Mgr. Tomáš Fér, Ph.D.
Department of Botany, Faculty of Science, Charles University, Prague, Czech Republic

e-mail: tomas.fer@natur.cuni.cz

http://botany.natur.cuni.cz/fer

http://www.researcherid.com/rid/A-9991-2008

https://orcid.org/0000-0002-0126-3684

tel.: +420 22195 1661 (office), +420 22195 1630 (DNA laboratory)

PERSONAL DATA:
Born: 7.6.1976, Podborany, Czech Republic
Nationality: Czech
Marital status: married

Language knowledge: English; German (ZMP); Russian (passively)

SCIENTIFIC AND ACADEMIC DEGREES:

Ph.D. (2008) - Department of Botany, Charles University, Prague

Mgr. (MSc.) (2000) - Department of Botany, Charles University, Prague

Bc. (BSc.) (1996) - Department of Botany, Charles University, Prague

RESEARCH INTERESTS:

· evolution and diversity of polyploid complexes

· phylogenomics and genome size evolution in Zingiberaceae/Zingiberales

· post-glacial plant migration (phylogeography)

· dispersal of plants through water (hydrochory)

· use of molecular methods in botany (AFLP, microsatellites, NGS, Hyb-Seq)

· target enrichment data analysis and aplications

· management of DNA laboratory

STUDY AND PRACTISE:

Education and jobs:

since 2009: head of the Division of Higher Plants at the Department of Botany

since 2003: head of the DNA laboratory at the Department of Botany

since 2002: Department of Botany, Charles University, Prague (full-time job)

2000 - 2008: PhD. study at the Department of Botany, Charles University (PhD. thesis: "Study of plant dispersal in river corridors using molecular markers")

1996 - 2000: MSc. study in Geobotany at the Department of Botany, Charles University (MSc. Thesis "Dispersal of generative diaspores of selected water and littoral plant species"

1994 - 1996: BSc. study in Biology at the Faculty of Science, Charles University (BSc. Thesis "Hydrochory of water plants")

1990 - 1994: grammar school, Kutná Hora, Czech Republic

1982 - 1990: elementary school, Podbořany & Kutná Hora, Czech Republic

Botanical trips abroad:

Austria (2002), Canary Islands (2004, 2005, 2006), China (2017), Danmark (2010), Germany (1999), India (2004), Italy (2005), Malaysia (2011), Peru (2008), Romania (1996, 2000), Slovak Republic (1995, 1996, 2001, 2005), South Africa (2011), Spain (2005), Sweden (2010), Thailand (2011, 2013, 2015), Ukraine (1997), Venezuela (2007)

Scientific meetings:

2024: XX International Botanical Congress (Madrid, Spain) – talk, 2 posters

2018: 8th International Zingiberales Symposium (Singapore) – talk, 3 posters

2017: XIX International Botanical Congress (Shenzhen, China) – talk, 1 poster

2015: 7th International Symposium on the family Zingiberaceae (Chiang Mai, Thailand) – talk, 2 posters

2013: Biogeography of the Carpathians: Evolution of Biodiversity in a Spatiotemporal Context (Krakow) – talk, poster

2013: BioSyst.EU 2013 Global systematics! (Vienna, Austria) – talk, 3 posters

2012: 6th International Symposium on the family Zingiberaceae (Calicut, India) – 2 posters

2012: International Conference on Polyploidy, Hybridization, and Biodiversity (Průhonice near Prague, Czech Republic) – 3 poster

2012: 15. Treffen der Österreichischen Botanikerinen und Botaniker (Innsbruck, Austria) – poster

2011: BioSystematics 2011(Berlin, Germany) – 2 posters

2008: 10th Symposium of the International Organization of Plant Biosystematists (Vysoké Tatry, Slovakia) – poster

2008: PopBio2008. Plant Population Biology for the coming decade. 21th Annual Meeting Plant Population Biology Section (Gesellschaft für Ökologie) (Luxembourg) – poster

2006: 4th International Symposium on the Family Zingiberaceae (Singapore) – poster

2006: PopBio2006. 19th Annual Meeting Plant Population Biology Section (Gesellschaft für Ökologie) (Halle, Germany) – 2 posters

2006: International Symposium on Aquatic Vascular Plants: 25 Years After (Brussels, Belgium) – talk

2005: International Botanical Congress (Vienna, Austria) – 2 posters

2004: Eco-complexity and dynamics of the cultural landscape. Gesellschaft für Ökologie, 34th Annual conference (Giessen, Germany) – talk

2003: POP2003. Allocation, Plasticity and Allometry. 16th Annual Meeting Plant Population Biology Section (Gesellschaft für Ökologie) (Copenhagen, Denmark) – talk

2003: Restoration of river valleys (Kiel, Germany) – talk, poster

2002: 10. Österreichische Botanikertreffen (Gumpenstein, Austria) – poster

2002: Metapopulation Dynamics and Landscape Fragmentation (Pruhonice, Czech Republic) – poster + co-organisation of the conference (excursions)

Stays abroad:

2016: National Museum of Natural History, Smithsonian Institution (Washington DC, USA) – 4 months (Smithsonian Fellowship)

2001, 2002, 2003, 2005: Department of Evolution and systematics of higher plants, University of Vienna (Austria) – 4, 1, 2, and 1 months, respectively (AKTION)

1999: Albrecht-von-Haller-Institut für Pflanzenwissenschaften der Georg-August-Universität (Göttingen, Germany) – 5 months (ERASMUS)

