Martin Lysák, Ph.D.

2018

• Mandakova, T; Guo, XY; Ozudogru, B; Mummenhoff, K; Lysak, MA, 2018: Hybridization-facilitated genome merger and repeated chromosome fusion after 8 million years. PLANT JOURNAL 96(4), p. 748 - 760, doi: 10.1111/tpj.14065
• Mandáková, T; Lysak, MA , 2018: Healthy roots and leaves: comparative genome structure of horseradish and watercress. PLANT PHYSIOLOGY , doi: 10.1104/pp.18.01165
• Filiault, DL; Ballerini, ES; Mandáková, T; Aköz, G; Derieg, NJ; Schmutz, J; Jenkins, J; Grimwood, J; Shu, S; Hayes, RD; Hellsten, U; Barry, K; Yan, J; Mihaltcheva, S; Karafiátová, M; Nizhynska, V; Kramer, EM; Lysak, MA; Hodges, SA; Nordborg, M, 2018: The Aquilegia genome provides insight into adaptive radiation and reveals an extraordinarily polymorphic chromosome with a unique history. ELIFE
• Esmailbegi, S; Al-Shehbaz, IA; Pouch, M; Mandakova, T; Mummenhoff, K; Rahiminejad, MR; Mirtadzadini, M; Lysak, MA, 2018: Phylogeny and systematics of the tribe Thlaspideae (Brassicaceae) and the recognition of two new genera. TAXON 67(2), p. 324 - 340, doi: 10.12705/672.4
• Lysak, MA, 2018: Brassicales: an update on chromosomal evolution and ancient polyploidy. PLANT SYSTEMATICS AND EVOLUTION 304(6), p. 757 - 762, doi: 10.1007/s00606-018-1507-2
• Mandáková, T.; Lysak, M., 2018: Post-polyploid diploidization and diversification through dysploid changes. CURRENT OPINION IN PLANT BIOLOGY , doi: 10.1016/j.pbi.2018.03.001

2017

• Lee, CR; Wang, B; Mojica, JP; Mandáková, T; Prasad, KV; Goicoechea, JL; Perera, N; Hellsten, U; Hundley, HN; Johnson, J; Grimwood, J; Barry, K; Fairclough, S; Jenkins, JW; Yu, Y; Kudrna, D; Zhang, J; Talag, J; Golser, W; Ghattas, K; Schranz, ME; Wing, R; Lysak, MA; Schmutz, J; Rokhsa,r DS; Mitchell-Olds, T, 2017: Young inversion with multiple linked QTLs under selection in a hybrid zone. NATURE ECOLOGY & EVOLUTION , doi: 10.1038/s41559-017-0119
• Mandakova, T; Hlouskova, P; German, DA; Lysaka, MA, 2017: Monophyletic Origin and Evolution of the Largest Crucifer Genomes. PLANT PHYSIOLOGY 174(4), p. 2062 - 2071, doi: 10.1104/pp.17.00457
• Mandakova, T; Thorbjornsson, H; Pisupati, R; Reichardt, I; Lysak, MA; Anamthawat-Jonsson, K, 2017: Icelandic accession of Arabidopsis thaliana confirmed with cytogenetic markers and its origin inferred from whole-genome sequencing. ICELANDIC AGRICULTURAL SCIENCES 30, p. 29 - 38, doi: 10.16886/IAS.2017.03
• Mandakova, T; Li, Z; Barker, MS; Lysak, MA, 2017: Diverse genome organization following 13 independent mesopolyploid events in Brassicaceae contrasts with convergent patterns of gene retention. PLANT JOURNAL 91(1), p. 3 - 21, doi: 10.1111/tpj.13553
• Esmailbegi, S; Lysak, MA; Rahiminejad, MR; Mirtadzadini, M; Mummenhoff, K; Al-Shehbaz, IA, 2017: A taxonomic revision of the genus Pseudocamelina (Brasssicaceae, tribe Thlaspideae). PHYTOTAXA 313(1), p. 117 - 129, doi: 10.11646/phytotaxa.313.1.8
• Esmailbegi, S; Lysak, MA; Rahiminejad, MR; Mirtadzadini, M; Mummenhoff, K; Al-Shehbaz, IA, 2017: A taxonomic Revision of the genus Graellsia (Brassicaceae, tribe Thlaspideae). PHYTOTAXA 313(1), p. 105 - 116, doi: 10.11646/phytotaxa.313.1.7
• Rabanal, FA; Nizhynska, V; Mandakova, T; Novikova, PY; Lysak, MA; Mott, R; Nordborg, M, 2017: Unstable Inheritance of 45S rRNA Genes in Arabidopsis thaliana. G3-GENES GENOMES GENETICS 7(4), p. 1201 - 1209, doi: 10.1534/g3.117.040204
• Rabanal, FA; Mandakova, T; Soto-Jimenez, LM; Greenhalgh, R; Parrott, DL; Lutzmayer, S; Steffen, JG; Nizhynska, V; Mott, R; Lysak, MA; Clark, RM; Nordborg, M, 2017: Epistatic and allelic interactions control expression of ribosomal RNA gene clusters in Arabidopsis thaliana. GENOME BIOLOGY 18, doi: 10.1186/s13059-017-1209-z
• Mandakova, T; Pouch, M; Harmanova, K; Zhan, SH; Mayrose, I; Lysak, MA, 2017: Multispeed genome diploidization and diversification after an ancient allopolyploidization. MOLECULAR ECOLOGY 26(22), p. 6445 - 6462, doi: 10.1111/mec.14379
• Lysak, MA, 2017: Reconstruction of ancestral karyotypes and identification of chromosome evolution. MOLECULAR CYTOGENETICS 10

