Publications list

2018

  • Shifting the limits in wheat research and breeding using a fully annotated reference genome
    International Wheat Genome Sequencing Consortium (IWGSC); IWGSC RefSeq principal investigators: Appels, R., Eversole, K., Feuillet, C., Keller, B., Rogers, J., Stein, N.; IWGSC whole-genome assembly principal investigators: Pozniak, C.J., Stein, N., Choulet, F., Distelfeld, A., Eversole, K., Poland, J., Rogers, J., Ronen, G., Sharpe, A.G.; Whole-genome sequencing and assembly: Pozniak, C., Ronen, G., Stein, N., Barad, O., Baruch, K., Choulet, F., Keeble-Gagnère, G., Mascher, M., Sharpe, A.G., Ben-Zvi, G., Josselin, A.A.; Hi-C data-based scaffolding: Stein, N., Mascher, M., Himmelbach, A.; Whole-genome assembly quality control and analyses: Choulet, F., Keeble-Gagnère, G., Mascher, M., Rogers, J., Balfourier, F., Gutierrez-Gonzalez, J., Hayden, M., Josselin, A.A., Koh, C., Muehlbauer, G., Pasam, R.K., Paux, E., Pozniak, C.J., Rigault, P., Sharpe, A.G., Tibbits, J., Tiwari, V.; Pseudomolecule assembly: Choulet, F., Keeble-Gagnère, G., Mascher, M., Josselin, A.A., Rogers, J.; RefSeq genome structure and gene analyses: Spannagl, M., Choulet, F., Lang, D., Gundlach, H., Haberer, G., Keeble-Gagnère, G., Mayer, K.F.X., Ormanbekova, D., Paux, E., Prade, V., Šimková, H., Wicker, T.; Automated annotation: Choulet, F., Spannagl, M., Swarbreck, D., Rimbert, H., Felder, M., Guilhot, N., Gundlach, H., Haberer, G., Kaithakottil, G., Keilwagen, J., Lang, D., Leroy, P., Lux, T., Mayer, K.F.X., Twardziok, S., Venturini, L.; Manual gene curation: Appels, R., Rimbert, H., Choulet, F., Juhász, A., Keeble-Gagnère, G.; Subgenome comparative analyses: Choulet, F., Spannagl, M., Lang, D., Abrouk, M., Haberer, G., Keeble-Gagnère, G., Mayer, K.F.X., Wicker, T.; Transposable elements: Choulet, F., Wicker, T., Gundlach, H., Lang, D., Spannagl, M.; Phylogenomic analyses: Lang, D., Spannagl, M., Appels, R., Fischer, I.; Transcriptome analyses and RNA-seq data: Uauy, C., Borrill, P., Ramirez-Gonzalez, R.H., Appels, R., Arnaud, D., Chalabi, S., Chalhoub, B., Choulet, F., Cory, A., Datla, R., Davey, M.W., Hayden, M., Jacobs, J., Lang, D., Robinson, S.J., Spannagl, M., Steuernagel, B., Tibbits, J., Tiwari, V., van Ex, F., Wulff, B.B.H.; Whole-genome methylome: Pozniak, C.J., Robinson, S.J., Sharpe, A.G., Cory, A.; Histone mark analyses: Benhamed, M., Paux, E., Bendahmane, A., Concia, L., Latrasse, D.; BAC chromosome MTP IWGSC–Bayer Whole-Genome Profiling (WGP) tags: Rogers, J., Jacobs, J., Alaux, M., Appels, R., Bartoš, J., Bellec, A., Berges, H., Doležel, J., Feuillet, C., Frenkel, Z., Gill, B., Korol, A., Letellier, T., Olsen, O.A., Šimková, H., Singh, K., Valárik, M., van der Vossen, E., Vautrin, S., Weining, S.; Chromosome LTC mapping and physical mapping quality control: Korol, A., Frenkel, Z., Fahima, T., Glikson, V., Raats, D., Rogers, J.; RH mapping: Tiwari, V., Gill, B., Paux, E., Poland, J.; Optical mapping: Doležel, J., Číhalíková, J., Šimková, H., Toegelová, H., Vrána, J.; Recombination analyses: Sourdille, P., Darrier, B.; Gene family analyses: Appels, R., Spannagl, M., Lang, D., Fischer, I., Ormanbekova, D., Prade, V.; CBF gene family: Barabaschi, D., Cattivelli, L.; Dehydrin gene family: Hernandez, P., Galvez, S., Budak, H.; NLR gene family: Steuernagel, B., Jones, J.D.G., Witek, K., Wulff, B.B.H., Yu, G.; PPR gene family: Small, I., Melonek, J., Zhou, R.; Prolamin gene family: Juhász, A., Belova, T., Appels, R., Olsen, O.A.; WAK