TEACHING ACTIVITIES:

Lectures:

since 2023: Clonal plants (2 lessons within the course) (MB120P180)

since 2022: Target enrichment for plant systematics - methodological workshop (MB120C117)

since 2017: Biosystematics I (1 lesson within the course) (MB120P167)

since 2017: Phylogenetic methods (2 lessons within the course) (MB120P83)

since 2010: Introduction to study of plant evolution and diversity (2 lessons within the course) (MB120P153)

since 2009: Diploma thesis seminar (vascular plants) I, II (MB120S01, MB120S02)

since 2003: Use of molecular markers in plant systematics and population biology (MB120P44)

since 2004: Current research in botany and ecology (1 lesson within the course) (MB120P99)

Practices:

since 2013: Advanced methods in DNA sequence and multilocus data analyses (MB120P143)

since 2008: Phylogenetic methods (MB120P83) - practical part

since 2006: Molecular markers in systematics and plant population biology II (MB120C45)

since 2004: Molecular markers in systematics and plant population biology (MB120C44)

Thesis supervising:

Bachelor

· Rejzková E. (2003-2004): Demography of species with Alpine-Carpathian distribution.

· Zeisek V. (2006-2007): Phylogeography and dispersal of water clonal plants.

· Záveská E. (2006-2007): Study of evolution in Indian Curcuma L.

· Kučabová V. (2007-2008): Optimalization of DNA extraction from plant material for subsequent PCR analyses.

· Fuxová G. (2007-2008): Microsatellite markers and the study of plant dispersal in rivers.

· Mašterová H. (2009-2010): Hybridisation dynamics of Typha latifolia and T. angustifolia - differences between Europe and North America.

· Pospíšilová M. (2009-2010): Genome size evolution in the Zingiberaceae.

· Hlavatá K. (2011-2012): Biogeography of gingers from the subfamily Alpinioideae.

· Rydlo J. (2012-2013): Dispersal of clonal aquatic plants.

· Böhmová A. (2012-2013): Biogeography of pantropical plant family Costaceae.

· Krajníková A. (2012-2014): Long-distance plant dispersal in rivers.

· Portl J. (2013-2015): Hybridization of crab apple with domestic apple trees.

· Skopalíková J. (2013-2015): Application of NGS methods for phylogenetic reconstruction of polyploid complexes in plants.

· Kaněra L. (2013-2015): Evolution of birches from Betula pendula and B. pubescens group: morphological and molecular reappraisal.

Master

· Rejzková E. (2004-2006): Postglacial history of Carex pilosa populations with regard to their demography.

· Zeisek V. (2007-2009): Phylogeography and dispersal of Nuphar lutea.

· Záveská E. (2007-2009): Evolution of Indian Curcuma.

· Píšová S. (2007-2009): Evaluation of variability within Sparganium erectum using morphometrics, AFLP and flow cytometry.

· Fuxová G. (2007-2011): Impact of river system structure on the genetic diversity of reed populations.

· Pospíšilová M. (2010-2012): Genome size evolution in the genus Globba (Zingiberaceae).

· Mašterová H. (2010-2013): Hybridization of cattails Typha latifolia and T. angustifolia.

· Hlavatá K. (2012-2014): Evolution of Elettariopsis (Zingiberaceae).

· Böhmová A. (2013-2016): Genome size evolution in Costaceae.

· Rydlo J. (2013-2016): Ecological consequences of polyploidization in populations of the wetland plant Butomus umbellatus.

· Skopalíková J. (2015-2017): Application of Hyb-Seq method for reconstruction of reticulate infrageneric phylogeny: example from polyploid genus Curcuma L. (Zingiberaceae).

Dissertations

· Záveská E. (2009-2014): Phylogenetic studies in the polyploidy genus Curcuma L.

· Píšová S. (2009-2018): Homoploid hybrid speciation in closely related taxa of wetland plants.

· Hlavatá K. (2014-2024): Phylogenomics, genome size evolution and repeat dynamics in the genus Amomum Roxb. (Zingiberaceae).

· Chudáčková H. (2009-): Role of hybridization and clonal reproduction in populations of wetland plant species.

· Bijay Khadka (2021-): Genome size evolution and biogeography of Curcuma (Zingiberaceae).

· Martin Prach (2021-): Origin and long-term survival of Central European populations of larch (Larix decidua): combining phylogeography, paleoecology and niche modeling approaches.

GRANT PROJECTS:

Principal researcher:

2013-2014: Across- and within ploidy hybridisation of rare Czech and Austrian endemics of Knautia (Dipsacaceae) (AKTION)

2011: Plant molecular biology and cytogenetic lab, High Schools Promotion Fund of the Czech Republic (FRVŠ A)

2010: Transformation of practical course of molecular markers to the project course (FRVŠ F4a)

2009: Teaching innovation at life science faculties of the Czech high schools-workshop of modern phylogeographical methods, High Schools Promotion Fund of the Czech Republic (FRVŠ F4c)

2006: Practical teaching of DNA sequencing, AFLP and microsatellites in plants, High Schools Promotion Fund of the Czech Republic (FRVŠ F4a)

2003-2005: Identification of migration ways of riverside plants using molecular markers, Grant Agency of the Czech Academy of Sciences (GAAV)

Joint researcher:

2024-2026: Genetic variation of widespread forbs in the Czech Republic as a baseline for development of regional sowing mixtures and sustainable maintenance of species diversity (TAČR, co-PI, principal investigator T. Herben)

2021-2024: The potential how to employ European larch in the Czech forests under GCC (NAZV, principal investigator P. Bednář)

2009-2012: Evolution of genome size and origin of polyploidy in the economically important family Zingiberaceae (GAČR, principal investigator O. Šída)

Member of the team:

2020-2022: Tropical-alpine plant radiations: an intercontinental comparison of timing and the role of allopatry, hybridization and niche differentiation (GAČR, principal investigator R. Schmickl)

2018-2020: Solving an evolutionary puzzle – the rosaceous subtribe Malinae (Austrian Science Fund, principal investigator Ch. Dobeš & M. van Loo)

2014-2016: Evolution, diversification and biogeography of polyploidy Zingiberaceae: synergy of phylogenomics, cytogenomics, geological and climate history (GAČR, principal investigator K. Marhold)

2014-2016: Geographical parthenogenesis: evolutionary and ecological significance of apomictic reproduction in vascular plants (GAČR, principal investigator P. Mráz)

2011-2013: Parallel evolution or migration in the genus Bolboschoenus (Cyperaceae) at a worldwide scale? (GAUK, principal investigator S. Píšová)

2011-2013: Evolutionary trends in the genus Cleistocactus (Cactaceae) (GAUK, principal investigator A. Procházková)

2010-2013: Polyploid evolution in the Cape flora: insights from the key geophytic genus (GAČR, principal investigator J. Suda)

2010-2013: Immigrated vs. in situ created diversity in postglacial areas: A story of the polyploid complex Galium pumilum agg. (GAČR, principal investigator J. Suda)

2010-2013: Evolution of polyploidy in economically important tropical Zingiberaceous genus Curcuma: insight from the genome size and molecular data analysis (GAČR, principal investigator K. Marhold)

2008-2010: Microspeciation processes and migration history of Melampyrum subalpinum group (GAAV, principal investigator M. Štech)

2008-2009: Study of evolution in Indian Curcuma L. by using molecular method AFLP (GAUK, principal investigator E. Záveská)

2007-2010: Phylogeny of the genus Lasiocephalus (Asteraceae) - colonisation history of equatorial páramos (GAČR, principal investigator P. Sklenář)

2007-2009: Phylogeography of selected species of the genus Lasiocephalus (Asteraceae) in the equatorial Andes (GAAV, principal investigator E. Rejzková)

2006-2008: Evolutionary dynamics of diploid-polyploid angiosperm alliances (GAČR, principal investigator J. Suda)

2006-2008: Evolutionary history of relict serpentine populations of Knautia arvensis s.l. (Dipsacaceae) in Central Europe (GAAV, principal investigator J. Suda)

2004-2006: Postgacial migrations from the Alps and Carpathians into the Czech Republic - Phylogeography of selected plant species (GAČR, principal investigator K. Marhold)

2004-2006: Evolutionarily conservative and non-conservative elements of plant life history (GAČR, principal investigator T. Herben)

2004-2006: Phylogeny and phylogeography of Indian Curcuma – a basal species-group of biologically diversified and economically very important genus (GAAV, principal investigator O. Šída)

2004: Methods of DNA approaches to ecology and systematics of plants. Introduction of practical teaching. (FRVŠ F4a, principal investigator K. Marhold)

2001-2003: Metapopulation processes in populations with different modes of long dispersal, Grant Agency of the Charles University, Prague, Czech Republic (principal investigator T. Herben)

PUBLICATIONS:

(^# student under my supervision)

(* equal contribution)

Submitted papers:

Píšová S, Ufimov R, Breuer M, Jargal S, Lee LSF, Zöchner A, Irusta P, Grooß EM, Fér T, Schmickl R & van Loo M. Wide diversity in narrow geographical space: genetic, morphological and ploidy variation of Central European Crataegi with emphasis on their reproductive modes. (submitted)

Gorospe JM*, Fér T*, Rurik I*, Vďačný P, Kučera J, Dönmez AA, Yüzbaşıoğlu IS, Aydın ZU, Lučanová M, Schmickl RE* & Slovák M*. The role of historical introgression in shaping diploid plant diversity in Picris (Compositae) from the Mediterranean Basin. (submitted)

Kress WJ, Fér T, Carlsen M & Krupnick G. A conservation assessment and phylogenomic evaluation of protection status in the tropical genus Heliconia L. (Zingiberales: Heliconiaceae). Plants, People, Planet (submitted)

Ufimov R, Píšová S, Fér T, Dobeš C, van Loo M & Schmickl R: Comparing apples and pears: new insights into the evolution and biogeography of the Rosaceae tribe Maleae. (submitted)

Salomón L, Gorospe JM, Fér T, Kolář F, Sklenář P & Schmickl R: So young, so rich: habitat shifts combined with trait evolution promoted species radiation in Senecio in the Andes. (submitted)

Fér T & Pfosser M: Tracing plant dispersal in river systems: AFLP analysis of Sparganium erectum L. (submitted)

Fér T & Hroudová Z: Low genetic diversity in the clonal autogamous plant Typha latifolia within a small river system: insufficient microsatellite marker resolution. (submitted)

Papers in international journals:

Kress WJ, Fér T, Carlsen MM (2025): Phylogenomics and a new classification of the tropical genus Heliconia L. (Monocots, Zingiberales, Heliconiaceae). PhytoKeys, 251, 37-66.

