Projects per year
Organization 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.
Fields of Science
- 1183 Plant biology, microbiology, virology
- 1181 Ecology, evolutionary biology
- 112 Statistics and probability
International and National Collaboration
Profiles
-
Maja Ilievska
- Organismal and Evolutionary Biology Research Programme - Doctoral Researcher
- Bioinformatics for Molecular Biology and Genomics (BMBG)
- Doctoral Programme in Plant Sciences
Person: U1 Research and teaching staff, Doctoral Researcher, UH
-
Pezhman Safdari
- Organismal and Evolutionary Biology Research Programme - Doctoral Researcher
- Bioinformatics for Molecular Biology and Genomics (BMBG)
- Doctoral Programme in Plant Sciences
Person: U1 Research and teaching staff, Doctoral Researcher, UH
-
Omid Safronov
- Organismal and Evolutionary Biology Research Programme - Doctoral Researcher
- Plant-Fungal Interactions Group
- Bioinformatics for Molecular Biology and Genomics (BMBG)
- Doctoral Programme in Plant Sciences
Person: U1 Research and teaching staff, Doctoral Researcher, UH
-
Jarkko Salojärvi
- Organismal and Evolutionary Biology Research Programme - Academy Research Fellow
- Bioinformatics for Molecular Biology and Genomics (BMBG)
- Viikki Plant Science Centre (ViPS)
- Doctoral Programme in Plant Sciences - Supervisor for doctoral programme
Person: U3 Research and teaching staff, UH
-
Aleksia Vaattovaara
- Department of Agricultural Sciences - Postdoctoral Researcher
- Organismal and Evolutionary Biology Research Programme - Postdoctoral Researcher
- Bioinformatics for Molecular Biology and Genomics (BMBG)
Person: U2 Teaching and research staff
-
TreeBio: Centre of Excellence in Tree Biology
Helariutta, Y., Kangasjärvi, J., Mähönen, A. P., Hölttä, T., Pyhäjärvi, T. S., Salojärvi, J., Nieminen, K., Shapiguzov, A., Kucukoglu Topcu, M., Sierla, M., Waszczak, C. & Vaten, A.
01/01/2022 → 31/01/2029
Project: Research project
-
Efficient nuclei isolation protocols for analysing chromatin level regulation of phenotypic variation in perennial plants
Pyhäjärvi, T. S., Hytönen, T., Vaattovaara, A. & Mähönen, A. P.
01/05/2021 → 31/12/2021
Project: Research project
-
AngioPlast: Plastid genome evolution of angiosperms
Poczai, P., Hyvönen, J., Amiryousefi, A., Sablok, G. & He, X.
01/09/2017 → 30/12/2021
Project: Research project
-
SOLPHYLO: Phylogenetic Relationships and Organellar Genome Evolution in Solanaceae
Poczai, P., Hyvönen, J., 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 → 01/09/2021
Project: Research project
-
Three-year research grant / Mikael Niku 2016-2018: IMPACT OF FETAL INTESTINAL MICROBIOTA ON THE EARLY DEVELOPMENT OF THE IMMUNE SYSTEM
Niku, M., Pessa-Morikawa, T., Iivanainen, A., Satokari, R., Salojärvi, J., Soveri, T., Kahelin, M., Peltoniemi, O., Kareskoski, M., Alipour, M. & Husso, A.
