Kondrashov Group

Evolutionary Genomics

How did living organisms become the way we know them today? The Kondrashov lab is focused on understanding the natural world in an evolutionary context, typically focusing on studying genetic information due the abundance of DNA and protein sequence data.

Kondrashov and his group do not restrict themselves to studying specific functions or phenotypes, instead, a staple feature of their research is a focus on how functions and phenotypes change over time. Therefore, their research is inherently interdisciplinary, grounded in classical evolutionary fields of population genetics and molecular evolution while drawing from other fields, such as cell and molecular biology, bioinformatics, and biophysics. Recently, the group has become increasingly interested in the experimental assay of fitness landscapes. Combining experiments, theory, and computational biology, they query how changes in the genotype affect fitness or specific phenotypes. In the near future, they hope to expand their experimental capabilities in order to query a wider range of interesting phenotypes in a high-throughput manner.


On this site:


Team

Image of Olga Bochkareva

Olga Bochkareva

Postdoc

Image of Sofia Buyanova

Sofia Buyanova

Research Technician

Image of Louisa Gonzalez Somermeyer

Louisa Gonzalez Somermeyer

PhD Student


Image of Tomas Masson

Tomas Masson

Postdoc

Image of Aygul Minnegalieva

Aygul Minnegalieva

Research Technician

Image of Simon Rella

Simon Rella

PhD Student


Image of Stefan Riegler

Stefan Riegler

PhD Student

Image of Catalin Rusnac

Catalin Rusnac

PhD Student

Image of Natalia Ruzickova

Natalia Ruzickova

PhD Student


Image of Petr Vlasov

Petr Vlasov

Postdoc


Current Projects

Empirical fitness landscapes | Protein evolution in the context of epistasis | Population genomics of the spoon-billed sandpiper


Publications

Zhang R, Kuo R, Coulter M, Calixto CPG, Entizne JC, Guo W, Marquez Y, Milne L, Riegler S, Matsui A, Tanaka M, Harvey S, Gao Y, Wießner-Kroh T, Paniagua A, Crespi M, Denby K, Hur AB, Huq E, Jantsch M, Jarmolowski A, Koester T, Laubinger S, Li QQ, Gu L, Seki M, Staiger D, Sunkar R, Szweykowska-Kulinska Z, Tu SL, Wachter A, Waugh R, Xiong L, Zhang XN, Conesa A, Reddy ASN, Barta A, Kalyna M, Brown JWS. 2022. A high-resolution single-molecule sequencing-based Arabidopsis transcriptome using novel methods of Iso-seq analysis. Genome Biology. 23, 149. View

Gonzalez Somermeyer L, Fleiss A, Mishin AS, Bozhanova NG, Igolkina AA, Meiler J, Alaball Pujol M-E, Putintseva EV, Sarkisyan KS, Kondrashov F. 2022. Heterogeneity of the GFP fitness landscape and data-driven protein design. eLife. 11, 75842. View

Dranenko N, Tutukina M, Gelfand M, Kondrashov F, Bochkareva O. 2022. Chromosome-encoded IpaH ubiquitin ligases indicate non-human enteroinvasive Escherichia. Scientific Reports. 12, 6868. View

Knyazev S, Chhugani K, Sarwal V, Ayyala R, Singh H, Karthikeyan S, Deshpande D, Baykal PI, Comarova Z, Lu A, Porozov Y, Vasylyeva TI, Wertheim JO, Tierney BT, Chiu CY, Sun R, Wu A, Abedalthagafi MS, Pak VM, Nagaraj SH, Smith AL, Skums P, Pasaniuc B, Komissarov A, Mason CE, Bortz E, Lemey P, Kondrashov F, Beerenwinkel N, Lam TTY, Wu NC, Zelikovsky A, Knight R, Crandall KA, Mangul S. 2022. Unlocking capacities of genomics for the COVID-19 response and future pandemics. Nature Methods. 19(4), 374–380. View

Zabelkin A, Yakovleva Y, Bochkareva O, Alexeev N. 2022. PaReBrick: PArallel REarrangements and BReaks identification toolkit. Bioinformatics. 38(2), 357–363. View

View All Publications

ReX-Link: Fyodor Kondrashov


Career

since 2017 Professor, Institute of Science and Technology Austria (ISTA)
since 2012 Scientific Director of the School of Molecular and Theoretical Biology
2011 – 2017 ICREA Research Professor, Centre for Genomic Regulation, Barcelona, Spain
2008 – 2017 Junior Group Leader, Centre for Genomic Regulation, Barcelona, Spain
2008 PhD, University of California, San Diego, USA


Selected Distinctions

2017 ERC Consolidator Grant
2016 Plan Estatal, Spanish Ministry of Economics and Competitiveness
2016 Zimin Foundation Grant for School of Molecular and Theoretical Biology
2014 ERC Starting Grant
2013 Plan Nacional Grant, Spanish Ministry of Economics and Competitiveness
2012 Howard Hughes Medical Institute International Early Career Scientist Award
2011 EMBO Young Investigator Award
2010 Theodosius Dobzhansky Prize from Society for the Study of Evolution
2010 Plan Nacional Grant, Spanish Ministry of Science and Innovation
2005 National Science Foundation Graduate Research Fellow


Additional Information

Download CV

ERC Consolidator Grant website



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