Poulsen AD, Fér T, Kumarage Marasinghe LD, Sabu M, Hughes M, Valderrama E & Leong-Škorničková J (2024): The cardamom conundrum resolved: recircumscription and placement of Elettaria in the only pantropically distributed ginger lineage. Taxon, 73, 1187-1213.

Hlavatá K^#, Záveská E, Leong-Škorničková J, Pouch M, Poulsen AD, Šída O, Khadka B, Mandáková T & Fér T (2024): Ancient hybridization and repetitive element proliferation in the evolutionary history of the monocot genus Amomum (Zingiberaceae). Frontiers in Plant Science, 15, 1324358.

Záveská E, Šída O, Leong-Škorničková J, Chumová Z, Trávníček P, Newman M, Poulsen A, Böhmová A, Chudáčková H & Fér T (2024): Testing the large genome constraint hypothesis in tropical rhizomatous herbs: life strategies, plant traits and habitat preferences in gingers. The Plant Journal, 117, 1223-1238.

Prach M^#, Bednář P & Fér T (2023): Is European larch in the Nízký Jeseník Mts. really of the Jeseníky type? A perspective of molecular methods. Zprávy lesnického výzkumu, 68, 206-216.

Skopalíková J^#, Leong-Škorničková J, Šída O, Newman M, Chumová Z & Fér T*, Záveská E* (2023): Ancient hybridization in Curcuma (Zingiberaceae) – Accelerator or brake in lineage diversifications? The Plant Journal, 116, 773-785.

Böhmová A^#, Leong-Škorničková J, Šída O, Poulsen AD, Newman MF & Fér T (2023): Next-generation sequencing data show rapid radiation and several long-distance dispersal events in early Costaceae. Molecular Phylogenetics and Evolution, 179, 107664.

Hlavatá K^#, Leong-Škorničková J, Záveská E, Šída O, Newman M, Mandáková T, Lysak MA, Marhold K & Fér T (2023): Phylogenomics and genome size evolution in Amomum s. s. (Zingiberaceae): comparison of traditional and modern sequencing methods. Molecular Phylogenetics and Evolution, 178, 107666.

Ufimov R, Gorospe JM, Fér T, Kandziora M, Salomon L, van Loo M & Schmickl R (2022): Utilizing paralogs for phylogenetic reconstruction has the potential to increase species tree support and reduce gene tree discordance in target enrichment data. Molecular Ecology Resources, 22, 3018-3034.

Sangvirotjanapat S, Fér T, Denduangboripant J & Newman MF (2022): Phylogeny of Globba section Nudae and taxonomic revision of the new Globba subsection Pelecantherae. Plant Systematics and Evolution, 308, 5

Ufimov R, Zeisek V, Píšová S, Baker WJ, Fér T, van Loo M, Dobeš Ch & Schmickl R (2021): Relative performance of customized and universal probe sets in target enrichment: a case study in subtribe Malinae (Rosaceae). Applications in Plant Sciences, 9(7), e11442

Tan S, Hollands R, Pavlíková M, Fér T & Newman M (2020): A revision of Gagnepainia and Hemiorchis (Globbeae: Zingiberaceae). Edinburgh Journal of Botany, 77, 455-490

Píšová S^# & Fér T (2020): Intraspecific differentiation of Sparganium erectum in the Czech Republic: molecular, genome size and morphometric analysis. Preslia, 92, 137-165

Paule J, Schmickl R, Fér T, Matuszak-Renger S, Halbritter H & Zizka G (2020): Phylogenomic insights into the Fascicularia-Ochagavia group (Bromelioideae, Bromeliaceae). Botanical Journal of the Linnean Society, 192, 642-655

Kuneš I, Linda R, Fér T, Karlík P, Baláš M, Ešnerová J, Vítámvás J, Bílý J & Urfus T (2019): Is Betula carpatica genetically distinctive? A morphometric, cytometric and molecular study of birches in the Bohemian Massif with a focus on Carpathian birch. PLoS ONE, 14(10), e0224387

Jones KE, Fér T, Schmickl RE, Dikow RB, Funk VA, Herrando-Moraira S, Siniscalchi CM, Susanna A, Slovák M, Thapa R, Watson LE & Mandel JR (2019): An empirical assessment of a single family-wide hybrid capture locus set at multiple evolutionary timescales in Asteraceae. Applications in Plant Sciences, 7(10), e11295

Carlsen M*, Fér T*, Schmickl R, Leong-Škorničková J, Newman M, Kress JW (2018): Resolving the rapid plant radiation of early diverging lineages in the tropical Zingiberales: Pushing the limits of genomic data. Molecular Phylogenetics and Evolution, 128, 55-68

de Boer H, Newman M, Poulsen AD, Droop AJ, Fér T, Hien L, Hlavatá K, Lamxay V, Richardson JE, Steffen K & Leong-Škorničková J (2018): Convergent morphology in Alpinieae (Zingiberaceae): Recircumscribing Amomum as a monophyletic genus. Taxon, 67, 6-36

Fér T & Schmickl R (2018): HybPhyloMaker: target enrichment data analysis from raw reads to species trees. Evolutionary Bioinformatics, 14, 1176934317742613. doi: 10.1177/1176934317742613

