Cristin-prosjekt-ID: 364392
Sist endret: 11. desember 2014 14:11
Cristin-prosjekt-ID: 364392
Sist endret: 11. desember 2014 14:11
Prosjekt

ANnOTATE: ANalysis of multifunctional genes and their paralogs in teleosts: identification, evolution and annotation through transcriptome scans and functional studies

prosjektleder

Jorge Manuel de Oliveira Fernandes
ved Fakultet for biovitenskap og akvakultur ved Nord universitet

prosjekteier / koordinerende forskningsansvarlig enhet

  • Fakultet for biovitenskap og akvakultur ved Nord universitet

Finansiering

  • Andre

Klassifisering

Vitenskapsdisipliner

Genetikk og genomikk

Tidsramme

Avsluttet
Start: 22. mars 2012 Slutt: 1. mars 2015

Beskrivelse Beskrivelse

Tittel

ANnOTATE: ANalysis of multifunctional genes and their paralogs in teleosts: identification, evolution and annotation through transcriptome scans and functional studies

Vitenskapelig sammendrag

Aim of the present proposal is to identify, characterise and annotate new or known duplicated genes acrossteleost and non-teleost fish species, to search for their paralogs gene(s) and to examine the possibility of newgene families (if more then one paralogs is found). Therefore a three level approach is suggested. The firstlevel investigates the identification of duplicated genes via transcriptome scans through main marineteleost fish orders and subsequently performs first annotations using BLASTN and BLASTX search againstNCBI, Ensemble and other fish specific databases. Further annotation like pattern search, structuralcharacterization and domain detection will be performed. The second level comprises evolutionary studiesof the identified genes throughout the selected marine fish species including phylogenetic analysis, syntenyanalysis, investigations to unravel whether genes under study or gene groups evolve at different rates, geneloss and whether Darwinian selection has occurred. The third level concerns functional studies of thecandidate gene set. It is expected to detect diversifications between paralogs genes in terms of expression and evolution. In addition extended research for selected genes will be carried out to determine possible multifunctional properties. Multifunctional properties have been shown for genes which originally wereassigned to classical functions like for example Glyceraldehyd-3-phosphate (GAPDH) or warm temperatureacclimation protein 65 (WAP65). The former is known as classical housekeeping gene. However diversstudies have shown its implementation in development and immune response [1]. Concerning WAP65, itwas primarily identified due to increased expression associated with warm temperature acclimation of goldfish and carp [2,3]. In contrast to heat-shock proteins, which were first identified after short-term adjustment,Wap65 was found to be higher expressed due to temperature acclimation (Kikuchi et al., 1993). The term“heat shock protein” was chosen based on early observations on Drosophila exposed to heat stress. Todayheat-shock proteins can be up-regulated in cells that are exposed to a broad range of stressors. Similar theterm “warm-temperature protein” was assigned to a 65-kDa protein due to its high abundance in varioustissues after warm temperate acclimation. At present several studies showed that Wap65 proteins areinvolved in development, immune response as well as stress response. In the viewpoint of evolution it is ofinterest to explore whether multifunctionality inhibits adaptability (e.g. by presence or absence of paralogs)or whether organisms profit of multifunctional genes. The outcome of ANnOTATE will highly interestresearchers studying gene evolution as well as for researchers interested in candidate genes for biomarkerlinked to the immune response, egg quality and environmental adaptation. In addition it will contributesignificantly to the appropriate annotation of fish genes taking into account the evolutionary relationships ofparalogs that have arisen in different vertebrate lineages. The enrichment of the dataset of hagfish as well as for sturgeon is of importance not only to identity the homologues genes which will contribute tophylogenetic analysis and will shed light into the original function of the transcripts but also to the hagfish and sturgeon community. In long-term aspect the outcome may be of importance also in biomedical researchas belonging to the vertebrates, several research results in teleosts species have been served as groundworkin human disease research.

prosjektdeltakere

prosjektleder
Aktiv cristin-person

Jorge Manuel de Oliveira Fernandes

  • Tilknyttet:
    Prosjektleder
    ved Fakultet for biovitenskap og akvakultur ved Nord universitet

Elena Sarropoulou

  • Tilknyttet:
    Prosjektdeltaker
    ved Hellenic Centre for Marine Research

Arne Ludwig

  • Tilknyttet:
    Prosjektdeltaker
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