Eläinlääketieteen tutkimuksen tukisäätiö, Suomen eläinlääketieteen säätiö, Suomen Kulttuurirahasto
01/01/2016 → 31/12/2019
Project: University of Helsinki Three-Year Research Project
-
Genotype-Specific Expression and NLR Repertoire Contribute to Phenotypic Resistance Diversity in Plantago lanceolata
Safdari, P., Höckerstedt, L., Brosche, M., Salojärvi, J. & Laine, A. L., 12 Jul 2021, In: Frontiers in plant science. 12, 17 p., 675760.Research output: Contribution to journal › Article › Scientific › peer-review
Open AccessFile -
Ozone responses in Arabidopsis: beyond stomatal conductance
Morales, L. O., Shapiguzov, A., Safronov, O., Leppälä, J., Vaahtera, L., Yarmolinsky, D., Kollist, H. & Brosche, M., May 2021, In: Plant Physiology. 186, 1, p. 180-192 13 p.Research output: Contribution to journal › Article › Scientific › peer-review
Open AccessFile -
CRK2 and C-terminal Phosphorylation of NADPH Oxidase RBOHD Regulate Reactive Oxygen Species Production in Arabidopsis
Kimura, S., Hunter, K., Vaahtera, L., Tran, C., Citterico, M., Vaattovaara, A., Rokka, A., Stolze, S. C., Harzen, A., Meißner, L., Wilkens, M. M. T., Hamann, T., Toyoga, M., Nakagami, H. & Wrzaczek, M., 8 Apr 2020, In: Plant Cell. 32, 4, p. 1063–1080 18 p.Research output: Contribution to journal › Article › Scientific › peer-review
Open AccessFile -
Differences in growth and gas exchange between southern and northern provenances of silver birch (Betula pendula Roth) in northern Europe
Tenkanen, A., Keski-Saari, S., Salojarvi, J., Oksanen, E., Keinanen, M. & Kontunen-Soppela, S., Feb 2020, In: Tree Physiology. 40, 2, p. 198-214 17 p.Research output: Contribution to journal › Article › Scientific › peer-review
-
ELIMAKI Locus Is Required for Vertical Proprioceptive Response in Birch Trees
Alonso Serra, J. A., Shi, X., Peaucelle, A., Rastas, P., Bourdon, M., Immanen, J., Takahashi, J., Koivula, H., Eswaran, G., Muranen, S. J., Help-Rinta-Rahko, H., Smolander, O-P., Su, C., Safronov, O., Gerber, L., Salojärvi, J., Hagqvist, R., Mähönen, A. P., Helariutta, Y. & Nieminen, K., 24 Feb 2020, In: Current Biology. 30, 4, p. 589-599 16 p.Research output: Contribution to journal › Article › Scientific › peer-review
Open AccessFile
Activities
-
Keystone Meeting: Plant Signaling: Molecular Pathways and Network Integration
Aleksia Vaattovaara (Poster Presentation)
21 Jan 2018 → 24 Jan 2018Activity: Participating in or organising an event types › Organisation and participation in conferences, workshops, courses, seminars
-
Plant and Animal Genomes Conference XXVI
Sitaram Rajaraman (Speaker: Presenter)
13 Jan 2018Activity: Participating in or organising an event types › Organisation and participation in conferences, workshops, courses, seminars
-
Plant and Animal Genomes Conference XXVI
Sitaram Rajaraman (Poster Presentation)
15 Jan 2018Activity: Participating in or organising an event types › Organisation and participation in conferences, workshops, courses, seminars
-
Analysis of genomic sequencing data
Jarkko Salojärvi (Speaker)
11 Dec 2017 → 13 Dec 2017Activity: Talk or presentation types › Invited talk
-
The adaptive landscape of silver birch illustrated by genome sequencing and population genomic analyses
Jarkko Salojärvi (Speaker)
1 Oct 2017 → 3 Oct 2017Activity: Talk or presentation types › Oral presentation
Prizes
-
Global warming and boreal forest - a case study with the model species silver birch (Rauduskoivu)
Rajaraman, Sitaram (Recipient), 26 Oct 2017
Prize: Prizes and awards
Press / Media
-
A simple software error corrected: bittersweet chloroplast genome becomes the model
Ali Amiryousefi, Jaakko Tapani Hyvönen & Péter Poczai
17/05/2018
1 item of Media coverage
Press/Media: Press / Media
-
A simple software error corrected: bittersweet chloroplast genome will become the model for annotations and nightshade comparative genomics
Ali Amiryousefi, Jaakko Tapani Hyvönen & Péter Poczai
14/05/2018
1 item of Media coverage
Press/Media: Press / Media