Dušková E, Sklenář P, Kolář F, Vásquez DLA, Romoleroux K, Fér T & Marhold K (2017): Growth-form evolution and hybridization in Senecio (Asteraceae) from the high equatorial Andes. Ecology and Evolution, 7, 6455-6468

Píšová S^#, Hroudová Z, Chumová Z & Fér T (2017): Ecological hybrid speciation in Central European Bolboschoenus species: genetic and morphological evaluation. Preslia, 89, 17-39

Záveská E^#, Fér T, Šída O, Marhold K & Leong-Škorničková J (2016): Hybridization among distantly related species: examples from the polyploid genus Curcuma (Zingiberaceae). Molecular Phylogenetics and Evolution, 100, 303-321

Pánek M, Fér T, Mráček J & Tomšovský M (2016): Evolutionary relationships within the Phytophthora cactorum species complex in Europe. Fungal Biology, 120, 836-851

Daneck H^#, Fér T & Marhold K (2016): Glacial survival in northern refugia? Phylogeography of the temperate shrub Rosa pendulina (Rosaceae): AFLP vs. cpDNA variation. Biological Journal of the Linnean Society, 119, 704-718

Kolář F, Píšová S, Záveská E., Fér T, Weiser M, Ehrendorfer F & Suda J (2015): The origin of unique diversity in deglaciated areas: traces of Pleistocene processes in north-European endemics from the Galium pusillum polyploid complex (Rubiaceae). Molecular Ecology, 24, 1311-1334

Herben T, Rydlová V, Fér T, Suda J, Kyncl T, Münzbergová Z, Wildová R & Wild J (2014): Phylogenetic signal in growth and reproductive traits and in their plasticity: Descurainia radiation in the Canary Islands. Botanical Journal of the Linnean Society, 174, 384-398

Kolář F, Lučanová M, Vít P, Urfus T, Chrtek J, Fér T, Ehrendorfer F, Suda J (2013): Diversity and endemism in deglaciated areas: ploidy, relative genome size and niche differentiation in the Galium pusillum complex (Rubiaceae) in Northern and Central Europe. Annals of Botany, 111, 1095-1108

Záveská E^#, Fér T, Šída O, Krak K, Marhold K & Leong-Škorničková J (2012): Phylogeny of Curcuma (Zingiberaceae) based on plastid and nuclear sequences: Proposal of the new subgenus Ecomata. Taxon, 61, 747-763

Ekrtová E, Štech M & Fér T (2012): Pattern of genetic differentiation in Gentiana pannonica Scop.: did subalpine plants survive glacial events at low altitudes in Central Europe? Plant Systematics and Evolution, 298, 1383-1397

Kolář F, Fér T, Štech M, Trávníček P, Dušková E & Suda J (2012): Bringing together evolution on serpentine and polyploidy: spatiotemporal history of the diploid-tetraploid complex of Knautia arvensis (Dipsacaceae). PLoS ONE, 7, e39988

Mikulášková E, Fér T & Kučabová V^# (2012): The effect of different DNA isolation protocols and AFLP fingerprinting optimizations on error rate estimates in the bryophyte Campylopus introflexus. Lindbergia, 35, 7-17

Záveská E^#, Fér T, Šída O, Leong-Škorničková J, Sabu M & Marhold K (2011): Genetic diversity patterns in Curcuma correlate with the genome size differences. Botanical Journal of the Linnean Society, 165, 388-401

Daneck H^#, Abraham V, Fér T & Marhold K (2011): Phylogeography of Lonicera nigra in Central Europe inferred from molecular and pollen evidence. Preslia, 83, 243-263

Snow AA, Travis SE, Wildová R, Fér T, Sweeney PM, Marburger JE, Windels S, Kubátová B & Goldberg DE (2010): Species-specific SSR markers for studies of hybrid cattails (Typha latifolia × T. angustifolia, Typhaceae) in North America. American Journal of Botany, 97, 2061-2067

Dvořáková H^#, Fér T & Marhold K (2010): Phylogeographic pattern of the European forest grass species Hordelymus europaeus: cpDNA evidence. Flora, 205, 418-423

Dušková E, Kolář F, Sklenář P, Kubešová M, Rauchová J, Fér T, Suda J & Marhold K (2010): Genome size correlates with growth forms, habitat and phylogeny in the Andean genus Lasiocephalus (Asteraceae). Preslia, 82, 127-148

Hofhanzlová E & Fér T (2009): Genetic variation and reproduction strategy of Gentiana pannonica in different habitats. Flora, 204, 99-110.

Fér T & Hroudová Z (2009): Genetic diversity and dispersal of Phragmites australis in a small river system. Aquatic Botany, 90, 165-171

Rejzková E^#, Fér T, Vojta J & Marhold K (2008): Phylogeography of the forest herb Carex pilosa (Cyperaceae). Botanical Journal of the Linnean Society, 158, 115-130

Fér T & Hroudová Z (2008): Detecting dispersal of Nuphar lutea in river corridors using microsatellite markers. Freshwater Biology, 53, 1409-1422

Fér T, Vašák P^#, Vojta J & Marhold K (2007): Out of the Alps or Carpathians? Origin of Central European populations of Rosa pendulina. Preslia, 79, 367-376

Leong-Škorničková J, Šída O, Jarolímová V, Sabu M, Fér T, Trávníček P & Suda J (2007): Chromosome numbers and genome size variation in Indian species of Curcuma L. (Zingiberaceae). Annals of Botany, 100, 505-526