2016

• Mandakova T; Lysak MA, 2016: Painting of Arabidopsis chromosomes with chromosome-specific BAC Clones. CURRENT PROTOCOLS IN PLANT BIOLOGY , p. 359 - 371, doi: 10.1002/cppb.20022
• Mandakova, T; Gloss, AD; Whiteman, NK; Lysak, MA, 2016: How diploidization turned a tetraploid into a pseudotriploid. AMERICAN JOURNAL OF BOTANY 103(7), p. 1187 - 1196, doi: 10.3732/ajb.1500452
• Mandakova T; Lysak MA, 2016: Chromosome preparation for cytogenetic analyses in Arabidopsis. CURRENT PROTOCOLS IN PLANT BIOLOGY (1), p. 43 - 51, doi: 10.1002/cppb.20009
• Janecka, J; Lysak, MA, 2016: chromDraw: an R package for visualization of linear and circular karyotypes. CHROMOSOME RESEARCH 24(2), p. 217 - 223, doi: 10.1007/s10577-015-9513-5
• Lysak, MA; Mandakova, T; Schranz, ME, 2016: Comparative paleogenomics of crucifers: ancestral genomic blocks revisited. CURRENT OPINION IN PLANT BIOLOGY 30, p. 108 - 115, doi: 10.1016/j.pbi.2016.02.001
• Mandakova, T; Pouch, M; Harmanova, K; Lysak, MA, 2016: Polyploidy-Driven Diversification and Diploidization: The Origin of the Australian and New Zealand Crucifers. CYTOGENETIC AND GENOME RESEARCH 148(2016-03-02T00:00:00.000), p. 113 - 113
• Pospisiloaa, M; Mandakova, T; Fer, T; Zaveska, E; Sida, O; Leong-Skornickova, J; Pouch, M; Lysak, MA; Suksathan, P; Saengwirotphan, S; Newman, M, 2016: Phylogeny, Genome Size Evolution and Surprisingly Diverse Chromosome Numbers in the (Sub) Tropical Genus Globba (Zingiberaceae). CYTOGENETIC AND GENOME RESEARCH 148(2016-03-02T00:00:00.000), p. 116 - 117
• Mandakova, T; Kovarik, A; Marhold, K; Lysak, MA, 2016: Multiple Patterns of Genome Evolution in the Brassicaceae: A Lesson from the Polyploid-Rich Genus Cardamine. CYTOGENETIC AND GENOME RESEARCH 148(2016-03-02T00:00:00.000), p. 112 - 113
• Mandakova, T; Lysak, MA, 2016: Karyotype and Genome Evolution of Crucifers (Brassicaceae). CYTOGENETIC AND GENOME RESEARCH 148(2016-03-02T00:00:00.000), p. 112 - 112
• Lysak, MA, 2016: Chromosomal and Genome Evolution of Land Plants. CYTOGENETIC AND GENOME RESEARCH 148(2016-03-02T00:00:00.000), p. 102 - 102
• Geiser, C; Mandakova, T; Arrigo, N; Lysak, MA; Parisod, C, 2016: Repeated Whole-Genome Duplication, Karyotype Reshuffling, and Biased Retention of Stress-Responding Genes in Buckler Mustard. PLANT CELL 28(1), p. 17 - 27, doi: 10.1105/tpc.15.00791

