Dataset Information

EST-based identification of genes expressed in perch (Perca fluviatilis, L.).

ABSTRACT: Perch are promising species for freshwater aquaculture and, differently from other fish, have not yet been domesticated through artificial selection; therefore, they show a wide genetic variability that is undesirable for aquaculture. In addition to the more traditional methods of aquatic biotechnology, the most recently developed molecular biological techniques can augment the overall efficiency of aquaculture. To help these new molecular techniques find their place in the everyday management of fish farming, we should make an effort to reduce the gap in genomic resources that separates farming species from "model organisms." We performed single-pass sequencing on 1237 randomly selected clones from a perch liver cDNA expression library, 350 clones of a brain-minus-liver, and 639 clones of a liver-minus-brain subtraction library. The sequences were deposited in the NCBI Expressed Sequence Tags database (www.ncbi.nlm.nih.gov/projects/dbEST). In the three libraries we identified 108, 46, and 104 genes, respectively. EST cataloguing and profiling of perch will provide a basis for functional genomic research in this species, but will also promote studies in comparative and environmental genomics, for identifying polymorphic markers that are useful, for example, to survey the disease resistance of fish and for discovering of new molecular markers of exposure. Using these genomic resources, micro- and macroarrays can be produced that will give immediate and practical benefits in the field of aquaculture, allowing early diagnosis of the fish conditions and helping in the generation of new mechanistic data on the nature of fish responses to different farming conditions.

SUBMITTER: Rossi F

PROVIDER: S-EPMC6042039 | biostudies-literature | 2007

REPOSITORIES: biostudies-literature

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EST-based identification of genes expressed in perch (Perca fluviatilis, L.).

Rossi Federica F Chini Valentina V Cattaneo Anna Giulia AG Bernardini Giovanni G Terova Genciana G Saroglia Marco M Gornati Rosalba R

Gene expression 20070101 2

Perch are promising species for freshwater aquaculture and, differently from other fish, have not yet been domesticated through artificial selection; therefore, they show a wide genetic variability that is undesirable for aquaculture. In addition to the more traditional methods of aquatic biotechnology, the most recently developed molecular biological techniques can augment the overall efficiency of aquaculture. To help these new molecular techniques find their place in the everyday management o ...[more]

PMID: 18257394

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Project description:The domestication is an evolutionary process during which individuals will progressively adapt to an environment controlled by humans. It is accompanied by epigenetic and genetic modifications potentially leading to modifications in the transcriptomic profile in various tissues. The reproduction process is among the biological functions highly affected whatever the species and/or the way of domestication. Indeed, the reproduction success often decreases in domesticated populations. For fish, the molecular content of the eggs is crucial for the proper embryogenesis. Among these molecules the mRNA content depends directly from the gene expression and thus may reflect the genetic modifications occurring during this process. Here, we investigated the transcriptomic profile of eggs coming from females of two populations (F1 and Fx) that were reared in the same conditions and were genetically close. Our main goal was thus to determine how the domestication process may affect the reproduction success in the Eurasian perch and if it was mediated by the regulation of the transcription in the eggs. A regular follow up of the oogenesis progression showed few differences of the hormonal production between the two populations. Nevertheless, the histological study showed that the F1 females were more developed by the end of the oogenesis induction than the domesticated ones and as a result, they spawned earlier than the domesticated ones. The study of the early developmental success revealed significant differences between the populations. The microarray analysis of unfertilized eggs presented more than 350 transcripts differently expressed between the two populations. Among them, some specific genes were drastically more expressed in the domesticated (mex3B, hace1 and an uncharacterized protein) or F1 (per) populations. Our data show that the F1 population is more sensitive to the environmental conditions to advance oogenesis and reach the spawning season earlier. The transcriptomic profiles in eggs coming from the two populations were different and may lead to developmental impairments having a potential link with the domestication process. Further analyses are needed to explain these differences.

Project description:Biological invasions, particularly of fish species, significantly threaten aquatic ecosystems. Among these invaders, the introduction of the European perch (Perca fluviatilis) can have particularly detrimental effects on native communities, affecting both ecosystem functioning and human well-being. In this study, carbon and nitrogen stable isotope analysis was employed, using perch originating from five different ecosystems, to model the effects of their hypothetical introduction into İznik Lake, an economically and ecologically important, biodiversity-rich lake in northern Turkey, to ultimately assess their potential predation impact and competition with native predators. The results revealed that if perch were introduced to the community, they would - considering gape size limitations - primarily prey upon Vimba vimba and Rutilus rutilus, indicating a significant feeding pressure on these species. Furthermore, the study identified a potential overlap and competition for resources between commonly mesopredator perch and the European catfish Silurus glanis, the current top predator in the ecosystem. Both species would occupy top predatory positions, emphasizing the potential disruption of predator-prey dynamics. Our findings underscore the potential ecological repercussions of perch invasions. The selective predation on V. vimba and R. rutilus, with the latter being consumed to a lesser extent by perch, could lead to cascading effects throughout the food web, altering the community structure, and ecosystem dynamics. Additionally, the competition between perch and S. glanis raises concerns about effects on the stability and functioning of the fish community. These results highlight the need for proactive management strategies to mitigate the risk of perch introductions. Strict regulations on the movement and introduction of invasive species, along with comprehensive monitoring, are crucial for preserving native communities and maintaining the ecological integrity of freshwater ecosystems. Our study demonstrates the potential predation impact of perch on vulnerable fish species and the competition with the established apex predator, emphasizing the importance of considering the ecological consequences of perch invasions and informing management decisions to ensure the conservation and sustainability of aquatic ecosystems.

Dataset Information

EST-based identification of genes expressed in perch (Perca fluviatilis, L.).

Publications

EST-based identification of genes expressed in perch (Perca fluviatilis, L.).

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