Viruses are important components in marine ecosystems and play key roles in microbial evolution and biogechemical cycling. Further, viruses are used in disease control. We investigate these aspects of viral activity from field studies and by experimental studies of virus-host interactions under controlled conditions in the laboratory.
Marine viruses are intracellular parasites of mainly heterotrophic bacteria, and the most abundant biological components in the marine environment. At Marine Biological Section we study the ecology of marine viruses and their bacterial hosts and explore the potential of using viruses to control pathogenic bacteria.
Curriculum vitae - Mathias Middelboe
Born: October 24 1964
12.94. Ph.D. in aquatic microbial ecology, Freshwater Biological Laboratory, University of Copenhagen.
05.91 Ms. in aquatic ecology, Freshwater Biological Laboratory, University of Copenhagen.
04.19-pres. Adjunct professor at Department of Biology, University of Southern Denmark
06.15-09.15 Visiting professor at Coastal Pathogens Group, University of Exeter
02.15-pres. Professor at MBS, University of Copenhagen
04.09-02.12 Section Head, MBS, University of Copenhagen
09.10-02.15 Associate professor MSK at MBS, University of Copenhagen
07.08-02.09 Visiting associate professor at University of British Columbia, Canada
12.00-09.10 Associate professor at MBS, Univ. of Copenhagen.
02.97-12.00 Assistant professor at Marine Biological Section (MBS), Univ. of Copenhagen.
10.94-02.97 Assistant research professor at Section for Microbiology, Institute for Ecology, KVL, Copenhagen.
01.92-10.94 Ph.D. student at Freshwater Biological Laboratory, University of Copenhagen.
RESEARCH INTERESTS AND COLLABORATION
My research focuses on marine viral ecology, virus-host interactions and the role of viruses on prokaryotic diversity and evolution. My work includes experimental studies in the lab with model systems of specific viruses and hosts under controlled conditions, testing specific hypoptheses on e.g. virus –driven diversification, evolution and cycling of nutrients. This type of studies is combined with field studies of the activity, distribution and role of viruses (and prokaryotes) for carbon and nutrient cycling in environmental settings, with particular emphasis on benthic environments (shallow to deep hadal trenches) and pelagic Arctic environments. More recently, part of my activities have been directed towards exploring the potential of using viruses in disease control in aquaculture, including isolation and characterization of specific viruses, development and impact of phage-resistance as well application of phages in aquaculture settings. My research is strongly integrated in the international scientific community and done in collaboration with many Danish and international partners, as also evident from my participation in numerous (>20) international cruises and field campaigns, research stays at foreign universities, participation in international working groups etc.
PUBLICATIONS, PRESENTATIONS AND CITATIONS
- Published 104 scientific papers in international journals and books with peer review and 5 Genome Announcements.
- 60 invited presentations at national and international conferences and seminars.
- Citation record: Total citations: >5000, H-factor: 42, (ResearchGate: June 2020).
FUNDING TRACK RECORD (LAST 5 YEARS):
2013-2017: Danish Strategic Research Council: “ProAqua - Reducing antibiotic use in marine larviculture by a novel combinatory probiotic strategy” (Co-PI: 3.9 Mill DKK (Total grant: 15 Mill DKK)
2014-2017: EU-BONUS: “BLUEPRINT”. Co-PI: 2.410.000 DKK (Total grant: 30 mill DKK)
2014-2015: Carlsberg Foundation: "Prophages: Ticking time-bombs or essential resources for their bacterial hosts?" Travel grant to a 4 months visit to Uni. Of Exeter (82.000 DKK).
2015-2016 Carlsberg Foundation: "Changes in Arctic Marine Production due to melting ice in Greenland (CAMPING)" (Co-PI: 300.000 DKK)
2016-2020: ERC grant: “HADES-Benthic diagenesis and microbiology of hadal trenches”. Co-PI. (total grant: 24 mill DKK).
2016 The Danish Agency for Science, Technology and Innovation: Influence of prophages on virulence and antibiotic resistance in pathogenic Vibrios. International Network Programme (300.000 DKK)
2017-2020 EU-BONUS: FLAVOPHAGE: Bacteriophage based technology to control Flavobacterium pathogens in aquaculture” PI and coordinator. (total grant 16.5 mill DKK).
2017-2020 Danish Council for Independent Research (FNU): “Lysogenic conversion in marine Vibrio bacteria: Bacteriophage-driven dissemination of virulence factors in environmental bacterial communities”. PI and coordinator: 2.6 mill DKK)
2018 Carlsberg Foundation: “Exploring microscale virus-bacteria interactions at the cellular level” (PI: 164.000 DKK).
2018 EUopSTART: Start up grant for preparation of H2020 proposal. 75.000 DKK. 2018-2019.
2020-2025 Danish National Research Foundation: HADAL: Danish Center for Hadal Research (Co-PI: 54 mill DKK).