Stuessy TF, Jakubowsky G, Salguero GR, Pfosser M, Schlüter PM, Fer T, Sun BY & Kato H (2006): Anagenetic evolution in island plants. Journal of Biogeography, 33, 1259-1265

Pfosser M, Jakubowsky G, Schlüter PM, Fer T, Kato H, Stuessy TF & Sun BY (2005): Evolution of Dystaenia takesimana (Apiaceae), endemic to Ullung Island, Korea. Plant Systematics and Evolution, 256, 159-170

Papers in national journals (in Czech):

Prach J, Pokorný P, Prach M, Hošková K, Fér T & Bednář P (2024): The larch is more native than we thought. How to manage it in protected areas? Ochrana přírody 4/2024: 37-41

Fér T, Prach M & Smyčka J (2021): The origin of Europaean larch in the Czech Republic from the view of molecular methods. Lesnická práce 7: 29-31

Píšová S & Fér T (2017): Intraspecific variability and crossbreeding of the branched bur-reed. Živa 3/2017: 108-111

Píšová S, Hroudová Z, Fér T, Ducháček M & Zákravský P (2015): Do we know our Bolboschoenus species? Morphological, ecological and genetic variation. Živa 4/2015: 165-168

Fér T (2013): Plant dispersal in rivers – DNA Study. Živa 1/2013: 10-13

Fér T & Marhold K (2012): Phylogeography of Central European plants. Živa 4/2012: 158-161

Fér T (2011): Dominant (binary) molecular markers and their use in population and systematic biology. Zprávy České botanické společnosti, Praha, Materiály, 25, 61-78

Fér T, Hroudová Z & Pfosser M (2007): Molecular approaches in the study of plant dispersal in river corridors. Zprávy České botanické společnosti, Praha, Materiály, 22, 67-84

Chapter in monograph:

Fér T. (2015): Phytogeography and phylogeography. In: Gojdičová E, Mártonfi P, Mártonfiová L & Fér T: Botany – Vascular Plants, pp. 150-165. Institute of the High Mountain Biology, University of Žilina, Slovakia.

Abstracts and posters:

Paule J, Schmickl R, Fér T, Renger S, Halbritter H & Zizka G (2019): Phylogenomic insights into the Fascicularia-Ochagavia group (Bromelioideae, Bromeliaceae). 61st Phylogenetic Symposium: Reticulate Evolution, 22 – 24 November 2019. Göttingen, Germany [poster]

Hartmann M, Chrtek J, Fér T, Choler P, Taberlet P, Mráz P (2019): When triploids take over: phylogeography of geographical parthenogenesis in Hieracium alpinum. International Conference on Polyploidy, 11 – 14 June 2019. Ghent, Belgium. [talk]

Fér T, Šída O, Záveská E, Newman MF, Leong-Škorničková J (2018): Genome size Evolution in the Zingiberaceae. 8th International Zingiberales Symposium, 23 – 27 July 2018. Singapore, p. 31 [talk]

Hlavatá K, Fér T, Leong-Škorničková J, Záveská E, Šída O, Newman MF, Mandáková T (2018): Genome size Evolution in Amomum s.s. 8th International Zingiberales Symposium, 23 – 27 July 2018. Singapore, p. 33 [talk]

Fér T, Schmickl R, Kress WJ, Carlsen M, Pavlíková M, Flašková L, Newman MF, Leong-Škorničková J (2018): Hybridization-based target enrichment as a tool for phylogenetic analyses at different evolutionary levels: Zingiberales, Zingiberaceae and the genus Curcuma. 8th International Zingiberales Symposium, 23 – 27 July 2018. Singapore, p. 68 [poster]

Skopalíková J, Leong-Škorničková J, Záveská E, Fér T (2018): Hybridization in the genus Curcuma as detected by next-generation sequencing. 8th International Zingiberales Symposium, 23 – 27 July 2018. Singapore, p. 69 [poster]

Fér T, Schmickl R, Kress WJ, Carlsen M, Pospíšilová M, Flašková L, Leong-Škorničková J (2017): Phylogenetic analyses at different evolutionary levels using hybridization-based target enrichment. XIX International Botanical Congress, 23 – 29 July 2017. Shenzhen, China. [talk]

Carlsen M, Fér T, Schmickl R, Leong-Škorničková J, Newman MF, Kress WJ (2017): The evolutionary history of the Zingiberales: The final word on a charismatic lineage of tropical plants using targeted gene enrichment. XIX International Botanical Congress, 23 – 29 July 2017. Shenzhen, China. [talk]

Fér T, Schmickl R, Záveská E, Pospíšilová M, Leong-Škorničková J, Šída O, Poulsen AD, Newman MF, Carlsen M, Kress WJ (2017): Admission to ginger paradise: phylogenomics of the family Zingiberaceae using Hyb-Seq approach. XIX International Botanical Congress, 23 – 29 July 2017. Shenzhen, China. [poster]

Záveská E, Mandáková T, Fér T, Šída O, Marhold K, Leong-Škorničková J (2015): Insight into enigmatic evolutionary history of Siliquamomum (Zingiberaceae: Alpinioideae) using multigene phylogeny approach and cytogenetics. 7th International Symposium on the family Zingiberaceae, 17 – 20 August 2015. Chiang Mai, Thailand. [poster]

