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Identifier |
000454825 |
Title |
Chromatin accessibility and differential gene expression data analysis of immune response in Gilthead seabream (Sparus aurata) |
Alternative Title |
Ανάλυση δεδομένων προσβασιμότητας χρωματίνης και διαφορικής γονιδιακής έκφρασης κατά την ανοσολογική απόκριση στην τσιπούρα (Sparus aurata) |
Author
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Παπαδοπούλου, Ανδρομάχη
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Thesis advisor
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Μανουσάκη, Τερέζα
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Reviewer
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Νικολάου, Χριστόφορος
Ηλιόπουλος, Ιωάννης
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Abstract |
The gilthead seabream is a widely consumed species in the Mediterranean and due to its
extensive aquaculture, the pressure on the improvement of production has increased. One
fundamental limiting factor of aquaculture production is the incidence of bacterial and
viral infections. Deeper understanding of the underlying mechanisms of the immune
response will help to prevent and treat these health problems. To this point, there have
not been many studies on genome wide profiling of the gene expression changes in
response to specific pathogens on fish. As part of the AquaFAANG project, this work
focuses on the characterization of the transcriptomic and chromatin accessibility
landscape of the immune response of gilthead seabream following Vibrio and PIC
infections in-vitro and in-vivo, by using ATAC and RNA sequencing. The bioinformatic
analysis revealed not only the overall expression patterns implicated in the immune
response, but also virus-specific (nfkbiaa, nod2, atf3, sting1, traf3, rsad2, tlr7, tnfrsf1a, irf7,
traf6, tlr3) and bacteria-specific (pglyrp5, pglyrp6) up-regulated genes in-vitro and in-vivo.
On top of the expression profiles, the association of differentially accessible peaks with
differentially expressed genes allowed us to assemble a core immune related gene
network. This comparative analysis offers new insight for identifying key processes that are
activated as part of the immune response against infection in gilthead seabream.
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Language |
English |
Subject |
ATAC-SEQ |
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Bioinformatics |
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Βιοπληροφορική |
Issue date |
2023-04-05 |
Collection
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School/Department--School of Medicine--Department of Medicine--Post-graduate theses
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Type of Work--Post-graduate theses
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Permanent Link |
https://elocus.lib.uoc.gr//dlib/f/a/4/metadata-dlib-1681969276-889796-19124.tkl
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Views |
377 |
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