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Raeymaekers, J. A. M.

Publications and source records attributed to Raeymaekers, J. A. M..

3 recordsLinked to original sources

Spleen gene expression is associated with mercury content in three-spined stickleback populations

Mercury can be very toxic at low environmental concentrations by impairing immunological, neurological, and other vital pathways in humans and animals. Aquatic ecosystems are heavily impacted by mercury pollution, with evidence of biomagnification through the food web. We examined the effect of mercury toxicity on the spleen, one of the primary immune organs in fish, in natural populations of the three-spined stickleback (Gasterosteus aculeatus Linnaeus, 1758). Our aim was to better understand adaptation to high mercury environments by investigating transcriptomic changes in the spleen. Three stickleback populations with mean Hg muscle concentrations above and three populations with mean Hg muscle concentrations below the European Biota Quality Standard of 20 ng/g wet weight were selected from the Scheldt and Meuse basin in Belgium. We then conducted RNA sequencing of the spleen tissue of 22 females from these populations. We identified 136 differentially expressed genes between individuals from populations with high and low mean mercury content. The 129 genes that were upregulated were related to the neurological system, immunological activity, hormonal regulation, and inorganic cation transporter activity. Seven genes were downregulated and were all involved in pre-mRNA splicing. The results are indicative of our ability to detect molecular alterations in natural populations that exceed an important environmental quality standard. This allows us to assess the biological relevance of such standards, offering an opportunity to better describe and manage mercury-associated environmental health risks in aquatic populations.

ecology↗

Growth parameters of the clupeids Limnothrissa miodon and Stolothrissa tanganicae in northern Lake Tanganyika (Bujumbura sub-basin)

The analysis of growth parameters in fish stocks, such as the asymptotic length (L{infty}) and the curvature parameter (K), is crucial for the estimation of production rates and total mortality rates in fisheries management. Here, we estimated the growth parameters of the clupeids Limnothrissa miodon and Stolothrissa tanganicae in the northern part of Lake Tanganyika (Bujumbura sub-basin). Both species are important targets of pelagic fisheries, but the available estimates are based on scarce size frequency data, and rarely on size as a function of age data. We provide new estimates of L{infty} and K based on size as a function of age data, with age being inferred from otolith weights. Furthermore, we reanalyze several existing length frequency datasets using advanced statistical procedures to test if growth parameters estimated by length frequency analysis are consistent with those obtained from size as a function of age. We found that length frequency analysis consistently underestimates L{infty} and overestimates K as compared to length-at-age data. We recommend that length-at-age data are collected at a much broader spatial and temporal scale than currently available to advance our understanding of the growth dynamics of these two sardine species. This will improve the assessment of stock productivity of Lake Tanganyikas pelagic fisheries and the conservation of these economically important fish species.

ecology↗

CircPrime: a web-based platform for design of specific circular RNA primers

BackgroundCircular RNAs (circRNAs) are covalently closed-loop RNAs with critical regulatory roles in cells. The tenth of thousands of circRNAs have been unveiled due to the recent advances in high throughput RNA sequencing technologies and bioinformatic tools development. At the same time, polymerase chain reaction (PCR) cross-validation for circRNAs predicted by bioinformatic tools remains an essential part of any circRNA study before publication. ResultsHere, we present the CircPrime web-based platform, providing a user-friendly solution for DNA primer design and thermocycling conditions for circRNA identification with routine PCR methods. ConclusionsUser-friendly CircPrime web platform (http://circprime.elgene.net/) works with outputs of the most popular bioinformatic predictors of circRNAs to design specific circular RNA primers. CircPrime works with circRNA coordinates and any reference genome from the National Center for Biotechnology Information database (NCBI).

bioinformatics↗