DEPARTMENTAL AND ADMINISTRATIVE TRACK RECORD:
Experience as coordinator of several large strategic projects involving national and international universities and industrial partners. From 2009-2012 I served 3 years as head of Marine Biological Section (>50 employees and >50 students), partly responsible for the section’s economy, staff and facilities, and responsible for directing the Section’s strategy on research, infrastructure, education and outreach. Currently I lead a research group on marine viruses
Recently completed the project manager education ”Make Innovation Happen” at INSEAD Business School i Fontainbleau, Frankrig (September 2018 – February 2019).
PEER REVIEW AND INTERNATIONAL SCHOLARLY ACTIVITY:
- Subject Editor for “Marine Biology Research” from 2005-2018, and have extensive peer review activity throughout my career (contributions to >30 international journals and >10 science foundations.
- Guest editor on a special issue on Marine viruses in the journal “Viruses”, 2016-17
- Editorial board of “Phages” (new Journal established in 2019)
SUPERVISION OF PHD STUDENTS AND POST DOCS
Supervised 7 post docs and 15 PhD students and hosted another 9 PhD students and for shorter stays (3-6 months).
TEACHING CREDENTIALS AND QUALIFICATIONS
Teaching the following courses (currently offered courses only):
Bachelor courses: Almen Økologi (General Ecology). A 200+ student course. Feltbiologi I (marine). Field course for groups of 16 students. Applied Marine Biology (30+ students, Course responsible). Generel Mikrobiologi (General Microbiology) (a 200+ student course).
Master courses: Marine Biology (~30 students), Marine Microbiology and Virology (~20 students). Advanced Bacteriology (~20 students).
2020-2025, Danish National Research Foundation: HADAL
Danish Center for Hadal Research
Co-PI. 54m DKK
2017-2020, Danish Council for Independent Research (FNU)
Lysogenic conversion in marine Vibrio bacteria: Bacteriophage-driven dissemination of virulence factors in environmental bacterial communities.
PI and coordinator. 2.6m DKK
2017-2020, EU-BONUS: FLAVOPHAGE
Bacteriophage based technology to control Flavobacterium pathogens in aquaculture”
PI and coordinator. Total grant 16.5m DKK
Panos Kalatzis (Post doc 2017-2021)
Evita Nordkute (BSc 2021)
Sandi Saric (BSc 2021)
Maja Ek Jensen (BSc 2021)
Marie Golan (BSc 2021)
Stine Sørensen (BSc 2021)
Mathias Bech Nygaard Sørensen (MSc 2021)
Weronika Kolodziejczyk (MSc 2021)
Mads Nordam (BSc 2021)
Daniel Castillo (Post doc/Assistant professor 2012-2020)
Kristina Kirkegaard Pedersen (BSc 2020)
Magnus Mulbjerg Rothgardt (BSc 2020)
Caroline Sophie Wolters Petersen (BSc 2020)
Aidas Marius Vysniauskas (Project student 2020)
Nina Frøidt Rasmussen (BSc 2019)
Andrea Roosvall (BSc 2019)
Mark Grevsen Martinet (MSc 2019)
Mathias Bech Nygaard Sørensen (BSc 2019)
Maria Marjunardóttir Dahl (MSc 2019)
Sebastian Hougaard Kristiansen (BSc 2019)
Pernille Marloth (BSc 2018)
Alexander Ravndal Højsting (MSc 2018)
Liv Dramshøj (MSc 2018)
Natasja Bøgeløv Jørgensen (MSc 2018)
Amaru Marenda Djurhuus (MSc 2018)
Susie Barchley Madsen (MSc 2018)
Jesper Juel Mauritzen (MSc 2018)
Sachia Jo Traving (Post doc, 2017-18).
