Publications

2019

Origin and evolution of diploid and allopolyploid Camelina genomes was accompanied by chromosome shattering

Mandáková T, Pouch M, Brock JR, Al-Shehbaz IA, Lysak MA

Plant Cell: (in press).

Genome invasion by hypo-methylated satellite repeat in Australian crucifer Ballantinia antipoda

Finke A, Mandáková T, Nawaz K, Vu G, Novák P, Macas J, Lysak MA, Pecinka A

Plant Journal: doi: 10.1111/tpj.14380.

The large genome size variation in the Hesperis clade was shaped by the prevalent proliferation of DNA repeats and rarer genome downsizing

Hloušková P, Mandáková T, Pouch M, Trávnícek P, Lysak MA

Annals of Botany 124: 103-120.

The story of promiscuous crucifers: origin and genome evolution of an invasive species Cardamine occulta (Brassicaceae) and its relatives

Mandáková T, Zozomová-Lihová J, Kudoh H, Zhao Y, Lysak MA, Marhold K

Annals of Botany, mcz019:

Camelina neglecta (Brassicaceae, Camelineae), a new diploid species from Europe

Brock JR, Mandáková T, Lysak MA, Al-Shehbaz IA

PhytoKeys 115: 51-37.

2018

The Aquilegia genome: adaptive radiation and an extraordinarily polymorphic chromosome with a unique history

Filiault DL, Ballerini ES, Mandáková T, Akoz G, Derieg NJ, Schmutz J, Jenkins J, Grimwood J, Shu S, Hayes RD, Hellsten U, Barry K, Yan J, Mihaltcheva S, Karafiatova M, Nizhynska V, Kramer EM, Lysak MA, Hodges SA, Nordborg M

eLife: 7:e36426.

Hybridization-facilitated genome merger and repeated chromosome fusion after eight million years

Mandáková T, Guo X, Özüdoğru B, Mummenhoff K, Lysak MA

Plant Journal 96: 748-760.

Lessons from Cleomaceae, the sister of crucifers

Bayat S, Schranz EM, Roalson EH, Hall JC

Trends in Plant Science 23: 808-821.

Morphology and genome size of the widespread weed Cardamine occulta: how it differs from cleistogamic C. kokaiensis and other closely related taxa in Europe and Asia

Šlenker M, Zozomová-Lihová J, Mandáková T, Kudoh H, Zhao Y, Soejima A, Yahara T, Skokanová K, Španiel S, Marhold K

Botanical Journal of the Linnean Society 187: 456-482.

Post-polyploid diploidization and diversification through dysploid changes

Mandáková T, Lysak MA

Current Opinion in Plant Biology 42: 55-65.

Brassicales: an update on chromosomal evolution and ancient polyploidy

Lysak MA

Plant Systematics and Evolution 304: 757-762.

Phylogeny and systematics of the tribe Thlaspideae (Brassicaceae) and the recognition of two new genera

Esmailbegi S, Al-Shehbaz IA, Pouch M, Mandáková T, Mummenhoff K, Rahiminejad MR, Mirtadzadini M, Lysak MA

Taxon 67: 324-340.

Small genome separates native and invasive populations in an ecologically important cosmopolitan grass

Pyšek P, Skálová H, Čuda J, Guo W-Y, Suda J, Doležal J, Kauzál O, Lambertini C, Lučanová M, Mandáková T, Moravcová L, Pyšková K, Brix H, Meyrson LA

Ecology 99: 79-90.

2017

Multispeed genome diploidization and diversification after an ancient allopolyploidization

Mandáková T, Pouch M, Harmanová K, Hei Zhan S, Mayrose I, Lysak MA

Molecular Ecology 26: 1-18.

Monophyletic origin and evolution of the largest crucifer genomes

Mandáková T, Hloušková P, German DA, Lysak MA

Plant Physiology 174: 2062-2071.

A taxonomic revision of the genus Pseudocamelina (Brasssicaceae, tribe Thlaspideae)

Esmailbegi S, Lysak MA, Rahiminejad MR, Mirtadzadini M, Mummenhoff K, Al-Shehbaz IA

Phytotaxa 313: 117-129.

A taxonomic revision of the genus Graellsia (Brassicaceae, tribe Thlaspideae)

Esmailbegi S, Lysak MA, Rahiminejad MR, Mirtadzadini M, Mummenhoff K, Al-Shehbaz IA

Phytotaxa 313: 105-116.

The Mediterranean: the cradle of Anthoxanthum (Poaceae) diploid diversity

Chumová Z, Záveská E, Mandáková T, Krak K, Trávníček P

Annals of Botany 120: 285-302.

Epistatic and allelic interactions control expression of ribosomal RNA gene clusters in Arabidopsis thaliana

Rabanal FA, Mandáková T, Soto-Jiménez LM, Greenhalgh R, Parrott DL, Lutzmayer S, Steffen JG, Nizhynska V, Mott R, Lysak MA, Clark RM, Nordborg M

Genome Biology 18: 75.