gene family: Kanyuka, K., King, R.; Stem solidness (SSt1) QTL team: Nilsen, K., Walkowiak, S., Pozniak, C.J., Cuthbert, R., Datla, R., Knox, R., Wiebe, K., Xiang, D.; Flowering locus C (FLC) gene team: Rohde, A., Golds, T.; Genome size analysis: Doležel, J., Čížková, J., Tibbits, J.; MicroRNA and tRNA annotation: Budak, H., Akpinar, B.A., Biyiklioglu, S.; Genetic maps and mapping: Muehlbauer, G., Poland, J., Gao, L., Gutierrez-Gonzalez, J., N'Daiye, A.; BAC libraries and chromosome sorting: Doležel, J., Šimková, H., Číhalíková, J., Kubaláková, M., Šafář, J., Vrána, J.; BAC pooling, BAC library repository, and access: Berges, H., Bellec, A., Vautrin, S.; IWGSC sequence and data repository and access: Alaux, M., Alfama, F., Adam-Blondon, A.F., Flores, R., Guerche, C., Letellier, T., Loaec, M., Quesneville, H.; Physical maps and BAC-based sequences: 1A BAC sequencing and assembly: Pozniak, C.J., Sharpe, A.G., Walkowiak, S., Budak, H., Condie, J., Ens, J., Koh, C., Maclachlan, R., Tan, Y., Wicker, T.; 1B BAC sequencing and assembly: Choulet, F., Paux, E., Alberti, A., Aury, J.M., Balfourier, F., Barbe, V., Couloux, A., Cruaud, C., Labadie, K., Mangenot, S., Wincker, P.; 1D, 4D, and 6D physical mapping: Gill, B., Kaur, G., Luo, M., Sehgal, S.; 2AL physical mapping: Singh, K., Chhuneja, P., Gupta, O.P., Jindal, S., Kaur, P., Malik, P., Sharma, P., Yadav, B.; 2AS physical mapping: Singh, N.K., Khurana, J., Chaudhary, C., Khurana, P., Kumar, V., Mahato, A., Mathur, S., Sevanthi, A., Sharma, N., Tomar, R.S.; 2B, 2D, 4B, 5BL, and 5DL IWGSC–Bayer Whole-Genome Profiling (WGP) physical maps: Rogers, J., Jacobs, J., Alaux, M., Bellec, A., Berges, H., Doležel, J., Feuillet, C., Frenkel, Z., Gill, B., Korol, A., van der Vossen, E., Vautrin, S.; 3AL physical mapping: Gill, B., Kaur, G., Luo, M., Sehgal, S.; 3DS physical mapping and BAC sequencing and assembly: Bartoš, J., Holušová, K., Plíhal, O.; 3DL BAC sequencing and assembly: Clark, M.D., Heavens, D., Kettleborough, G., Wright, J.; 4A physical mapping, BAC sequencing, assembly, and annotation: Valárik, M., Abrouk, M., Balcárková, B., Holušová, K., Hu, Y., Luo, M.; 5BS BAC sequencing and assembly: Salina, E., Ravin, N., Skryabin, K., Beletsky, A., Kadnikov, V., Mardanov, A., Nesterov, M., Rakitin, A., Sergeeva, E.; 6B BAC sequencing and assembly: Handa, H., Kanamori, H., Katagiri, S., Kobayashi, F., Nasuda, S., Tanaka, T., Wu, J.; 7A physical mapping and BAC sequencing: Appels, R., Hayden, M., Keeble-Gagnère, G., Rigault, P., Tibbits, J.; 7B physical mapping, BAC sequencing, and assembly: Olsen, O.A., Belova, T., Cattonaro, F., Jiumeng, M., Kugler, K., Mayer, K.F.X., Pfeifer, M., Sandve, S., Xun, X., Zhan, B.; 7DS BAC sequencing and assembly: Šimková, H., Abrouk, M., Batley, J., Bayer, P.E., Edwards, D., Hayashi, S., Toegelová, H., Tulpová, Z., Visendi, P.; 7DL physical mapping and BAC sequencing: Weining, S., Cui, L., Du, X., Feng, K., Nie, X., Tong, W., Wang, L.; Figures: Borrill, P., Gundlach, H., Galvez, S., Kaithakottil, G., Lang, D., Lux, T., Mascher, M., Ormanbekova, D., Prade, V., Ramirez-Gonzalez, R.H., Spannagl, M., Stein, N., Uauy, C., Venturini, L.; Manuscript writing team: Stein, N., Appels, R., Eversole, K., Rogers, J., Borrill, P., Cattivelli, L., Choulet, F., Hernandez, P., Kanyuka, K., Lang, D., Mascher, M., Nilsen, K., Paux, E., Pozniak, C.J., Ramirez-Gonzalez, R.H., Šimková, H., Small, I., Spannagl, M., Swarbreck, D., Uauy, C.
