Department of Diversity and Evolution of Genomes

Laboratory of Comparative Genomics

Trifonov Vladimir
Head of the Laboratory
Staff: 
thomson_logo.gif scopus_logo.jpg Trifonov Vladimir head DSc (Biology) vladatmcb [dot] nsc [dot] ru
thomson_logo.gif scopus_logo.jpg Vorobieva Nadezhda senior research fellow PhD (Biology) vornatmcb [dot] nsc [dot] ru
thomson_logo.gif scopus_logo.jpg Biltueva Larissa senior research fellow PhD (Biology) bilaratmcb [dot] nsc [dot] ru
thomson_logo.gif scopus_logo.jpg Kliver Sergei research fellow    
  scopus_logo.jpg   Pobedintseva Maria research assistant   mapobatmcb [dot] nsc [dot] ru
      Rumyantsev Aleksandr research assistant    
      Utkin Yaroslav research assistant    
      Totikov Azamat research assistant    
      Tomarovsky Andrey research assistant    
      Modina Svetlana research assistant    

Former research workers:

Andreyushkova Daria
Bishani Ali
Dementieva Polina, PhD
Kichigin Ilya
Popova Kseniya
Sarachakov Aleksandr

Research: 
  • Structure of supernumerary chromosomes
  • System of chromosomal sex determination
IMCB_DNA_Zoo.JPG

The staff of the Laboratory are among the contributors of a large international consortium DNA Zoo

Recent publications: 
  1. de Ferran V, ..., Kliver S, Serdyukova N, ..., Eizirik E. Phylogenomics of the world’s otters. (doi: 10.1016/j.cub.2022.06.036Curr Biol 32(16): 3650-3658.e4, 2022

  2. Derežanin L, Blažytė A, Dobrynin P, Duchêne DA, Grau JH, Jeon S, Kliver S, Koepfli K-P, Meneghini D, Preick M, Tomarovsky A, Totikov A, Fickel J, Förster DW. Multiple types of genomic variation contribute to adaptive traits in the mustelid subfamily Guloninae. (doi: 10.1111/mec.16443) Mol Ecol 31(10): 2898-2919, 2022

  3. Molodtseva AS, Makunin AI, Salomashkina VV, Kichigin IG, Vorobieva NV, Vasiliev SK, Shunkov MV, Tishkin AA, Grushin SP, Anijalg P, Tammeleht E, Keis M, Boeskorov GG, Mamaev N, Okhlopkov IM, Kryukov AP, Lyapunova EA, Kholodova MV, Seryodkin IV, Saarma U, Trifonov VA, Graphodatsky AS. Phylogeography of ancient and modern brown bears from eastern Eurasia.  (doi: 10.1093/biolinnean/blac009) Biol J Linn Soc 135(4): 722-733, 2022

  4. Rajičić M, Makunin A, Adnađević T, Trifonov V, Vujošević M, Blagojević J. B chromosomes’ sequences in yellow-necked mice Apodemus flavicollis — exploring the transcription. (doi: 10.3390/life12010050Life 12(1): 50, 2022

  5. Volleth M, Müller S, Heller K-G, Trifonov V, Liehr T, Yong H-S, Baker RJ, Khan FAA, Sotero-Caio CG. Cytogenetic analyses detect cryptic diversity in Megaderma spasma from Malaysia. (10.3161/15081109ACC2021.23.2.001Acta Chiropterologica 23(2): 271–284, 2021

  6. Shevchenko AK, Zhernakova DV, Malov SV, Komissarov A, Kolchanova SM, Tamazian G, Antonik A, Cherkasov N, Kliver S, Turenko A, Rotkevich M, Evsyukov I, Vlahov D, Thami PK, Gaseitsiwe S, Novitsky V, Essex M, O’Brien SJ. Genome-wide association study reveals genetic variants associated with HIV-1C infection in a Botswana study population. (doi: 10.1073/pnas.2107830118Proc Natl Acad Sci USA 118(47): e2107830118, 2021

  7. Nikitin SV, Knyazev SP, Trifonov VA, Proskuryakova AA, Shmidt YuD, Shatokhin KS, Zaporozhets VI, Bashur DS, Korshunova EV, Ermolaev VI. Unusual congenital polydactyly in mini-pigs from the breeding group of the Institute of Cytology and Genetics (Novosibirsk, Russia). (doi: 10.18699/VJ21.074Vavilov J Genet Breed 25(6): 652-660, 2021

  8. Tamazian G, Dobrynin P, Zhuk A, Zhernakova DV, Perelman PL, Serdyukova NA, Graphodatsky AS, Komissarov A, Kliver S, Cherkasov N, Scott AF, Mohr DW, Koepfli K-P, O’Brien SJ, Krasheninnikova K. Draft de novo genome assembly of the elusive jaguarundi, Puma yagouaroundi. (doi: 10.1093/jhered/esab036) J Heredity 112(6): 540-548, 2021

