik; Beckerton, Jean E.; Mackenzie-Grieve, Jody L.; Stevenson, Mitchel R.; Truelson, Robert L.; Helbing, Caren C.

doi:10.1016/j.ecoenv.2014.03.030

Cited by 16 publications

(12 citation statements)

References 47 publications

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“…This has been already experimentally validated for individual genes (Veldhoen et al . , ), making it probable that this approach can also be applied for the analysis of the whole transcriptome.…”

Section: Introductionmentioning

confidence: 99%

Ecological transcriptomics – a non‐lethal sampling approach for endangered fire salamanders

et al. 2015

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1. The analysis of transcriptomes is well-established and increasingly affordable in studies at the interface of ecology and evolution. Expression analysis of thousands of genes in parallel reveals functions and pathways involved in relevant phenotypic differentiation. The application of such methods typically involves the sacrifice of the analysed organisms, which is potentially subject to ethical and legal constraints. As an alternative to lethal sampling, transcriptome analyses can be performed using small biopsies of dispensable tissues. 2. It has to be verified, however, to what extent such results are representative of the whole organism. Here, we use a custom microarray to compare transcriptomes of tail-clip samples with those of the remaining whole body of fire salamander larvae (Salamandra salamandra). Themicroarray was calibrated using target RNA to validate the performance of each probe. We varied water temperature to test whether the thermal response in gene expression can be characterized in both types of sample. 3. A large fraction (51%) of the differentially expressed genes showed parallel changes for both tail clips and whole bodies in response to temperature. While sets of differentially expressed were not identical, they largely belonged to the same functional categories. The gene functions thus revealed a common thermal response of larvae irrespective of the sampled tissue. This included an overexpression of mitochondrial transcripts, an expected thermal acclimatization response of ectotherms. Hence, ecological transcriptomics based on small biopsies represent an alternative to the analysis of lethally sampled tissues in situations where the sacrifice of individuals is not an option

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Section: Introductionmentioning

confidence: 99%

Ecological transcriptomics – a non‐lethal sampling approach for endangered fire salamanders

et al. 2015

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“…Consequently, mucus and VTG-like phosphoproteins are a promising non-lethal tool for assessing EDCs in wild fi sh. Importantly, a nonlethal sampling methodology is needed for minimallyinvasive environmental monitoring, particularly concerning threatened species (Rees et al 2011;Veldhoen et al 2014Veldhoen et al , 2013.…”

Section: Discussionmentioning

confidence: 99%

“…Non-lethally collected samples such as blood, urine, and biopsy tissues can be used to monitor specimens without sacrifi cing the animal, which is particularly relevant for endangered species or in studies with limited sample sizes (Fossi et al 2003). Indeed, the last decade has seen increased research in developing non-lethal sampling techniques (Cerveny et al 2016;Alves et al 2016;Madeira et al 2017;Veldhoen et al 2014).…”

Section: Introductionmentioning

confidence: 99%

Mucus phosphoproteins as an indirect measure of endocrine disruption in native small-bodied freshwater fish, exposed to wastewater treatment plant and pulp and paper mill effluents

Bahamonde¹,

Berrocal

Barra

et al. 2019

Gayana (Concepc.)

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“…Because of these limitations, using non-lethal and minimally-invasive methods has become more common practice ( Jeffries et al, 2021 ). Molecular responses to a range of contaminant exposure have been tested with many non-lethal samples, including muscle ( Veldhoen et al, 2010 ; Somerville et al, 2020 ), fins ( Andreasen et al, 2006 ; Veldhoen et al, 2013b , 2014 ; Baillon et al, 2016 ), mucus ( Arukwe and Røe, 2008 ; Bahamonde et al, 2019 ; Bulloch et al, 2020 ), blood and plasma ( Arukwe and Røe, 2008 ; Rodríguez-Jorquera et al, 2019 ), gill ( Rees et al, 2005 ; Barriga-Vallejo et al, 2017 ), and scales ( Aerts et al, 2015 ; Alves et al, 2016 ) ( Figure 1 ). However, when it comes to the intersection of contaminants, non-lethal sampling, and molecular work, there are few examples that analyze aspects of movement.…”

Section: Methods For Connecting Movement and Physiologymentioning

confidence: 99%

Non-Lethal Sampling Supports Integrative Movement Research in Freshwater Fish

et al. 2022

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Freshwater ecosystems and fishes are enormous resources for human uses and biodiversity worldwide. However, anthropogenic climate change and factors such as dams and environmental contaminants threaten these freshwater systems. One way that researchers can address conservation issues in freshwater fishes is via integrative non-lethal movement research. We review different methods for studying movement, such as with acoustic telemetry. Methods for connecting movement and physiology are then reviewed, by using non-lethal tissue biopsies to assay environmental contaminants, isotope composition, protein metabolism, and gene expression. Methods for connecting movement and genetics are reviewed as well, such as by using population genetics or quantitative genetics and genome-wide association studies. We present further considerations for collecting molecular data, the ethical foundations of non-lethal sampling, integrative approaches to research, and management decisions. Ultimately, we argue that non-lethal sampling is effective for conducting integrative, movement-oriented research in freshwater fishes. This research has the potential for addressing critical issues in freshwater systems in the future.

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Development of a non-lethal method for evaluating transcriptomic endpoints in Arctic grayling (Thymallus arcticus)

Cited by 16 publications

References 47 publications

Ecological transcriptomics – a non‐lethal sampling approach for endangered fire salamanders

Ecological transcriptomics – a non‐lethal sampling approach for endangered fire salamanders

Mucus phosphoproteins as an indirect measure of endocrine disruption in native small-bodied freshwater fish, exposed to wastewater treatment plant and pulp and paper mill effluents

Non-Lethal Sampling Supports Integrative Movement Research in Freshwater Fish

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