Organization profile

Organisation Profile

Our group is studying plant systems biology. We develop methods for combining different omics data sources and apply them in practise to answer biological questions regarding evolution, speciation, adaptation and host-microbe interactions in plants. Currently our main focus is the Betulaceae family, where we are establishing silver birch (Betula pendula) as the model species. In addition to silver birch we are also assembling the black alder genome (Alnus glutinosa).

Our work on host-microbe interactions has so far concentrated in the analysis of human gut microbiota. It forms a relatively closed ecosystem which can be quantified with 16S based techniques and metagenomic sequencing, and the host genome is very well annotated, making it suitable for a model ecosystem. In the following years the methodological approaches developed in this work will be applied to study plant-microbe interactions.

The group is part of Finnish Center of Excellence in Molecular Biology of Primary Producers.

International and National Collaboration Publications and projects within past five years.

Profiles

Maja Ilievska

maja.ilievska@helsinki.fi

Person: UH, Teaching and research personnel

Pezhman Safdari

pezhman.safdari@helsinki.fi

Person: UH, Teaching and research personnel

Omid Safronov

omid.safronov@helsinki.fi

Person: UH, Teaching and research personnel

Jarkko Salojärvi

jarkko.salojarvi@helsinki.fi

Bioinformatics for Molecular Biology and Genomics (BMBG)
Viikki Plant Science Centre (ViPS)
Doctoral Programme in Plant Sciences - Supervisor for doctoral programme

Person: UH, Teaching and research personnel

Projects 2015 2020

1 Finished
3 Active

AngioPlast: Plastid genome evolution of angiosperms

Poczai, P., Hyvönen, J. T., Amiryousefi, A., Sablok, G. & He, X.

01/09/2017 → 30/09/2020

Project: Research project › _Research

SOLPHYLO: Phylogenetic Relationships and Organellar Genome Evolution in Solanaceae

Poczai, P., Hyvönen, J. T., Amiryousefi, A., Aubriot, X., Sablok, G., Särkinen, T., Knapp, S., Buerki, S., Syfert, M., He, X., Gagnon, E., Orejuela, A., Barboza, G., Baden, M. & van der Weerden, G. M.

Itä-Suomen yliopisto, Jyväskylän yliopisto, Uudenmaan liitto

01/09/2016 → 01/09/2020

Project: Research project › _Research

Three-year research grant / Mikael Niku 2016-2018: IMPACT OF FETAL INTESTINAL MICROBIOTA ON THE EARLY DEVELOPMENT OF THE IMMUNE SYSTEM

Niku, M. M., Pessa-Morikawa, T. I., Iivanainen, A. V., Satokari, R. M., Salojärvi, J. T., Soveri, T. T., Kahelin, M., Peltoniemi, O. A. T., Kareskoski, A. M., Alipour, M. J. & Husso, A. J.

Eläinlääketieteen tutkimuksen tukisäätiö, Suomen Kulttuurirahasto, Suomen eläinlääketieteen säätiö

01/01/2016 → 31/12/2019

Project: University of Helsinki Three-Year Research Project

AMB: The phylogeny of ragweeds (genus Ambrosia, Asteraceae)

Poczai, P., Hyvönen, J. T., Amiryousefi, A., Sablok, G. & He, X.

LUOMUS

15/03/2015 → 31/12/2018

Project: Research project › _Research

Publications 2014 2019

33 Article
2 Review Article
1 Chapter

Arabidopsis RCD1 coordinates chloroplast and mitochondrial functions through interaction with ANAC transcription factors

Shapiguzov, A., Vainonen, J., Hunter, K. A., Tossavainen, H. P. M., Tiwari, A., Järvi, S., Hellman, M. H., Aarabi, F., Alseekh, S., Wybouw, B., Van Der Kelen, K., Nikkanen, L., Krasensky-Wrzaczek, J., Sipari, N. H., Keinänen, M., Tyystjaervi, E., Rintamäki, E., De Rybel, B., Salojärvi, J. T., Van Breusegem, F. & 6 othersFernie, A. R., Brosche, M. J., Permi, P. E. I., Aro, E-M., Wrzaczek, M. A. & Kangasjärvi, J. S., 15 Feb 2019, In : eLife. 8, e43284.

Research output: Contribution to journal › Article › Scientific › peer-review

Mechanistic insights into the evolution of DUF26-containing proteins in land plants

Vaattovaara, A. F. M., Brandt, B., Rajaraman, S., Safronov, O., Veidenberg, A., Luklová, M., Kangasjärvi, J. S., Löytynoja, A. P., Hothorn, M., Salojärvi, J. T. & Wrzaczek, M. A., 8 Feb 2019, In : Communications Biology. 2, 56.

Research output: Contribution to journal › Article › Scientific › peer-review

Open Access

Sequencing the plastid genome of giant ragweed (Ambrosia trifida, Asteraceae) from a herbarium specimen

Sablok, G., Amiryousefi, A., He, X., Hyvönen, J. T. & Poczai, P., 2019, (Accepted/In press) In : Frontiers in plant science. 10, p. 218

Research output: Contribution to journal › Article › Scientific › peer-review

Open Access

Tissue-specific study across the stem reveals the chemistry and transcriptome dynamics of birch bark.

Alonso Serra, J. A., Safronov, O., Lim, K-J., Fraser-Miller, S., Blokhina, O. B., Campilho, A., Chong, S-L., Fagerstedt, K. V., Haavikko, R. H., Helariutta, Y. E., Immanen, J. J. M., Kangasjärvi, J. S., Kauppila, T. J., Lehtonen, M., Ragni, L., Rajaraman, S., Riikka-Marjaana, R., Safdari, P., Tenkanen, T. M., Yli-Kauhaluoma, J. T. & 4 othersTeeri, T. H., Strachan, C. J., Nieminen, K. & Salojärvi, J. T., 6 Feb 2019, In : New Phytologist.

Research output: Contribution to journal › Article › Scientific › peer-review

Open Access

Activities 2014 2018

11 Organisation and participation in conferences, workshops, courses, seminars
3 Oral presentation
2 Invited talk
1 Pre-examiner of doctoral thesis
2 More
- 1 Supervisor or co-supervisor of doctoral thesis
- 1 Academic visit to other institution