  9. Sharakhova M, Trifonov V. Chromosome-centric view of genome organization and evolution. (doi: 10.3390/genes12081237Genes 12(8): 1237, 2021

  10. Totikov A, Tomarovsky A, Prokopov D, Yakupova A, Bulyonkova T, Derezanin L, Rasskazov D, Wolfsberger WW, Koepfli K-P, Oleksyk TK, Kliver S. Chromosome-level genome assemblies expand capabilities of genomics for conservation biology. (doi: 10.3390/genes12091336Genes 12(9): 1336, 2021

  11. Hempel E, Westbury MV, Grau JH, Trinks A, Paijmans JLA, Kliver S, Barlow A, Mayer F, Müller J, Chen L, Koepfli K-P, Hofreiter M, Bibi F. Diversity and paleodemography of the addax (Addax nasomaculatus), a Saharan antelope on the verge of extinction. (doi: 10.3390/genes12081236Genes 12(8): 1236, 2021

  12. Romanenko SA, Smorkatcheva AV, Kovalskaya YM, Prokopov DY, Lemskaya NA, Gladkikh OL, Polikarpov IA, Serdyukova NA, Trifonov VA, Molodtseva AS, O’Brien PCM, Golenishchev FN, Ferguson-Smith MA, Graphodatsky AS. Complex structure of Lasiopodomys mandarinus vinogradovi sex chromosomes, sex determination, and intraspecific autosomal polymorphism. In: Ruiz-Herrera A, Farré-Belmonte M (eds) Mechanisms Driving Karyotype Evolution and Genomic Architecture, MDPI, Switzerland, 2021, pp 193-209 (doi: 10.3390/books978-3-0365-0157-4)

  13. Buggiotti L, Yurchenko AA, Yudin NS, Vander Jagt CJ, Vorobieva NV, Kusliy MA, Vasiliev SK, Rodionov AN, Boronetskaya OI, Zinovieva NA, Graphodatsky AS, Daetwyler HD, Larkin DM. Demographic history, adaptation, and NRAP convergent evolution at amino acid residue 100 in the world northernmost cattle from Siberia. (doi: 10.1093/molbev/msab078) Mol Biol Evol 38(8): 3093-3110, 2021

  14. Lisachov AP, Tishakova KV, Romanenko SA, Molodtseva AS, Prokopov DYu, Pereira JC, Ferguson-Smith MA, Borodin PM, Trifonov VA. Whole-chromosome fusions in the karyotype evolution of Sceloporus (Iguania, Reptilia) are more frequent in sex chromosomes than autosomes. (doi: 10.1098/rstb.2020.0099Philos Trans R Soc Lond B Biol Sci 376(1833): 20200099, 2021

  15. Karamysheva T, Romanenko S, Makunin A, Rajičić M, Bogdanov A, Trifonov V, Blagojević J, Vujošević M, Orishchenko K, Rubtsov N. New data on organization and spatial localization of B-chromosomes in cell nuclei of the yellow-necked mouse Apodemus flavicollis. (doi: 10.3390/cells10071819Cells 10(7): 1819, 2021

  16. Volleth M, Khan FAA, Müller S, Baker RJ, Arenas-Viveros D, Stevens RD, Trifonov V, Liehr T, Heller K-G, Sotero-Caio CG. Cytogenetic investigations in Bornean Rhinolophoidea revealed cryptic diversity in Rhinolophus sedulus entailing classification of Peninsular Malaysia specimens as a new species. (doi: 10.3161/15081109ACC2021.23.1.001Acta Chiropterologica 23(1): 1-20, 2021

  17. Romanenko SA, Malikov VG, Mahmoudi A, Golenishchev FN, Lemskaya NA, Pereira JC, Trifonov VA, Serdyukova NA, Ferguson-Smith MA, Aliabadian M, Graphodatsky AS. New data on comparative cytogenetics of the mouse-like hamsters (Calomyscus Thomas, 1905) from Iran and Turkmenistan. (doi: 10.3390/genes12070964Genes 12(7): 964, 2021

  18. Höhne C, Prokopov D, Kuhl H, Du K, Klopp C, Wuertz S, Trifonov V, Stöck M. The immune system of sturgeons and paddlefish (Acipenseriformes): a review with new data from a chromosome‐scale sturgeon genome. (doi: org/10.1111/raq.12542) Rev Aquacult 13(3): 1709-1729, 2021

  19. Pobedintseva MA, Reshetnikova SN, Serdyukova NA, Bishani A, Trifonov VA, Interesova EA. Genetic diversity of the prussian carp Carassius gibelio (Cyprinidae) in the middle Ob basin. (doi: 10.1134/S1022795421040116Russ J Genet 57(4): 446-452, 2021

