Timo Sipilä

Person

Education information

Doctor of Philosophy, General Microbiology, University of Helsinki, 11.08.2010.
Title of dissertation: Plasmids and aromatic degradation in Sphingomonas for bioremediation - Aromatic ring-cleavage genes in soil and rhizosphere.

Master of Science (MSc.), Biology, University of Joensuu, 30.04.2003
Title of pro gradu: Characterization of BpMADS5 gene promoter region
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Curriculum Vitae

Expertise:

  • Modern microbiology research from bench work to publications, data analysis and grant applications.
  • Wide knowledge of molecular techniques in biological research from qPCR to 454 pyrosequencing.
  • Good team work abilities with lots of experience in supervising lab work.
  • Excellent computer skills including bioinformatics and data analysis.

Business orientated with studies in Aalto University School of Economics (18 cr. marketing, 7 cr. Biobusiness modules I, II). 

Previous professional appointments:

2011 Instructor of Sanna Vesterinen lab training 10.01-08.04

2010 Instructor of Heidi Hulkko lab training 24.05-21.08.

2009 Instructor of Miriam Kellock lab training 01.06-31.08.

2009-2011 Post doctoral researcher, University of Helsinki, Department of Agricultural Sciences,”Sustainable cultivation methods for agriculture – increasing soil crop cover and optimizing ecosystem services of soil microorganisms(SUCCESS)”                                       

2008 Instructor of Master of Science thesis, Pave Väisänen: Expression of aromatic degradation genes in Sphingobium sp. HV3 agrestis. 

2006 Part time teacher, 18.09-29.09, University of Helsinki, Department of Bio- and environmental sciences, Lab course of Gene technology.

2006 Instructor of bachelor thesis, Anna-Kaisa Keskinen: Effec of PAH compounds on microbial community with extradiol dioxygenase gene in bulk soil and in rhizosphere of two different birch clones.          

2005 Instructor of bachelor thesis, Heini Harjunen: Analysis of polycyclic aromatic compounds and their metabolites using the GC-MS.

2004-201 Graduate student in University of Helsinki, Department of biosciences. Title of dissertation: Plasmids and aromatic degradation in Sphingomonas for bioremediation - Aromatic ring-cleavage genes in soil and rhizosphere

2004 ATK Support, 20.08-31.12, Simia Oy, Technical support person.     

2003 Researcher 10.3 - 31.10, North Savo Environment Centre, Research topic: Genetic diversity of yellow lady ´s lip (Cypripedium calceolus) in North Savo.  

2002 Trainee 1.6 - 31.8, North Savo Environment Centre, Research department. 

2002 Part time teacher 28.1 - 11.2, North Karelia Polytechnic, Practical course of molecular biology.

2001 Part time teacher 29.10 - 22.11, North Karelia Polytechnic, Lectures of molecular biology.

2001 Part time teacher 10.09 - 09.10, University of Joensuu, Biochemistry exercise “Isolation of acidic phosphatase”.          

2001 Research assistant 01.06 - 31.08, University of Joensuum, Molecular biology lab of Professor Tuomas Sopanen.

2000 Research assistant 01.06 - 31.08, University of Joensuu Molecular biology lab of Professor Tuomas Sopanen.

Latest publications

  1. Genome sequencing and population genomic analyses provide insights into the adaptive landscape of silver birch

    Salojärvi, J., Smolander, O-P., Nieminen, K., Rajaraman, S., Safronov, O., Safdari, P., Lamminmäki, A., Immanen, J., Lan, T., Tanskanen, J., Rastas, P., Amiryousefi, A., Jayaprakash, B., Kammonen, J. I., Hagqvist, R., Eswaran, G., Ahonen, V. H., Serra, J. A., Asiegbu, F. O., Barajas-Lopez, J. D. D., Blande, D., Blokhina, O., Blomster, T., Broholm, S., Brosche, M., Cui, F., Dardick, C., Ehonen, S. E., Elomaa, P., Escamez, S., Fagerstedt, K. V., Fujii, H., Gauthier, A., Gollan, P. J., Halimaa, P., Heino, P. I., Himanen, K., Hollender, C., Kangasjarvi, S., Kauppinen, L., Kelleher, C. T., Kontunen-Soppela, S., Koskinen, J. P., Kovalchuk, A., Karenlampi, S. O., Kärkönen, A. K., Lim, K-J., Leppälä, J., Macpherson, L., Mikola, J., Mouhu, K., Mähönen, A. P., Niinemets, U., Oksanen, E., Overmyer, K., Palva, E. T., Pazouki, L., Pennanen, V., Puhakainen, T., Poczai, P., Possen, B. J. H. M., Punkkinen, M., Rahikainen, M. M., Rousi, M., Ruonala, R., van der Schoot, C., Shapiguzov, A., Sierla, M., Sipilä, T. P., Sutela, S., Teeri, T. H., Tervahauta, A. I., Vaattovaara, A., Vahala, J., Vetchinnikova, L., Welling, A., Wrzaczek, M., Xu, E., Paulin, L. G., Schulman, A. H., Lascoux, M., Albert, V. A., Auvinen, P., Helariutta, Y. & Kangasjarvi, J. Jun 2017 In : Nature Genetics. 49, 6, p. 904-915 12 p.

    Publication: Contribution to journalA1 Refereed journal article

  2. Isolation and characterization of resident yeasts from the phylloplane of Arabidopsis thaliana

    Wang, K., Sipilä, T. P. & Overmyer, K. L. Dec 2016 In : Scientific Reports. 6, 13 p., 39403

    Publication: Contribution to journalA1 Refereed journal article

  3. Increased transcriptome sequencing efficiency with modified Mint-2 digestion-ligation protocol

    Kammonen, J. I., Smolander, O-P., Sipilä, T., Overmyer, K., Auvinen, P. & Paulin, L. 15 May 2015 In : Analytical Biochemistry. 477, p. 38-40 3 p.

    Publication: Contribution to journalA1 Refereed journal article

View all (21) »

Latest activities

  1. 11th European conference on fungal genetics

    Sipilä, T. (Attendee)
    30 Mar 20122 Apr 2012

    Activity: Participating in or organising an eventOrganisation and participation in conferences, workshops, courses, seminars

  2. Science of the Total Environment (Journal)

    Sipilä, T. (Reviewer)
    20 Jan 2012

    Activity: Publication peer-review and editorial workPeer review of manuscripts

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Education

Fil. toht., biotieteet, biokemia

ID: 71043