    SCIENCE 361 7191 2018
  • Synthesis and characterization of isotopically-labeled silver, copper and zinc oxide nanoparticles for tracing studies in plants
    Nath J., Dror I., Landa P., Vaněk T., Kaplan-Ashiri I., Berkowitz B.
    ENVIRONMENTAL POLLUTION 242 1827-1837 2018
  • Tetraploid Festuca apennina is prone to produce triploid hybrid progeny when crossed with diploid Festuca pratensis
    Boller, B., Felder, T., Kopecký, D.
    Breeding grasses and protein crops in the era of genomics 33-38 2018
  • The Agropyron cristatum karyotype, chromosome structure and cross-genome homoeology as revealed by fluorescence in situ hybridization with tandem repeats and wheat single-gene probes
    Said, M., Hřibová, E., Danilova, T.V., Karafiátová, M., Čížková, J., Friebe, B., Doležel, J., Gill, B.S., Vrána, J.
    THEORETICAL AND APPLIED GENETICS 131 2213-2227 2018
  • The Arabidopsis thaliana non-specific phospholipase C2 is involved in the response to Pseudomonas syringae attack
    Krčková Z., Kocourková D., Daněk M., Brouzdová J., Pejchar P., Janda M., Pokotylo I., Ott P.G., Valentová O., Martinec J.
    ANNALS OF BOTANY 121 297-310 2018
  • The deletion of M4 muscarinic receptors increases motor activity in females in the dark phase
    Valušková P., Forczek S.T., Farár V., Mysliveček J.
    BIOCATALYSIS AND BIOTRANSFORMATION Brain and Behavior 2018
  • The novel brassinosteroid analog BR4848 inhibits angiogenesis in human endothelial cells and induces apoptosis in human cancer cells in vitro
    Rárová L., Sedlák D., Oklestkova J., Steigerová J., Liebl J., Zahler S., Bartůněk P., Kolář Z.,Kohout L., Kvasnica M.,Strnad M.
    Journal of steroid biochemistry and molecular biology 178 263-271 2018
  • The response of Picea abies somatic embryos to UV-B radiation depends on the phase of maturation
    Eliášová K., Vondráková Z., Gemperlová L., Neděla V., Runštuk J., Fischerová L., Malbeck J., Trávníčková A., Cvikrová M., Vágner M.
    FRONTIERS IN PLANT SCIENCE 2018
  • The slowdown of Y chromosome expansion in dioecious Silene latifolia due to DNA loss and male-specific silencing of retrotransposons
    Puterova, J., Kubat, Z., Kejnovsky, E., Jesionek, W., Čížková, J., Vyskot, B., Hobza, R.
    BMC GENOMICS 19 153 2018
  • Transcriptome reprogramming due to the introduction of a barley telosome into bread wheat affects more barley genes than wheat
    Rey, E., Abrouk, M., Keeble-Gagnère, G., Karafiátová, M., Vrána, J., Balzergue, S., Soubigou-Taconnat, L., Brunaud, V., Martin-Magniette, M.L., Endo, T.R., Bartoš, J.; International Wheat Genome Sequencing Consortium (IWGSC), Appels, R., Doležel, J.
    PLANT BIOTECHNOLOGY JOURNAL 16 1767-1777 2018
  • Transcriptomic response of Arabidopsis thaliana roots to naproxen and praziquantel
    Landa P., Prerostova S., Langhansova L., Marsik P., Vankova R., Vanek T.
    ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 166 301-310 2018
  • Uncovering macrosyntenic relationships between tetraploid Agropyron cristatum and bread wheat genomes using COS markers
    Said M., Copete A., Gaál E., Molnár I., Cabrera A., Doležel J., Vrána J.
    22nd international chromosome conference. September 2-5-2018 Prague Czech Republic 2018
  • Vacuole Integrity Maintained by DUF300 Proteins Is Required for Brassinosteroid Signaling Regulation
    Liu Q., Vain T., Viotti C., Doyle S. M., Tarkowská D., Novák O., Zipfel C., Sitbon F., Robert S., Hofius D.
    2018
  • When the BRANCHED network bears fruit: How carpic dominance causes fruit dimorphism in Aethionema
    Lenser T., Tarkowská D., Novák O., Wilhelmsson P.K.I., Bennett T., Rensing S.A., Strnad M., Theißen G.
    PLANT JOURNAL 2018
  • Why the European Union needs a national GMO opt-in mechanism
    Eriksson D., de Andrade E., Bohanec B., Chatzopolou S., Defez R., Eriksson N.L., van der Meer P., van der Meulen B., Ritala A., Sági L., Schiemann J., Twardowski T., Vaněk T.
    NATURE BIOTECHNOLOGY 36(1) 18-19 2018

2017