Pospíšilová M, Fér T, Mandáková T, Záveská E, Šída O, Suksathan P, Saengwirotphan S, Newman M (2015): Phylogeny, genome size evolution and chromosome counts in the genus Globba (Zingiberaceae). 7th International Symposium on the family Zingiberaceae, 17 – 20 August 2015. Chiang Mai, Thailand. [poster]

Štech M, Chlumský J, Drahník P, Fér T, Herbstová M, Koutecký P, Košnar J, Trávníček P, Suda J. (2013): The Carpathians – a contact zone of different genetic lineages of Melampyrum nemorosum group. Biogeography of the Carpathians: Evolution of Biodiversity in a Spatiotemporal Context, 26 – 28 September 2013, Krakow, Poland. [poster]

Píšová S, Fér T, Hroudová Z (2013): Genetic variation and hybridization in the genus Bolboschoenus in Central Europe. BioSyst.EU 2013 Global systematics!, 18 – 22 February 2013, Vienna, Austria. [poster]

Záveská E, Fér T, Šída O, Marhold K, Leong-Škorničková J (2013): Underestanding the reticulate evolution of polyploid genus Curcuma: controversial signals from nuclear low-copy genes. BioSyst.EU 2013 Global systematics!, 18 – 22 February 2013, Vienna, Austria. [poster]

Kolář F, Lučanová M, Píšová S, Fér T, Vít P, Urfus T (2013): High diversity and endemism of Galium pusillum polyploid complex in deglaciated Northern Europe. BioSyst.EU 2013 Global systematics!, 18 – 22 February 2013, Vienna, Austria. [poster]

Fér T, Záveská E, Marhold K, Šída O, Leong-Škorničková J (2012): Anther evolution in the genus Curcuma: Insights from geometric morphometrics. 6th International Symposium on the family Zingiberaceae, 10 – 13 September 2012, Calicut, India. [poster]

Záveská E, Fér T, Marhold K, Šída O, Leong-Škorničková J (2012): Are nDNA and cpDNA genes helpful in underestanding intrageneric relationships in Curcuma? 6th International Symposium on the family Zingiberaceae, 10 – 13 September 2012, Calicut, India. [poster]

Píšová S, Fér T, Hroudová Z (2012): Genetic variation and hybridization within the genus Bolboschoenus in Central Europe. International Conference on Polyploidy, Hybridization, and Biodiversity, 7 – 10 May 2012, Průhonice near Prague, Czech Republic. [poster]

Pospíšilová M, Fér T (2012): Genome size evolution in tropical genus Globba (Zingiberaceae). International Conference on Polyploidy, Hybridization, and Biodiversity, 7 – 10 May 2012, Průhonice near Prague, Czech Republic. [poster]

Fér T, Píšová S (2012): Speciation and hybridization within branched bur-reed (Sparganium erectum L.): subspecific concept based on AFLP, morphometrics and genome size. International Conference on Polyploidy, Hybridization, and Biodiversity, 7 – 10 May 2012, Průhonice near Prague, Czech Republic. [poster]

Fér T, Daneck H, Abraham V, Marhold K (2011): Glacial survival of temperate shrubs in Central Europe? Phylogeography of Lonicera nigra and Rosa pendulina. BioSystematics 21 – 27 February 2011, Berlin, Germany. [poster]

Píšová S, Fér T (2011): Evaluation of variability within Sparganium erectum L. using morphometrics, AFLP and flow cytometry. BioSystematics 21 – 27 February 2011, Berlin, Germany. [poster]

Záveská E, Fér T, Marhold K, Šída O, Leong-Škorničková J (2010): Do the anther appendages matter in Curcuma evolution? Insights from geometric morphometrics & molecular markers. 8th International Flora Malesiana Symposium, 23 – 27 August 2010, Singapore. [poster]

Záveská E., Fér T., Marhold K., Šída O., Sabu M., Leong-Škorničková J. (2009): Phylogenetic studies in Indian polyploid Curcuma species using AFLP´s and ITS sequencing. 5^th International Symposium on the Family Zingiberaceae, 6 – 9 July 2009, Xishuangbanna Tropical Botanical Garden, China. [poster]

Záveská E. Fér T., Marhold K., Šída O., Sabu M., Leong-Škorničková J. (2009): Phylogenetic studies in Indian polyploid Curcuma species using AFLP marker. International Conference on Polyploidy, Hybridization and Biodiversity, 17 – 20 May 2009, Saint Malo, France, p. 167 [poster]

Rejzková E., Kolář F., Sklenář P., Rauchová J., Suda J., Fér T., Marhold K. (2009): Polyploid evolution and hybridization in the Andean genus Lasiocephalus (Asteraceae) - insights from genome size data. International Conference on Polyploidy, Hybridization and Biodiversity, 17 – 20 May 2009, Saint Malo, France, p. 183 [poster]

Rejzková E., Fér T., Sklenář P., Suda J., Marhold K. (2008) Phylogeny of the genus Lasiocephalus (Asteraceae) – colonization of the equatorial páramo. 10^th Symposium of the International Organization of Plant Biosystematists, 2 – 4 July 2008, Vysoké Tatry, Slovakia, p. 94 [poster]

Zeisek V., Fér T. (2008): Genetic structure of Nuphar lutea populations in the Czech Republic. 21^st Annual Conference of the Plant Population Biology Section of the Ecological Society of Germany, Switzerland and Austria (GfÖ), 1 – 3 May 2008, Luxembourg, p. 104 [poster]

Dvořáková H., Fér T., Marhold K. (2007): Postglacial history of selected plant species with a view to the presumed suture zone in Central Europe. 20^th Annual Conference of the Plant Population Biology Section of the Ecological Society of Germany, Switzerland and Austria (GfÖ), 17 – 19 May 2007, Basel, Switzerland.

