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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6 Hungarian Ceramic and Sculpture exhibition Exhibition: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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”	7 Physicum seminar: Janek Uin "MOSAiC, the largest Arctic expedition" Hungarian Ceramic and Sculpture exhibition Exhibition: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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”	8 Hungarian Ceramic and Sculpture exhibition Exhibition: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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”	9 Timmu Kreitsmann „Application of carbon isotope and rare earth elements as recorders of environmental conditions in the aftermath of the Paleoproterozoic Lomagundi-Jatuli Event“ Hungarian Ceramic and Sculpture exhibition Exhibition: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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”	10 Hungarian Ceramic and Sculpture exhibition Exhibition: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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” Full moon exploring session (in case the sky is clear)	11 Full moon exploring session (in case the sky is clear) Exhibition: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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 Kärt Pormeister “Transparency in Relation to the Data Subject in Genetic Research––an Analysis on the Example of Estonia” Exhibition: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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 Remote sensing seminar: Elmer Joandi "Hardware acceleration for scientific computing, ESA SNAP example" Exhibition: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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 Exhibition: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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 Planetarium show (in Russian) Exhibition: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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 Exhibition: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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 Physicum seminar: Manoj Kumar Sharma "Computational Imaging" Exhibition: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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 Exhibition: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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 The inaugural lecture by Mark Fišel, UT Professor in Natural Language Processing Exhibition: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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 Remote sensing seminar: Ave Ansper, "Overview of ESTHub applications" Exhibition: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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 Tiina Laansalu „The development of place names in Central Harjumaa and name transfer” Mariko Faster „The hydronyms of Hargla parish in the Estonian-Latvian border area“ Exhibition: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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 Exhibition: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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 Exhibition: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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 Kristiina Ojamaa „Epidemiology of gynecological cancer in Estonia“ Physicum seminar: Amit Kumar Mishra "Bio-inspired Methods for Sensing & Instrumentation" Exhibition: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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 Exhibition: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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 Marianne Saard „Developing Modern Cognitive Intervention Techniques in Paediatric Neurorehabilitation for Children with Acquired Brain Injury“ Exhibition: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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 Julia Maslovskaja „The importance of DNA binding and DNA breaks for AIRE-mediated transcriptional activation“ Exhibition: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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: Inna Rebane “Åland Landscapes” Veiko Klemmer Exhibition 14.11.19-19.02.2020 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” 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”

January