Trine Marenda Markussen (Post doc, 2014-18)
Søren René Nielsen (M.Sc 2018)
Panos Kalatzis (PhD 2017)
Karoline Henriksen (M.Sc. 2017)
Sofie Boesgaard Hansen (B.Sc. 2017)
Christina Egeø Poulsen (B.Sc. 2017)
Alexander Skodsborg (B.Sc. 2017)
Mads Guldbæk (B. Sc 2017)
Jóhanna Jørgensen (M. Sc. 2017)
Regitze Renee Pedersen (B.Sc. 2017)
Stephanie Thea Hansen (B.Sc. 2017)
Lise Fredslund (M.Sc 2016)
Nana Andersen (M.Sc 2016)
Jesper Juel Mauritzen (B.Sc. 2016)
Marc Severin (B.Sc. 2016)
Mads Frederik Hansen (B.Sc 2016)
Casper Aggerholm Pedersen (B.Sc. 2015)
Amaru Djurhuus (B.Sc. 2015)
Sophia E. Bardram Nielsen (M.Sc. 2015)
Cátia Carreira (PhD 2015)
Demeng Tan (PhD 2015)
Linda Stausholm Pedersen (Lab technician 2015)
Rói Hammershaimb Christiansen (PhD 2014)
Oscar Chiang (PhD student)
Camille Johnston (M.Sc.2014)
Linda Jørgensen (PhD June 2014)
Oliver Lykke Honore (B.Sc. June 2014)
Gastón Higuera (Visting PhD student, University of Chile, 2014 and 2019)
Johan Claes Sidney Schönbeck (M.Sc. Feb 2014)
Lau Lyck Nielsen (B.Sc Febr. 2014)
Andreas Ruth (B.Sc. Jan 2014)
Amalie Dahl (M.Sc. Jan 2014)
Natela Toklikishvili (Visiting PhD student, Georgia, 2013)
Elene Didebulidze (Visting PhD student, Georgia, 2013)
Tamara Qoqashvili (Visting PhD student, Georgia, 2013)
Nanna Rørbo (M. Sc. Oct. 2013)
Helle Kjær Laigaard (M.Sc. Sept 2013)
Sophia E. Bardram Nielsen (B.Sc. June 2013)
Caroline Amalie Brunbjerg Hey (B.Sc. June 2013)
Andreas Heinrich (B.Sc. June 2013)
Isak Rasmussen (M.Sc. June 2013)
Camille Johnston (B.Sc. June 2012)
Daniel Castillo (Visiting PhD-student 2011)
Christian Lønborg (Post Doc 2010-2012)
Sachia Jo Traving M.Sc. 2011
Jon Fabricius-Dyg. M.Sc student 2011
Panos Kalatzis. Erasmus Student 2011
Thomas Bech-Thomassen. B.Sc 2011
Ann-Charlotta Flensborg. M.Sc. 2011
Susan Rasmussen. M.Sc. 2010
Emma Shelford. PhD student, visiting scholar 2010
Linda Jørgensen. M.Sc. 2010
Amalie Dahl. B.Sc. 2010
Jeanne Olsen. Lab tech 2010
Ditte Carlsen. PhD student 2009
Sachia Jo Traving. B.Sc. 2009
Torben Grotkjær. B.Sc. 2009
Sif Bertelsen. Research Assistant 2008-09
Peter C. Risager M.Sc. 2009
Rói Christiansen M.Sc. 2009
Sif Bertelsen. M.Sc. 2008
Linda Jørgensen. B.Sc. 2008
Anne Rønnest Stenholm Research assistant 2005-2007
Manuela Filippini. PhD 2007
Rasmus Torbensen. B.Sc. 2007
Jette Mundus Nikolajsen. Techn. 2007
Rasmus Aagaard Jensen. B.Sc. 2006
Peter Christian Risager. B.Sc. 2006
Milou Theut. MSc. 2006.
Maria Siem-Jørgensen. M.Sc. 2005
Lilian Carlsson. M.Sc. 2005
Anna Nørgaard. M.Sc. 2004
Jakob Haaber. M.Sc. 2004
Vinni Hansen. M.Sc. 2002
Lasse Riemann. PhD 2002.
Peter Lyck. M.Sc. 2000.
|Jóhanna Jørgensen||PhD student|
|Weronika Kolodziejczyk||Research assistant|
June 2021: Five bachelor students and one master student successfully defended their theses and finished excting projects on phage-bacteria interactions.
June 2021: New paper on bacteriophage diversity and dynamics in the Baltic Sea: Link to paper
May 2021: New paper on bacteriophages infecting the fish pathogen Flavobacterium psychrophilum: Link to paper
May 2021: New paper on the fish pathogen Pasteurella atlantica which infects salmon: Link to paper
April 2021: A new PhD student, Ling Chen, started in the Virus group on a project focusing on phage-host co-evolution
April 2021: New paper on the use of phages to control of pathogens in Rainbow trout: Link to paper
Jan. 2021: New website published for the HADAL project: HADAL site
Nov. 2020: New article on the new HADAL Center of Excellence at SDU (in Danish)
Nov. 2020: New paper on phage-biofilm interactions in the fish pathogen Flavobaterium psychrophilum demonstrate strong biocontrolling effect of bacteriophages: Link to paper.
Sept. 2020: New equipment in the Virus Lab: A MinION nanopore sequencer from Oxford Nanopore will allow us to sequence viral and bacterial genomes in the lab.
Sept. 2020: We are part of the new Center of Excellence on Deep Sea research:Sachia Jo Traving is an new post doc in the center who will exlore the ecology and diversity of viruses in deep oceanic trenches
August 2020: Dybhavet og det ydre rum - symposium på Bloom festival
Søndermarken d. 15 August
July 2020: New paper by PhD student Jesper Juel Mauritzen on a prophage containing the zot-toxin
Link to the article in "Viruses"
April 2020: New paper by PhD student Mads Frederik Hansen and post doc Demeng Tan on quorum sensing regulation of prophages
Link to article in ISME Journal
Ny forskning: Marin bakterie bruger signalstoffer til at kontrollere latent virus