Young inversion with multiple linked QTLs under selection in a hybrid zone

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, Rokhsar DS, Mitchell-Olds T

Nature Ecology and Evolution 1: 0119.

Unstable Inheritance of 45S rRNA Genes in Arabidopsis thaliana

Rabanal FA, Nizhynska V, Mandáková T, Novikova PY, Lysak MA, Mott R, Nordborg M

G3 (Bethesda) 7: 1201-1209.

2016

Are B-chromosomes responsible for the extraordinary genome size variation in selected Anthoxanthum annuals?

Chumová Z, Mandáková T, Trávníček P

Plant Syst Evol 302: 731–738.

How diploidization turned a tetraploid into a pseudotriploid

Mandáková T, Gloss AD, Whiteman NK, Lysak MA

Am J Bot. 103: 1187-1196.

Painting of Arabidopsis chromosomes with chromosome-specific BAC Clones

Mandáková T, Lysak MA

Curr. Protoc. Plant Biol. 1: 359-371.

Chromosome preparation for cytogenetic analyses in Arabidopsis

Mandáková T, Lysak MA

Curr. Protoc. Plant Biol. 1: 43-51.

Comparative paleogenomics of crucifers: ancestral genomic blocks revisited

Lysak MA, Mandáková T, ME Schranz

Current Opinion in Plant Biology 30: 108-115.

chromDraw: an R package for visualization of linear and circular karyotypes

Jan Janečka, Martin A. Lysak

Chromosome Research 24: 217-223.

Ecological segregation does not drive the intricate parapatric distribution of diploid and tetraploid cytotypes of the Arabidopsis arenosa group (Brassicaceae)

Kolář F, Lučanová M, Záveská E, Fuxová G, Mandáková T, Španiel S, Senko D, Svitok M, Kolník M, Gudžinskas Z, Marhold K

Biological Journal of the Linnean Society 119: 673-688.

2015

A time-calibrated road map of Brassicaceae species radiation and evolutionary history

Hohmann N, Wolf EM, Lysak MA, Koch MA

Plant Cell 27: 2770-2784.

The common ancestral genome of the Brassica species

Cheng F, Lysak MA, Mandáková T, Wang X

In: Wang X, Kole Ch (eds.) The Brassica rapa Genome. Springer. pp.: 97-106.

Evolutionary and taxonomic implications of variation in nuclear genome size: lesson from the grass genus Anthoxanthum (Poaceae)

Chumová Z, Krejčíková J, Mandáková T, Suda J, Trávníček P

PLoS ONE 10: e0133748.

Analysis of the giant genomes of Fritillaria (Liliaceae) indicates that a lack of DNA removal characterizes extreme expansions in genome size

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

New Phytologist 208: 596-607.

Catastrophic chromosomal restructuring during genome elimination in plants

Tan EH, Henry IM, Ravi M, Bradnam KR, Mandakova T, Marimuthu MP, Korf I, Lysak MA, Comai L, Chan SW

eLife 4: e06516.

Karyotype evolution in apomictic Boechera and the origin of the aberrant chromosomes

Mandáková T, Schranz ME, Sharbel TF, de Jong H, Lysak MA

Plant Journal 82: 785–793.

Chromosome "fusions" in karyotype evolution

Lysak MA

McGraw-Hill Yearbook of Science & Technology 2015: 50-53.

Genome expansion of Arabis alpina linked with retrotransposition and reduced symmetric DNA methylation

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

Nature Plants 1: 14023.

2014

When fathers are instant loosers: homogenisation of rDNA loci in recently formed Cardamine schulzii trigenomic allopolyploid

Zozomová-Lihová J, Mandáková T, Mummenhoff K, Kovaříková A, Lysak MA, Kovařík A

New Phytologist 203: 1096-1108.

Multiple hybridization events in Cardamine (Brassicaceae) during the last 150 years: revisiting a textbook example of neoallopolyploidy

Zozomová-Lihová J, Krak K, Mandáková T, Shimizu KK, Spaniel S, Vít P, Lysak MA

Annals of Botany 113: 817-830.

Chromatin features of plant telomeric sequences at terminal vs. internal positions

Majerova E, Mandáková T, Vu GTH, Fajkus J, Lysak MA, Fojtova M

Frontiers in Plant Science 5 : 593.

BrassiBase: Introduction to a novel knowledge database on Brassicaceae evolution

Kiefer M, Schmickl R, German DA, Mandáková T, Lysak MA, Al-Shehbaz IA, Franzke A, Mummenhoff K, Stamatakis A, and Koch MA

Plant & Cell Physiology 55: e3.

Cardamine hirsuta: a versatile genetic system for comparative studies

Hay AS, Pieper B, Cooke E, Mandáková T, Cartolano M, Tattersall AD, Ioio RD, McGowan SJ, Barkoulas M, Galinha C, Rast MI, Lamb J, Hofhuis H, Gan X, Then C, Martinez-Garcia JF, Carine MA, Scotland RW, Filatov DA, Lysak MA, Tsiantis M

Plant Journal 78: 1-15.

