Tench (Tinca tinca) high-throughput transcriptomics reveal feed dependent gut profiles

Panicz, Remigiusz; Klopp, Christophe; Igielski, Rafał; Hofsoe, Paulina; Sadowski, J.; Coller, John A.

doi:10.1016/j.aquaculture.2017.05.047

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“…Thus, a completeness of 67% (BUSCO analysis) confirmed that the assembly produced correct contigs. Indeed other fish transcriptome de novo assemblies brought results in the same order of magnitude with 70.2% completeness for the gut tench ( Tinca tinca ) [27] and 64% for 4 combined tissues of the noble crayfish ( Astacus astacus ) [28]. In addition, (1) the comparison to the phylogenetically close Atlantic salmon reference proteome, (2) the calculation of the realignment rates and (3) the mapping of an Arctic charr public raw data using a de novo assembly from short read RNA-seq data on our dataset also confirmed a high completeness of the built transcriptome.…”

Section: Discussionmentioning

confidence: 99%

Arctic charr brain transcriptome strongly affected by summer seasonal growth but only subtly by feed deprivation

Striberny

Jørgensen

Klopp³

et al. 2019

BMC Genomics

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Background The Arctic charr ( Salvelinus alpinus ) has a highly seasonal feeding cycle that comprises long periods of voluntary fasting and a short but intense feeding period during summer. Therefore, the charr represents an interesting species for studying appetite-regulating mechanisms in fish. Results In this study, we compared the brain transcriptomes of fed and feed deprived charr over a 4 weeks trial during their summer feeding season. Despite prominent differences in body condition between fed and feed deprived charr at the end of the trial, feed deprivation affected the brain transcriptome only slightly. In contrast, the transcriptome differed markedly over time in both fed and feed deprived charr, indicating strong shifts in basic cell metabolic processes possibly due to season, growth, temperature, or combinations thereof. The GO enrichment analysis revealed that many biological processes appeared to change in the same direction in both fed and feed deprived fish. In the feed deprived charr processes linked to oxygen transport and apoptosis were down- and up-regulated, respectively. Known genes encoding for appetite regulators did not respond to feed deprivation. Gene expression of Deiodinase 2 ( DIO2 ), an enzyme implicated in the regulation of seasonal processes in mammals, was lower in response to season and feed deprivation. We further found a higher expression of VGF (non-acronymic) in the feed deprived than in the fed fish. This gene encodes for a neuropeptide associated with the control of energy metabolism in mammals, and has not been studied in relation to regulation of appetite and energy homeostasis in fish. Conclusions In the Arctic charr, external and endogenous seasonal factors for example the increase in temperature and their circannual growth cycle, respectively, evoke much stronger responses in the brain than 4 weeks feed deprivation. The absence of a central hunger response in feed deprived charr give support for a strong resilience to the lack of food in this high Arctic species. DIO2 and VGF may play a role in the regulation of energy homeostasis and need to be further studied in seasonal fish. Electronic supplementary material The online version of this article (10.1186/s12864-019-5874-z) contains supplementary material, which is available to authorized users.

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Section: Discussionmentioning

confidence: 99%