Department of Plant Genomics

dr hab. Agnieszka Żmieńko, prof. IBCH PAS

Head of Department

akisiel@ibch.poznan.pl
Phone: 61 6653100

Research activity

Research area

The aim of our research is to better understand the structure of plant genomes, its variability and the relationship between the genotype and phenotype. In particular, we are interested in:

repeat sequences in the Arabidopsis thaliana genome (copy number variations, CNV, transposons, microsatellite repeats) and the mechanisms involved in their formation. We have created a web viewer of Arabidopsis thaliana gene copy number variations available at http://athcnv.ibch.poznan.pl/
links between CNV and variation in response to biotic and abiotic stressors
the role of non-coding RNA metabolism in maintaining genome stability
impact of epigenetic mechanisms on gene expression
structural variability of symbiotic islands in Medicago truncatula genome and its potential impact on interactions with nitrogen-fixing bacteria

Keywords

structural variation
genetic polymorphism
GWAS
transposons
biotic and abiotic stress
epigenetics

Grants

The role of transposable elements and epigenetic regulation of gene expression in Medicago truncatula root nodules development. NCN Preludium BIS 2021/43/O/NZ2/01626
Contribution of gene copy number polymorphism to the natural diversity of biotic stress responses among Arabidopsis thaliana ecotypes. NCN SONATA 2017/26/D/NZ2/01079
Variation in the MSH2 gene copy number in Arabidopsis thaliana - the structure of duplication, the extent of polymorphism among natural ecotypes and the impact on the expression of genes involved in DNA mismatch repair pathways. NCN MINIATURA 2017/01/X/NZ2/00144

Selected publications

Marszalek-Zenczak M, Satyr A, Wojciechowski P, Zenczak M, Sobieszczanska P, Brzezinski K, Iefimenko T, Figlerowicz M, Zmienko A. (2023) “Analysis of Arabidopsis non-reference accessions reveals high diversity of metabolic gene clusters and discovers new candidate cluster members”. Front Plant Sci. 14:1104303. DOI: https://doi.org/10.3389/fpls.2023.1104303
Samelak-Czajka A, Wojciechowski P, Marszalek-Zenczak M, Figlerowicz M, Zmienko A (2023) “Differences in the intraspecies copy number variation of Arabidopsis thaliana conserved and nonconserved miRNA genes”. Funct Integr Genomics 23:120. DOI: https://doi.org/10.1007/s10142-023-01043-x
Mazur R., Maszkowska J., Anielska-Mazur A., Garstka M., Polkowska-Kowalczyk L, Czajkowska A., Zmienko A., Dobrowolska G., Kulik A. (2021) “The SnRK2.10 kinase mitigates the adverse effects of salinity by protecting photosynthetic machinery.” Plant Physiol. 187:2785–2802.DOI: https://doi.org/10.1093/plphys/kiab438
Wrzesińska B., Zmienko A., Dai Vu L., De Smet I., Obrępalska-Stęplowska A. (2021) “Multiple cellular compartments engagement in Nicotiana benthamiana-peanut stunt virus-satRNA interactions revealed by systems biology approach”. Plant Cell Reports, 40:1247-1267. DOI: https://doi.org/10.1007/s00299-021-02706-4
Satyr A., Zmienko A. (2020) „Sekwencjonowanie nanoporowe i jego zastosowanie w biologii”. Postępy biochemii, 66:193-304. DOI: https://doi.org/10.18388/pb.2020_328
Zmienko A., Marszalek-Zenczak M., Wojciechowski P., Samelak-Czajka A., Luczak M., Kozlowski P., Karlowski W.M., Figlerowicz M. (2020) „AthCNV - a map of DNA copy number variations in the Arabidopsis thaliana genome”. The Plant Cell, 32:1-23. DOI: https://doi.org/10.1105/tpc.19.00640
Macioszek V.K., Gapińska M., Zmienko A., Sobczak M., Skoczowski A., Oliwa J., Kononowicz A.K. (2020) „Complexity of Brassica oleracea–Alternaria brassicicola Susceptible Interaction Reveals Downregulation of Photosynthesis at Ultrastructural, Transcriptional, and Physiological Levels”. Cells, 9:2329 DOI: https://doi.org/10.3390/cells9102329
Samelak-Czajka A., Marszalek-Zenczak M., Marcinkowska-Swojak M., Kozlowski P., Figlerowicz M., Zmienko A. (2017) „MLPA-based Analysis of Copy Number Variation in Plant Populations”. Front. Plant Sci., 8:222. DOI: https://doi.org/10.3389/fpls.2017.00222
Zmienko A., Samelak-Czajka A., Kozlowski P., Szymanska M., Figlerowicz M. (2016) „Arabidopsis thaliana population analysis reveals high plasticity of the genomic region spanning MSH2, AT3G18530 and AT3G18535 genes and provides evidence for NAHR-driven recurrent CNV events occurring in this location”. BMC Genomics, 17:893. DOI: https://doi.org/10.1186/s12864-016-3221-1
Żmieńko A., Samelak A., Kozłowski P., Figlerowicz M. (2014) „Copy number polymorphism in plant genomes”. Theor Appl Genet., 127(1): 1-18. DOI: https://doi.org/10.1007/s00122-013-2177-7
Santoni D., Swiercz A., Zmieńko A., Kasprzak M., Blazewicz M., Bertolazzi P., Felici G. (2014) “An integrated approach (CLuster Analysis Integration Method) to combine expression data and protein-protein interaction networks in agrigenomics: Application on Arabidopsis thaliana”. OMICS- a Journal of Integrative Biology, 18: 155-165. DOI: https://doi.org/10.1089/omi.2013.0050

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Department of Plant Genomics

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Department of Plant Genomics

Technical Staff:

PhD students:

Research activity

Research area

Keywords

rys. 1

Grants

Selected publications

Adres

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