2013

The Capsella rubella genome and the genomic consequences of rapid mating system evolution

Slotte T, Hazzouri KM, Ågren JA, Koenig D, Maumus F, Guo YL, Steige K, Platts AE, Escobar JS, Newman LK, Wang W, Mandáková T, Vello E, Smith LM, Henz SR, Steffen J, Takuno S, Brandvain Y, Coop G, Andolfatto P, Hu TT, Blanchette M, Clark RM, Quesneville H, Nordborg M, Gaut BS, Lysak MA, Jenkins J, Grimwood J, Chapman J, Prochnik S, Shu S, Rokhsar D, Schmutz J, Weigel D, Wright SI

Nature Genetics 45: 831-835.

Massive genomic variation and strong selection in Arabidopsis thaliana lines from Sweden

Long Q, Rabanal FA, Meng D, Huber CD, Farlow A, Platzer A, Zhang Q, Vilhjálmsson BJ, Korte A, Nizhynska V, Voronin V, Korte P, Sedman L, Mandáková T, Lysak MA, Seren Ü, Hellmann I, Nordborg M

Nature Genetics 45: 884-890.

Analysis of plant meiotic chromosomes by chromosome painting

Lysak MA, Mandáková T

Methods in Molecular Biology 990: 13-24.

The More the Merrier: recent hybridization and polyploidy in Cardamine

Mandakova T, Kovarik A, Zozomova-Lihova J, Shimizu-Inatsugi R, Shimizu KK, Mummenhoff K, Marhold K, Lysak MA

Plant Cell 25: 3280-3295.

Deciphering the diploid ancestral genome of the mesohexaploid Brassica rapa

Cheng F, Mandáková T, Wu J, Xie Q, Lysak MA, Wang X

Plant Cell 25: 884-890.

An atlas of over 90,000 conserved non-coding sequences yields detailed insight into crucifer regulatory regions

Haudry A, Platts AE, Vello E, Hoen D, Leclercq M, Williamson R, Forczek E, Joly-Lopez Z, Steffen J, Hazzouri KM, Dewar K, Stinchcombe JR, Schoen DJ, Wang X, Schmutz J, Town CD, Edger PP, Pires JC, Schumaker KS, Jarvis DE, Mandáková T, Lysak MA, Schranz ME, van den Bergh E, Harrison P, Moses AM, Bureau TE, Wright SI, Blanchette M

Nat Genet 45: 891-898.

2011

Diverse retrotransposon families and an AT-rich satellite DNA revealed in giant genomes of Fritillaria lilies

Ambrozová K, Mandáková T, Bures P, Neumann P, Leitch IJ, Koblízková A, Macas J, Lysak MA

Annals of Botany 107: 255-268.

Cabbage family affairs: the evolutionary history of Brassicaceae

Franzke A, Lysak MA, Al-Shehbaz IA, Koch MA, Mummenhoff K

Trends in Plant Science 16: 108-116.

Phylogeny, genome and karyotype evolution of crucifers (Brassicaceae)

Lysak MA, Koch MA

In: Bancroft I, Schmidt R (eds.): Genetics and Genomics of the Brassicaceae. Springer, New York: 1-31.

Cytogenetic studies in vegetable Brassicas

Ziolkowski PA, Lysak MA, Heneen WK

In: Sadowski J, Kole C (eds.) Genetics, Genomics and Breeding of Vegetable Brassicas. Science Publishers, Enfield, New Hampshire.: 257-303.

Molecular phylogeny and systematics of the tribe Chorisporeae (Brassicaceae)

German DA, Grant JR, Lysak MA, Al-Shehbaz IA

PLANT SYSTEMATICS AND EVOLUTION 294: 65-86.:

2010

Fast diploidization in close mesopolyploid relatives of Arabidopsis

Mandáková T, Joly S, Krzywinski M, Mummenhoff K, Lysak MA

Plant Cell 22: 2277-2290.

Island species radiation and karyotypic stasis in Pachycladon allopolyploids

Mandáková T, Heenan PB, Lysak MA

BMC Evolutionary Biology 10: 367.

Reciprocal and multi-species chromosome BAC painting in crucifers (Brassicaceae)

Lysak MA, Mandáková T, Lacombe E.

Cytogenetic and Genome Research 129: 184-189.

2009

The dynamic ups and downs of genome size evolution in Brassicaceae

Lysak MA, Koch MA, Beaulieu JM, Meister A, Leitch IJ

Molecular Biology and Evolution 26: 85-98.

Comparative cytogenetics of wild crucifers (Brassicaceae)

Lysak MA

In: Gupta SK (ed.): Wild Crucifers - Biology, Breeding and Utilization. Taylor and Francis Group, Boca Raton, FL.: 177-205.