2015

• Lysak, MA, 2015: Chromosome ´fusions´ in karyotype evolution. MCGRAW-HILL YEARBOOK OF SCIENCE & TECHNOLOGY 2015, p. 50 - 53
• Tan, EH; Henry, IM; Ravi, M; Bradnam, KR; Mandakova, T; Marimuthu, MP; Korf, I; Lysak, MA; Comai, L; Chan, SW, 2015: Catastrophic chromosomal restructuring during genome elimination in plants. ELIFE 4, p. e06516 - , doi: 10.7554/eLife.06516
• Kelly, LJ; Renny-Byfield; Pellicer, J; Macas, J; Novák, P; Neumann, P; Lysak, MA; Day, PD; Berger, M; Fay, MF; Nichols, RA; Leitch, AR; Leitch, IJ, 2015: Analysis of the giant genomes of Fritillaria (Liliaceae) indicates that a lack of DNA removal characterizes extreme expansions in genome size. NEW PHYTOLOGIST 208(2), p. 596 - 607, doi: 10.1111/nph.13471
• Cheng, F; Lysak, MA; Mandáková, T; Wang, X, 2015: The common ancestral genome of the Brassica species. IN: WANG X, KOLE CH (EDS.) THE BRASSICA RAPA GENOME. SPRINGER. , p. 97 - 106
• Hohmann, N; Wolf, EM; Lysak, MA; Koch, MA, 2015: A time-calibrated road map of Brassicaceae species radiation and evolutionary history. PLANT CELL 27, p. 2770 - 2784, doi: 10.1105/tpc.15.00482
• Mandakova, T; Schranz, ME; Sharbel, TF; de Jong, H; Lysak, MA, 2015: Karyotype evolution in apomictic Boechera and the origin of the aberrant chromosomes. PLANT JOURNAL 82(5), p. 785 - 793, doi: 10.1111/tpj.12849
• Willing, E-M; Rawat, V; Mandáková, T; Maumus, F; Velikkakam James, G; Nordström, KJV; Becker, C; Warthmann, N; Chica, C; Szarzynska, B; Zytnicki, M; Albani, MC; Kiefer, C; Bergonzi, S; Castaings, L; Mateos, JL; Berns, MC; Bujdoso, N; Piofczyk, T; de Lorenzo, L; Barrero-Sicilia, C; Mateos, I; Piednoël, M; Hagmann, J; Chen-Min-Tao, R; Iglesias-Fernández, R; Schuster, SC; Alonso-Blanco, C; Roudier, F; Carbonero, P; Paz-Ares, J; Davis, SJ; Pecinka, A; Quesneville, H; Colot, V; Lysak, MA; Weigel, D; Coupland, G; Schneeberger, K, 2015: Genome expansion of Arabis alpina linked with retrotransposition and reduced symmetric DNA methylation. NATURE PLANTS 1(2), p. 1 - 7, doi: 10.1038/nplants.2014.23
• Mandakova, T; Singh, V; Kramer, U; Lysak, MA, 2015: Genome Structure of the Heavy Metal Hyperaccumulator Noccaea caerulescens and Its Stability on Metalliferous and Nonmetalliferous Soils. PLANT PHYSIOLOGY 169(1), p. 674 - 689, doi: 10.1104/pp.15.00619
• Pouch, M; Mandakova, T; Hlouskova, P; Harmanova, K; Visnovska, M; Hobza, R; Safar, J; Lysak, MA, 2015: The fate of centromeres in a mesopolyploid genome of Stenopetalum nutans (Brassicaceae). CHROMOSOME RESEARCH 23(2), p. 398 - 399