  20. Lisachov A, Andreyushkova D, Davletshina G, Prokopov D, Romanenko S, Galkina S, Saifitdinova A, Simonov E, Borodin P, Trifonov V. Amplified fragments of an autosome-borne gene constitute a significant component of the W sex chromosome of Eremias velox (Reptilia, Lacertidae). (doi: 10.3390/genes12050779Genes 12(5): 779, 2021

  21. Bishani A, Prokopov DYu, Romanenko SA, Molodtseva AS, Perelman PL, Interesova EA, Beklemisheva VR, Graphodatsky AS, Trifonov VA. Evolution of tandemly arranged repetitive DNAs in three species of Cyprinoidei with different ploidy levels. (doi: 10.1159/000513274Cytogenet Genome Res 161: 32-42, 2021

  22. Kolchanova S, Komissarov A, Kliver S, Mazo-Vargas A, Afanador Y, Velez-Valentín J, de la Rosa RV, Castro-Marquez S, Rivera-Colon I, Majeske AJ, Wolfsberger WW, Hains T, Corvelo A, Martinez-Cruzado J-C, Glenn TC, Robinson O, Koepfli K-P, Oleksyk TK. Molecular phylogeny and evolution of Amazon parrots in the Greater Antilles. (doi: 10.3390/genes12040608Genes 12(4): 608, 2021

  23. Kusliy MA, Vorobieva NV, Tishkin AA, Makunin AI, Druzhkova AS, Trifonov VA, Iderkhangai T-O, Graphodatsky AS. Traces of late Bronze and early Iron Age Mongolian horse mitochondrial lineages in modern populations. (doi: 10.3390/genes12030412Genes 12(3): 412, 2021

  24. Evdokimov A., Popov A., Ryabchikova E., Koval O., Romanenko S., Trifonov V., Petruseva I., Lavrik I., Lavrik O. Uncovering molecular mechanisms of regulated cell death in the naked mole rat. (doi: 10.18632/aging.202577) Aging (Albany NY) 13(3): 3239-3253, 2021

  25. Pan Q, ..., Trifonov V, ..., Guiguen Y. The rise and fall of the ancient northern pike master sex determining gene. (doi: 10.7554/eLife.62858eLife 10: e62858, 2021

  26. Iannucci A, Makunin AI, Lisachov AP, Ciofi C, Stanyon R, Svartman M, Trifonov VA. Bridging the gap between vertebrate cytogenetics and genomics with single-chromosome sequencing (ChromSeq). (doi: 10.3390/genes12010124) Genes 12(1): 124, 2021

  27. Jevit MJ, Davis BW, Castaneda C, Hillhouse A, Juras R, Trifonov VA, Tibary A, Pereira JC, Ferguson-Smith MA, Raudsepp T. An 8.22 Mb assembly and annotation of the alpaca (Vicugna pacos) Y chromosome. (doi: 10.3390/genes12010105) Genes 12(1): 105, 2021

  28. Fofanov MV, Prokopov DY, Kuhl H, Schartl M, Trifonov VA. Evolution of microRNA biogenesis genes in the sterlet (Acipenser ruthenus) and other polyploid vertebrates. (doi: 10.3390/ijms21249562Int J Mol Sci 21(24): 9562, 2020

  29. Biltueva LS, Prokopov DY, Romanenko SA, Interesova EA, Schartl M, Trifonov VA. Chromosome distribution of highly conserved tandemly arranged repetitive DNAs in the Siberian sturgeon (Acipenser baerii). (doi: 10.3390/genes11111375Genes 11(11): 1375, 2020

  30. Vorobieva NV, Makunin AI, Druzhkova AS, Kusliy MA, Trifonov VA, Popova KO, Polosmak NV, Molodin VI, Vasiliev SK, Shunkov MV, Graphodatsky AS. High genetic diversity of ancient horses from the Ukok Plateau. (doi: 10.1371/journal.pone.0241997PLoS ONE 15(11): e0241997, 2020

  31. Rayko M, Komissarov A, Kwan JC, Lim-Fong G, Rhodes AC, Kliver S, Kuchur P, O’Brien SJ, Lopez JV. Draft genome of Bugula neritina, a colonial animal packing powerful symbionts and potential medicines. (doi: 10.1038/s41597-020-00684-ySci Data 7: 356, 2020

  32. Du K, … Prokopov D, Makunin A, Kichigin I, … Trifonov V, … Schartl M. The sterlet sturgeon genome sequence and the mechanisms of segmental rediploidization. (doi: 10.1038/s41559-020-1166-xNat Ecol Evol 4: 841–852, 2020

