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Identifier |
000449902 |
Title |
Analysing the genomic novelty in budding yeast |
Alternative Title |
Ανάλυση της γενωμικής καινοτομίας στους βλαστικούς μύκητες |
Author
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Τάσσιος, Αιμίλιος
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Thesis advisor
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Νικολάου, Χριστόφορος
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Abstract |
While for many years evolution was thought as a tinkerer, that creates novelty through mixing
and matching basic building blocks that already existed, it has been fifteen years since the first
series of studies that documented a case of de novo gene emergence. De novo gene emergence
is a mechanism, which gives birth to new genes out of previously non coding genomic regions.
Since the first studies, there have been multiple articles regarding this specific mechanism of gene
birth in a plethora of different organisms such as plants, yeasts, primates and even humans. By
definition, this particular mechanism has the potential to be the footing for new phenotypic traits
and environmental adaptations. For example, in arctic cod an antifreeze protein that is vital for the
survival of the fish in the low temperature waters is a product of a de novo gene.
Whilst the large number of recorded de novo gene emergence cases, there is little knowledge on
the whens, wheres and hows of the mechanism. This project constitutes the largest scale computational
investigation of de novo gene emergence to date. Through exploiting a rich dataset published
by Shen et al., that contains 332 Saccharomycotina genomes, 11 outgroup genomes and various
phylogenetic data in conjunction with cutting-edge bioinformatic approaches , the taxinomically
restricted genes (T.R.Gs) of this particular were isolated. Moreover, a subset of these T.R.Gs were
characterized as de novo emerged through a thorough genomic comparison analysis. Besides the
quantification of the phenomenon, an effort was made to explain the notion behind it, by investigating
a wide variety of genomic and proteomic properties and how they might affect the evolutionary
fate of the newly emerged genes. In a recently published work, it was showed that a tendency of
intergenic sequences to form transmembrane domains more frequently than expected by chance, if
theoretically translated, exists in S.cerevisiae. Using the dataset, an attempt to investigate, explain
this observation on a subphylum level and link it to the de novo gene emergence mechanism was
made.
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Language |
English |
Subject |
Genomics |
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Molecular evolution |
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Γονιδιωματική |
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Μοριακή εξέλιξη |
Issue date |
2022-07-29 |
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/c/0/8/metadata-dlib-1657883879-894941-19954.tkl
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Views |
263 |
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