bioRxiv preprint doi: https://doi.org/10.1101/2020.05.26.114017; this version posted May 27, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Anopheles mosquitoes revealed new principles of 3D genome organization in insects Varvara Lukyanchikova1,2,3,4,+, Miroslav Nuriddinov3,+, Polina Belokopytova3,4, Jiangtao Liang1,2, Maarten J.M.F. Reijnders5, Livio Ruzzante5, Robert M. Waterhouse5, Zhijian Tu2,6, Igor V. Sharakhov1,2,7,*, Veniamin Fishman3,4,* 1 Department of Entomology, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061, USA 2 Fralin Life Science Institute, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061, USA 3 Institute of Cytology and Genetics SB RAS, Novosibirsk, Russia 4 Novosibirsk State University, Novosibirsk, Russia 5 Department of Ecology and Evolution, University of Lausanne, and Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland 6 Department of Biochemistry, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061, USA 7 Department of Cytology and Genetics, Tomsk State University, Tomsk, Russia + co-first authors * correspondence to I.V.S. (
[email protected]) and V.F. (
[email protected]) Abstract Chromosomes are hierarchically folded within cell nuclei into territories, domains and subdomains, but the functional importance and evolutionary dynamics of these hierarchies are poorly defined. Here, we comprehensively profiled genome organizations of five Anopheles mosquito species and showed how different levels of chromatin architecture influence contacts between genomic loci. Patterns observed on Hi-C maps are associated with known cytological structures, epigenetic profiles, and gene expression levels.