Šída O., Škorničková J., Fér T., Jarolímová V., Marhold K., Sabu M. (2006): Polyploidy in Curcuma: key to evolution in the genus? 4th International Symposium on the Family Zingiberaceae, 3 – 6 July 2006, Singapore Botanic Gardens, Singapore. [poster]

Dvořáková H., Marhold K., Fér T. (2006): Investigation of suture zone in Central Europe – Postglacial migration from Alps and Carpathians on the example of Hordelymus europaeus. Plant Population Biology. 19^th Annual Conference of the Section Plant Population Biology of the Ecological Society of Germany, Switzerland and Austria, 24 – 27 May 2006, Halle/Saale, Germany, p. 67 [poster]

Fér T. (2006): Patterns of plant dispersal in river systems. In: Plant Population Biology. 19^th Annual Conference of the Section Plant Population Biology of the Ecological Society of Germany, Switzerland and Austria, 24 – 27 May 2006, Halle/Saale, Germany, p. 69 [poster]

Fér T. (2006): Molecular markers as a tool for identification plant dispersal in river corridors. In: International Symposium on Aquatic Vascular Plants: 25 Years After, Brussels, 11-13th January 2006, p. 14 [oral presentation]

Fér T. & Pfosser M. (2005): Molecular markers as a tool for identification plant dispersal in river corridors: An example of Sparganium erectum. In: XVII International Botanical Congress – Abstracts, Vienna, Austria, 17-23 July 2005, p. 497 [poster]

Škorničková J., Šída O., Fér T., Sabu M. & Marhold K. (2005): Taxonomic studies in Indian Curcuma L.: what causes such confusion in the genus? In: XVII International Botanical Congress – Abstracts, Vienna, Austria, 17-23 July 2005, p. 395 [poster]

Fér T. & Pfosser M. (2004): Molecular markers as a tool for identification plant dispersal in river corridors: An example of Sparganium erectum. In: Verhandlungen der Gesellschaft für Ökologie, Band 34, Eco-complexity and dynamics of the cultural landscape, 13-17th September 2004 in Giessen, Germany, p. 237 [oral presentation]

Fér T. & Pfosser M. (2003): Using molecular markers to distinguish between vegetative and generative long-distance dispersal in river plants. In: POP2003. Allocation, Plasticity and Allometry. 16^th Annual Meeting Plant Population Biology Section. 28 May – 1 June 2003 Copenhagen, p. 28. [oral presentation]

Fér T. & Hroudová Z. (2003): Seed buoyancy as a factor influencing plant distribution in the river systém. In: Restoration of river valleys. Annual meeting of the working group for restoration ecology of the GFÖ, 24 –26 April 2003, Kiel, Germany, Ökologie-Zentrum, Fachabteilung Geobotanik, Universität Kiel, p.16. [poster]

Fér T. & Pfosser M. (2003): Identification of plant dispersal in river corridors using molecular markers: An example of Sparganium erectum and Iris pseudacorus. In: Restoration of river valleys. Annual meeting of the working group for restoration ecology of the GfÖ, 24 - 26 April 2003, Kiel, Germany, Ökologie-Zentrum, Fachabteilung Geobotanik, Universität Kiel, p.17. [oral presentation]

Fér T., Pfosser M., Weiss H., Sun B-Y. & Stuessy T. (2002): The evolution of endemic species Dystaenia takesimana (Apiaceae) in Ullung Island, Korea. In: Bericht über das 10. Österreichische Botanikertreffen, 30.5.-1.6.2002 (Gumpenstein, Österreich). BAL Gumpenstein, Irdning, p. 93. [oral presentation]

Fér T. & Pfosser M. (2002): Genetic diversity of Sparganium erectum L. populations in river systems. In: Bericht über das 10. Österreichische Botanikertreffen, 30.5.-1.6.2002 (Gumpenstein, Österreich). BAL Gumpenstein, Irdning, p.157. [poster]

Fér T. (2002): Genetic diversity of Sparganium erectum L. populations in river systems. In: Metapopulation Dynamics and Landscape Fragmentation. 15^th annual meeting of the Section Plant Population Biology of the Society for Ecology of Germany, Switzerland and Austria, 9 – 12 May 2002, Průhonice, Czech Republic, p. 15 [poster]

Theses:

Fér T (2008): Study of plant dispersal in river corridors using molecular markers. 120 pp., ms. (PhD. thesis), Depon. in: Library of the Dept. of Botany, Charles University, Prague.

Fér T (2000): Dispersal of generative diaspores of selected water and littoral plant species. 85 pp., ms. (MSc. thesis), Depon. in: Library of the Dept. of Botany, Charles University, Prague. [in Czech]

Fér T (1997): Hydrochory of water plants. 15 pp., ms. (BSc. thesis), Depon. in: Library of the Dept. of Botany, Charles University, Prague. [in Czech]

Software:

Fér T & Schmickl R (2016-2025): HybPhyloMaker: target enrichment data analysis from raw reads to species trees. https://github.com/tomas-fer/HybPhyloMaker.

Citations (Web of Science):

· 1,163 (1,071 without autocitations)

· H-index: 20