Research team

Expertise

Stunning beauty of living creatures raises an inevitable question: how is it made? According to the second law of thermodynamics, in a closed system entropy always increases irreversibly. However, in the world of constantly increasing entropy evolution builds complexity out of chaos. What are the natural laws under this process? Fortunately, all the 3.7 billion years of life development are carefully documented in every organism’s genome. It’s fair to say that every day I learn how to read. Among many fundamental and still not answered questions of evolution my favorite is: what drives sympatric speciation? Indeed, how it happens that some species diverge into hundreds of new species in ridiculously short period of time (like well-known Lake Malawi cichlids), while other species persist as one interbreeding population for millions of years (like hypervariable fungus Schizofillum communae, which is considered as one species despite 20% intraspecific diversity). Here is not an insane question to ask: why the Earth is inhabited by millions of species instead of one hypervariable fungus, like Schizofillum communae? For some species groups none of existing hypothesis give a sufficient answer. I got my master’s degree in Zoology (Lomonosov Moscow State University, Moscow, 2009) and PhD in Bioinformatics (Skoltech, Moscow, 2020) in a hope that acquired skills may help to find hidden patterns of evolution. In PhD project, titled "Positive selection in parallel evolution" I studied the repeatability of adaptive evolution at different phylogenetic distances. Positive selection is something every evolutionary biologist loves: if is a force, which creates new adaptations. However, it's widely accepted, that genome-wide parallel amino acid evolution is mainly governed by genomic constraints and epistatic interactions, not by positive selection. Analyzing a large set of Vertebrata and Invertebrata genomic dataset, I found a striking excess of genome-wide amino acid parallel evolution (let’s call it EGWAAPE) in one of the groups - Lake Baikal Amphipoda. It is a unique case, which only can be explained by positive selection, acting in many regions genome wide. But what kind of adaptation could cause this pattern, and why it is present in almost any of 350 Lake Baikal Amphipoda species? To find an answer, I joined Svardal Lab at the University of Antwerp. Apparently, Lake Baikal Amphipoda species flock belongs to a group of largest species flocks in the world, which is most similar to legendary Lake Malawi Cichlid species flock. In Svardal Lab we found evidence that previously discovered EGWAAPE pattern could be a consequence of ancient hybridization, which have facilitated explosive speciation of the group by providing much needed genetic variation. To test this hypothesis, in September 2022 I started a project, called "Does hybridization facilitate explosive speciation of Lake Baikal amphipods?", funded by MSCA postdoctoral fellowship. Besides the Lake Baikal Amphipoda project, I am involved in the study of Lake Malawi cichlids speciation, which is a major project of Svardal Lab. In collaboration with University of Cambridge we found five large chromosome inversions, which are involved in shaping Malawi Cichlid speciation and formation of new sex determination systems in young groups of species. For this project I investigated signatures of selection, which supported fixation of the inversions. I found evidence that genetic material, responsible for vision and behavior, is associated with inversions.

Does hybridization facilitate explosive speciation of Lake Baikal amphipods? (HybridSpecLBA). 01/09/2022 - 31/08/2024

Abstract

The adaptive radiation of amphipods in Lake Baikal has brought forward more than 340 species (20% of the world's freshwater amphipods), making it one of the largest species flocks after the famous African cichlid radiations, and one of the only large radiations in temperate climates. Despite this iconic status the radiation has not yet been subject to detailed genomic investigation. During my PhD I was able to demonstrate excessive amounts of parallel adaptation among the transcriptomes of species of this adaptive radiation. In this project, I will use genomic approaches to test whether the previous results could be explained by hybridisation and adaptive introgression. These processes have been shown to occur in other adaptive radiations, but their functional role in rapid diversification is still debated. My preliminary resultsindicate that hybridization between two independent lineages of Baikalian amphipods emerged in the period when fast speciation started. Furthermore, I found intriguing signals of positive selection on introgressed loci. Additional data and specific methodology developed in this project will enable me to disentangle the processes governing speciation in this group. Profiting from strong relevant experience of the host laboratory I will re-analyze available transcriptomic datasets together with newly sequenced genomes. I will map precise directions of hybridization at the phylogenetic tree, describe functional associations of introgressed loci, test selection signatures associated with introgression, and estimate the extent to which repeatable ecomorphological traits are underpinned by "reusable" elements of ancestral genomes. This research has groundbreaking potential in providing a direct test of a potential catalysing role of hybridization in fast speciation in this system

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  • Research Project