2014

• Koch, M; Marhold, K; Lysak, MA, 2014: Untitled. PLANT SYSTEMATICS AND EVOLUTION 300(7), p. 1569 - 1569, doi: 10.1007/s00606-014-1124-7
• Zozomova-Lihova, J; Mandakova, T; Kovarikova, A; Muhlhausen, A; Mummenhoff, K; Lysak, MA; Kovarik, A, 2014: When fathers are instant losers: homogenization of rDNA loci in recently formed Cardamine X schulzii trigenomic allopolyploid. NEW PHYTOLOGIST 203(4), p. 1096 - 1108, doi: 10.1111/nph.12873
• Lysak, MA, 2014: Live and let die: centromere loss during evolution of plant chromosomes. NEW PHYTOLOGIST 203(4), p. 1082 - 1089, doi: 10.1111/nph.12885
• Lysak, MA; Fransz, PF, 2014: From transposon to chromosome and polyploidy. An update on cytogenetics and genomics of Arabidopsis. CHROMOSOME RESEARCH 22(2), p. 99 - 101, doi: 10.1007/s10577-014-9427-7
• Hay, AS; Pieper, B; Cooke, E; Mandakova, T; Cartolano, M; Tattersall, AD; Ioio, RD; McGowan, SJ; Barkoulas, M; Galinha, C; Rast, MI; Hofhuis, H; Then, C; Plieske, J; Ganal, M; Mott, R; Martinez-Garcia, JF; Carine, MA; Scotland, RW; Gan, XC; Filatov, DA; L, 2014: Cardamine hirsuta: a versatile genetic system for comparative studies. PLANT JOURNAL 78(1), p. 1 - 15, doi: 10.1111/tpj.12447
• Majerova, E; Mandakova, T; Vu, GTH; Fajkus, J; Lysak, MA; Fojtova, M, 2014: Chromatin features of plant telomeric sequences at terminal vs. internal positions. FRONTIERS IN PLANT SCIENCE 5, p. 593 - , doi: 10.3389/fpls.2014.00593
• Kiefer, M; Schmickl, R; German, DA; Mandakova, T; Lysak, MA; Al-Shehbaz, IA; Franzke, A; Mummenhoff, K; Stamatakis, A; Koch, MA, 2014: BrassiBase: Introduction to a Novel Knowledge Database on Brassicaceae Evolution. PLANT AND CELL PHYSIOLOGY 55(1), p. e3 - , doi: 10.1093/pcp/pct158
• Mandakova, T; Marhold, K; Lysak, MA, 2014: The widespread crucifer species Cardamine flexuosa is an allotetraploid with a conserved subgenomic structure. NEW PHYTOLOGIST 201(3), p. 982 - 992, doi: 10.1111/nph.12567
• Zozomova-Lihova, J; Krak, K; Mandakova, T; Shimizu, KK; Spaniel, S; Vit, P; Lysak, MA, 2014: Multiple hybridization events in Cardamine (Brassicaceae) during the last 150 years: revisiting a textbook example of neoallopolyploidy. ANNALS OF BOTANY 113(5), p. 817 - 830, doi: 10.1093/aob/mcu012