  33. Martins C, Trifonov V, Houben A. Addressing long-standing questions with advanced approaches: The 4th B chromosome conference. (doi: 10.1159/000506695Cytogenet Genome Res 160: 111-117, 2020 

  34. Lisachov AP, Giovannotti M, Pereira JC, Andreyushkova DA, Romanenko SA, Ferguson-Smith MA, Borodin PM, Trifonov VA. Chromosome painting does not support a sex chromosome turnover in Lacerta agilis Linnaeus, 1758. (doi: 10.1159/000506321Cytogenet Genome Res 160: 134-140, 2020

  35. Romanenko SA, Smorkatcheva AV, Kovalskaya YM, Prokopov DY, Lemskaya NA, Gladkikh OL, Polikarpov IA, Serdyukova NA, Trifonov VA, Molodtseva AS, O’Brien PCM, Golenishchev FN, Ferguson-Smith MA, Graphodatsky AS. Complex structure of Lasiopodomys mandarinus vinogradovi sex chromosomes, sex determination, and intraspecific autosomal polymorphism.(doi: 10.3390/genes11040374Genes 11(4): 374, 2020

Publications for previous years

Selected talks: 
  1. Trifonov V. Origin and evolution of mammalian B chromosomes. 4th B Chromosome Conference. 20-23 July 2019, Botucatu, Brazil

  2. Trifonov VA. Polyploidy and genome evolution of ray-finned fishes. International Conference “Chromosome – 2018”, 20-24 August 2018, Novosibirsk, Russia

  3. Kichigin IG. Studying anolis and gekkota sex chromosomes by isolated chromosome sequencing. International Conference “Chromosome – 2018”, 20-24 August 2018, Novosibirsk, Russia

  4. Trifonov V. Evolutionary sex chromosome translocations in amniotes. 23rd International Colloquium on Animal Cytogenetics and Genomics, June 9-12, 2018, Saint-Petersburg, Russia

  5. Trivonof V. Whole genome duplications in vertebrate evolution. 11th European Cytogenetics Conference, 1-4 July 2017, Florence, Italy

  6. Trifonov V. Evolutionary plasticity of sturgeon genomes. 21st International Chromosome Conference. 10-13 July 2016, Foz do Iguaçu, Brazil

  7. Trifonov VA. Application of molecular cytogenetic technologies for the study of sex chromosomes. Meeting intended to facilitate design of strategies to study the impact of mitonuclear incompatibilities in the diversification of animals. 14-16 October 2015, University of A Coruña, Spain

  8. Trifonov VA. Molecular composition and evolution of cervid B chromosomes. 3rd B-Chromosome Conference, 7-9 April 2014, Gatersleben, Germany

  9. Trifonov VA. Amplification of genes on mammalian B chromosomes. The 19th International Chromosome Conference. 2-6 September 2013, Bologna, Italy

  10. Biltueva LS. Karyotype evolution of Eulipotyphla. The genome homology of Sorex species revealed by comparative chromosome painting and banding data. VIth European Congress of Mammology, 19-23 July 2011, Paris, France

  11. Trifonov VA. Amplification of genes on mammalian B chromosomes. Second Conference of Brazilian Cytogenetics, 28-30 August 2011, Aguas de Lindoia, Brazil

  12. Trifonov VA. Isolation and analysis of coding sequences from B-chromosomes of the Red Fox (Vulpes vulpes) and Siberian Roe Deer (Capreolus pygargus). 2nd Congress of the International Cytogenetics and Genome Society and Digital Scientific UK Users Group Meeting, 25-29 June 2006, Canterbury, UK

  13. Biltueva L. Karyotypic relationships in the Insectivora. The 8th Meeting of the International Sorex araneus Cytogenetic Committee (ISACC). 8-12 August 2008, York, UK

Collaboration: 
  • Cambridge Resource Centre for Comparative Genomics, University of Cambridge, UK

  • National Cancer Institute at Frederick, MD, USA

  • Cornell University, Ithaca, NY, USA

  • University of North Carolina at Chapel Hill, NC, USA

  • Institut für Humangenetik, Jena, Germany

  • Julius-Maximilians-Universität Würzburg, Germany

  • Muséum national d'histoire naturelle, Paris, France

  • Università degli Studi di Firenze, Florence, Italy

  • Università Politécnica delle Marche, Ancona, Italy

  • Kunming Institute of Zoology, China

  • Zhejiang Ocean University, China

  • Universidade de São Paulo, Câmpus de Rio Claro, Brasil

  • Universidade Estadual Paulista, São Paulo, Brazi

  • Universidade Federal de Minas Gerais, Belo Horizonte, Brasil

  • Institute for Biological Research "Siniša Stanković", Belgrade, Serbia

  • Univerzita Karlova, Praha, Czech Republick