Mikk Puustusmaa „On the origin of papillomavirus proteins”

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View all other units

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Date:

28.08.2019 - 14:15

On 28 August at 14:15 Mikk Puustusmaa will defend his doctoral thesis „On the origin of papillomavirus proteins”.

Supervisors:
Senior Research Fellow in Virology Aare Abroi, Institute of Technology
Professor of Bioinformatics Maido Remm, Institute of Molecular and Cell Biology

Opponent:
Senior Research Fellow Andrew E. Firth, PhD, Department of Pathology, University of Cambridge, Great Britain.

Summary:
Viruses are obligatory intracellular parasites harbouring enormous genetic and biological diversity. Viruses are the most abundant biological entities on Earth. Unlike cellular organisms, viruses have multiple evolutionary origins. While there are many hypotheses how viruses emerged, their exact origin is still unknown. The occurrence of viral protein domains in cellular organisms may give us information about the origin of viruses.

In the current thesis, papillomaviruses (PVs) were used as an example to study the potential origin of a viral family. PVs infect many mammalian species, but also birds, turtles, snakes, and fish. PVs have been of interest due to their association with various cancers. Oncogenic human papillomaviruses (HPVs) are responsible for almost all cases of cervical and anal cancers. In this thesis, various sequence collections were analysed to detect distant homologs to PV protein domains in other organisms. We found that PVs have very weak connections to cellular organisms, as only domains from the E1 replication protein had distant homologs in cellular organisms. However, our study revealed that PVs are evolutionarily related to Polyomaviridae and Parvoviridae family. Both of them shared structural homologs of capsid protein L1 and two domains of replication protein E1.

Viral genomes mainly encode protein-coding genes. Occasionally, some of these genes are fully embedded inside one another. In this thesis, over 300 PV genomes were analysed in silico to detect an embedded gene called E8, located within the E1 gene. The E8 was detected in almost all PV-s, except PVs infecting Sauropsida and fish. As these hosts are evolutionarily older than mammalian species, it confirms that E8 emerged after the divergence of mammals.

The detection of the dual-coding region E8 and other embedded elements needs specific solutions. In this thesis, a web tool called cRegions [http://bioinfo.ut.ee/cRegions/] was developed to detect overlapping genes and other embedded elements in protein-coding genes of viruses.

Location:

Riia 23b/2-105

URL:

hdl.handle.net/10062/64833

Event category:

Defence

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10 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	11 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	12 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	13 Karim Baghery „Reducing Trust and Improving Security in zk-SNARKs and Commitments” Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	14 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	15 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	16 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”
17 Ott Kangur "Nocturnal water relations and predawn water potential disequilibrium in temperate deciduous tree species" Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	18 Artur Gornischeff “Study of ionization efficiencies for derivatized compounds in LC/ESI/MS and their application for targeted analysis” Martti Vasar "Developing a bioinformatics pipeline gDAT to analyse arbuscular mycorrhizal fungal communities using sequence data from different marker regions" Kristjan Kalam "Magnetic, electric and structural properties of atomic layer deposited zirconia-based nanolaminates and mixtures" Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	19 Jelena Beljantseva "Small fine-tuners of the bacterial stringent response - a glimpse into the working principles of Small Alarmone Synthetases" Raili Allas „Supporting Teachers’ Professional Development through Guided Reflection Procedure“ Raili Allas „Supporting Teachers’ Professional Development through Guided Reflection Procedure“ Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	20 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	21 Triinu Kärbla „Assessment of text comprehension and teaching comprehension strategies in Estonian basic school“ Triinu Kärbla „Assessment of text comprehension and teaching comprehension strategies in Estonian basic school“ Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	22 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	23 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”
24 Katrin Sepp „Legal Arrangements in Estonian Law Similar to Family Trusts“ Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	25 Reet Link "Ligand binding, allosteric modulation and constitutive activity of melanocortin-4 receptors" Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	26 Larisa Ivanova “Design of active compounds against neurodegenerative diseases” Sven Karja "The Repertory of Estonian Theatre 1986-2006" Behzad Abdolmaleki „On Succinct Non-Interactive Zero-Knowledge Protocols Under Weaker Trust Assumptions“ Meelis Härmas „Impact of activated carbon microstructure and porosity on electrochemical performance of electrical double-layer capacitors” Anastasiya Fiadotava "Family Humour in Contemporary Belarus: Forms, Practices and Vernacular Reflections" Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	27 Priit Lätt “Induced 3-Lie superalgebras and their applications in superspace” Sumaira Rehman “Fast and quasi-fast solvers for weakly singular Fredholm integral equations of the second kind” Epp Kaleviste "Genetic variants revealing the role of STAT1/STAT3 signaling cytokines in immune protection and pathology" Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	28 Ruta Hecht “Novel eluent additives for LC-MS based bioanalytical methods” Max Hecht “Advances in the development of a point-of-care mass spectrometer test” Rihhard Nadel “Big slices of the unit ball in Banach spaces” Janno Siim „Non-Interactive Shuffle Arguments“ Katriin Pirk “Diametral diameter two properties, Daugavet-, and ∆-points in Banach spaces” Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	29 University of Tartu Rector’s Cup Golf Tournament 2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	30 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”
31 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”

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Mikk Puustusmaa „On the origin of papillomavirus proteins”

August