2013

• Cheng, F; Mandakova, T; Wu, J; Xie, Q; Lysak, MA; Wang, XW, 2013: Deciphering the Diploid Ancestral Genome of the Mesohexaploid Brassica rapa. PLANT CELL 25(5), p. 1541 - 1554, doi: 10.1105/tpc.113.110486
• Long, Q; Rabanal, FA; Meng, DZ; Huber, CD; Farlow, A; Platzer, A; Zhang, QR; Vilhjalmsson, BJ; Korte, A; Nizhynska, V; Voronin, V; Korte, P; Sedman, L; Mandakova, T; Lysak, MA; Seren, U; Hellmann, I; Nordborg, M, 2013: Massive genomic variation and strong selection in Arabidopsis thaliana lines from Sweden. NATURE GENETICS 45(8), p. 884 - U218, doi: 10.1038/ng.2678
• Slotte, T; Hazzouri, KM; Agren, JA; Koenig, D; Maumus, F; Guo, YL; Steige, K; Platts, AE; Escobar, JS; Newman, LK; Wang, W; Mandakova, T; Vello, E; Smith, LM; Henz, SR; Steffen, J; Takuno, S; Brandvain, Y; Coop, G; Andolfatto, P; Hu, TT; Blanchette, M; Cl, 2013: The Capsella rubella genome and the genomic consequences of rapid mating system evolution. NATURE GENETICS 45(7), p. 831 - U165, doi: 10.1038/ng.2669
• Haudry, A; Platts, AE; Vello, E; Hoen, DR; Leclercq, M; Williamson, RJ; Forczek, E; Joly-Lopez, Z; Steffen, JG; Hazzouri, KM; Dewar, K; Stinchcombe, JR; Schoen, DJ; Wang, XW; Schmutz, J; Town, CD; Edger, PP; Pires, JC; Schumaker, KS; Jarvis, DE; Mandakova, 2013: An atlas of over 90,000 conserved noncoding sequences provides insight into crucifer regulatory regions. NATURE GENETICS 45(8), p. 891 - U228, doi: 10.1038/ng.2684
• Mandakova, T; Kovarik, A; Zozomova-Lihova, J; Shimizu-Inatsugi, R; Shimizu, KK; Mummenhoff, K; Marhold, K; Lysak, MA, 2013: The More the Merrier: Recent Hybridization and Polyploidy in Cardamine. PLANT CELL 25(9), p. 3280 - 3295, doi: 10.1105/tpc.113.114405

2012

• Mandakova, T; Mummenhoff, K; Al-Shehbaz, IA; Mucina, L; Muhlhausee, A; Lysak, MA, 2012: Whole-genome triplication and species radiation in the southern African tribe Heliophileae (Brassicaceae). TAXON 61(5), p. 989 - 1000
• Heenan, PB; Goeke, DF; Houliston, GJ; Lysak, MA, 2012: Phylogenetic analyses of ITS and rbcL DNA sequences for sixteen genera of Australian and New Zealand Brassicaceae result in the expansion of the tribe Microlepidieae. TAXON 61(5), p. 970 - 979

2011

• Schubert, I; Lysak, MA, 2011: Interpretation of karyotype evolution should consider chromosome structural constraints. TRENDS IN GENETICS 27(6), p. 207 - 216, doi: 10.1016/j.tig.2011.03.004
• Franzke, A; Lysak, MA; Al-Shehbaz, IA; Koch, MA; Mummenhoff, K, 2011: Cabbage family affairs: the evolutionary history of Brassicaceae. TRENDS IN PLANT SCIENCE 16(2), p. 108 - 116, doi: 10.1016/j.tplants.2010.11.005
• German, DA; Grant, JR; Lysak, MA; Al-Shehbaz, IA, 2011: Molecular phylogeny and systematics of the tribe Chorisporeae (Brassicaceae). PLANT SYSTEMATICS AND EVOLUTION 294(42036), p. 65 - 86, doi: 10.1007/s00606-011-0452-0
• Ambrozova, K; Mandakova, T; Bures, P; Neumann, P; Leitch, IJ; Koblizkova, A; Macas, J; Lysak, MA, 2011: Diverse retrotransposon families and an AT-rich satellite DNA revealed in giant genomes of Fritillaria lilies. ANNALS OF BOTANY 107(2), p. 255 - 268, doi: 10.1093/aob/mcq235

2010

• Mandakova, T; Joly, S; Krzywinski, M; Mummenhoff, K; Lysak, MA, 2010: Fast Diploidization in Close Mesopolyploid Relatives of Arabidopsis. PLANT CELL 22(7), p. 2277 - 2290, doi: 10.1105/tpc.110.074526
• Lysak, MA; Mandakova, T; Lacombe, E, 2010: Reciprocal and Multi-Species Chromosome BAC Painting in Crucifers (Brassicaceae). CYTOGENETIC AND GENOME RESEARCH 129(1 III), p. 184 - 189, doi: 10.1159/000312951
• Mandakova, T; Heenan, PB; Lysak, MA, 2010: Island species radiation and karyotypic stasis in Pachycladon allopolyploids. BMC EVOLUTIONARY BIOLOGY 10, doi: 10.1186/1471-2148-10-367

