Cells tightly control gene expression during development and in response to external cues. We utilize computational and experimental approaches to study one of the most interesting and complex processes in gene expression regulation, alternative splicing. We aim at a better understanding of molecular mechanisms of alternative splicing, its interaction with different post-transcriptional processes, and its role in shaping transcriptomes and proteomes under normal conditions, during stress response and in disease.
Principal Investigator: Dr. Maria Kalyna
Frontiers Research Topic e-book
Fuchs A, Riegler S, Ayatollahi Z, Cavallari N, Giono LE, Nimeth BA, Mutanwad KV, Schweighofer A, Lucyshyn D, Barta A, Petrillo E, Kalyna M. Targeting alternative splicing by RNAi: from the differential impact on splice variants to triggering artificial pre-mRNA splicing. (2021) Nucleic Acids Res 49:1133-1151
Nimeth BA, Riegler S, Kalyna M. Alternative Splicing and DNA Damage Response in Plants. (2020) Front Plant Sci 11:91.
Zhang R, Calixto CP, Marquez Y, Venhuizen P, Tzioutziou NA, Guo W, Spensley M, Entizne JC, Lewandowska D, Ten Have S, Frei Dit Frey N, Hirt H, James AB, Nimmo HG, Barta A, Kalyna M, Brown JW. A high quality Arabidopsis transcriptome for accurate transcript-level analysis of alternative splicing. (2017) Nucleic Acids Res 45:5061-5073.
Marquez Y, Hopfler M, Ayatollahi Z, Barta A, Kalyna M. Unmasking alternative splicing inside protein-coding exons defines exitrons and their role in proteome plasticity. (2015) Genome Res 25: 995-1007.
Petrillo E, Godoy Herz MA, Fuchs A, Reifer D, Fuller J, Yanovsky MJ, Simpson C, Brown JW, Barta A, Kalyna M, Kornblihtt AR. A chloroplast retrograde signal regulates nuclear alternative splicing. (2014) Science 344: 427-430.
Marquez Y, Brown JW, Simpson C, Barta A, Kalyna M. Transcriptome survey reveals increased complexity of the alternative splicing landscape in Arabidopsis. (2012) Genome Res 22:1184-1195.
COLLABORATIONS (last five years)
- Andrea Barta, Max Perutz Laboratories, Medical University of Vienna, Austria
- John WS Brown, University of Dundee, Dundee, Scotland, UK
- Paula Duque, Instituto Gulbenkian de Ciência (IGC), Oeiras, Portugal
- Heribert Hirt, King Abdullah University of Science and Technology, Thuwal, Kingdom of Saudi Arabia
- Jürgen Kleine-Vehn, University of Natural Resources and Life Sciences, Vienna, Austria
- Doris Lucyshyn, University of Natural Resources and Life Sciences, Vienna, Austria
- Marjori and Antonius JM Matzke, Institute of Plant and Microbial Biology, Taipei, Taiwan
- Akila Mayeda, Fujita Health University, Toyoake, Japan
- Ezequiel Petrillo, Universidad de Buenos Aires, Buenos Aires, Argentina
- Andreas Sommer, Next Generation Sequencing (NGS) Unit, VBCF, Vienna, Austria
- Dorothee Staiger, Universität Bielefeld, Germany
- Naeem H Syed, Canterbury Christ Church University, Canterbury, UK