2009

• Lysak, MA; Koch, MA; Beaulieu, JM; Meister, A; Leitch, IJ, 2009: The Dynamic Ups and Downs of Genome Size Evolution in Brassicaceae. MOLECULAR BIOLOGY AND EVOLUTION 26(1), p. 85 - 98
• Dierschke, T; Mandakova, T; Lysak, MA; Mummenhoff, K, 2009: A bicontinental origin of polyploid Australian/New Zealand Lepidium species (Brassicaceae)? Evidence from genomic in situ hybridization. ANNALS OF BOTANY 104(4), p. 681 - 688
• Lysak, Martin A.; Mandakova, Terezie; Schranz, M. Eric, 2009: Polyploidy events and karyotype alterations in the genome evolution of crucifers (Brassicaceae). CHROMOSOME RESEARCH 17(4), p. 553 - 553

• The role of hybridization and apomixis in evolution of the tribe Boechereae (LTAUSA17002), Ministerstvo školství, mládeže a tělovýchovy ČR, 2017 - 2020
• Organizace interfázních chromosomů a časné meiotické párování chromosomů u brukvovitých (GA18-20134S), Grantová agentura ČR, 2018 - 2020
• Evolution and function of complex plant genomes (P501/12/G090), Czech Science Foundation - Projects for promotion of excellence in basic research, 2012 - 2018
• Evoluce a funkce komplexních genomů rostlin (GAP501/12/G090), Grantová agentura ČR, 2012 - 2018
• Role polyploidie a chromozomálních změn v evoluci rostlin - tři příklady z modelové čeledi Brassicacae (GA16-10809S), Grantová agentura ČR, 2016 - 2018
• Evoluce genomu a časoprostorová diversita v tribu Arabideae (GA15-18545S), Grantová agentura ČR, 2015 - 2017
• Evoluce, diversifikace a biogeografie polyploidní čeledi Zingiberaceae: synergie fylogenomiky, cytogenomiky, geologické a klimatické historie (GA14-13541S), Grantová agentura ČR, 2014 - 2016
• Establishing Czech-Icelandic collaboration in plant cytogenomics (EHP-CZ07-MOP-1-1052014), Ministry of Finance - EEA / Norway Grants, 2015 - 2016
• Establishing Czech-Icelandic collaboration in plant cytogenomics, Ministerstvo školství, mládeže a tělovýchovy ČR, 2015 - 2016
• Role mesopolyploidie v evoluci celedi Brassicaceae (GA13-10159S), Grantová agentura ČR, 2013 - 2015
• Trendy v evoluci polyploidních komplexů: obdobné nebo odlišné příběhy u třech skupin z čeledi Brassicaceae (GAP506/12/0668), Grantová agentura ČR, 2012 - 2015
• CEITEC - Central European Institute of Technology (CZ.1.05/1.1.00/02.0068), Ministerstvo školství, mládeže a tělovýchovy ČR, 2011 - 2015
• Zaměstnáním nejlepších mladých vědců k rozvoji mezinárodní spolupráce (CZ.1.07/2.3.00/30.0037), Ministerstvo školství, mládeže a tělovýchovy ČR, 2013 - 2015
• EVOGEN - Rozvoj výzkumné excelence v oblasti evoluční cytogenomiky, epigenetiky a buněčné signalizace (CZ.1.07/2.3.00/20.0189), Ministerstvo školství, mládeže a tělovýchovy ČR, 2012 - 2015
• Evoluce genomu alopolyploidních řeřišnic (Cardamine) rozdílného fylogenetického stáří (GAP501/10/1014), Grantová agentura ČR, 2010 - 2012
• Chromosome evolution in crucifers (Brassicaceae) revealed by comparative chromosome painting (IAA601630902), Akademie věd ČR, 2009 - 2012