Centre of Plant Structural and
Functional Genomics
of the Institute of Experimental Botany AS CR

2013

• Plant Genome Diversity, Volume 2.
  Leitch, I.J., Greilhuber, J., Doležel, J., Wendel, J.F. (eds.)
• Comparative analysis of syntenic genes in grass genomes reveals accelerated rates of gene structure and coding sequence evolution in polyploid wheat
  Akhunov, E.D., Sehgal, S., Liang, H., Wang, S., Akhunova, A.R., Kaur, G., Li, W., Forrest, K.L., See, D., Šimková, H., Ma, Y., Hayden, M.J., Luo, M., Faris, J.D., Doležel, J., Gill, B.S.
  PLANT PHYSIOLOGY 161, 252–265, 2013 Fulltext: PDF link on intranet only
• Molecular analysis and genomic organization of major DNA satellites in banana (Musa spp.)
  Čížková, J., Hřibová, E., Humplíková, L., Christelová, P., Suchánková, P., Doležel, J.
  PLoS ONE 8, e54808, 2013 Fulltext: PDF link on intranet only
• Genotype-specific SNP map based on whole chromosome 3B sequence information from wheat cultivars Arina and Forno
  Shatalina, M., Wicker, T., Buchmann, J.P., Oberhaensli, S., Šimková, H., Doležel, J., Keller, B.
  PLANT BIOTECHNOLOGY JOURNAL 11, 23-32, 2013 Fulltext: PDF link on intranet only
• Expansion of microsatellites on evolutionary young Y chromosome
  Kejnovský, E., Michalovova, M., Steflova, P., Kejnovska, I., Manzano, S., Hobza, R., Kubat, Z., Kovarik, J., Jamilena, M., Vyskot, B.
  PLoS ONE 8(1), e45519, 2013 Fulltext: PDF link on intranet only
• A 4-gigabase physical map unlocks the structure and evolution of the complex genome of Aegilops tauschii, the wheat D-genome progenitor
  Luo, M.-C., Gu, Y.Q., You, F.M., Deal, K.R., Ma, Y., Hu, Y., Huo, N., Wang, Y., Wang, J., Chen, S., Jorgensen, C.M., Zhang, Y., McGuire, P.E., Pasternak, S., Stein, J.C., Ware, D., Kramer, M., McCombie, W.R., Kianian, S.F., Martis, M.M., Mayer, K.F.X., Sehgal, S.K., Li, W., Gill, B.S., Bevan, M.W., Šimková, H., Doležel, J., Weining, S., Lazo, G.R., Anderson, O.D., Dvorak, J.
  PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 110, 7940-7945, 2013 Fulltext: PDF link on intranet only
• A high density physical map of chromosome 1BL supports evolutionary studies, map-based cloning and sequencing in wheat
  Philippe, R., Paux, E., Bertin, I., Sourdille, P., Choulet, F., Laugier, C., Šimková, H., Šafář, J., Bellec, A., Vautrin, S., Frenkel, Z., Cattonaro, F., Magni, F., Scalabrin, S., Martis, M.M., Mayer, K.F.X., Korol, A., Bergès, H., Doležel, J., Feuillet, C.
  GENOME BIOLOGY 14, R64, 2013 Fulltext: PDF link on intranet only
• A radiation hybrid map of chromosome 1D reveals synteny conservation at a wheat speciation locus
  Michalak de Jimenez, M.K., Bassi, F.M., Ghavami, F., Simons, K., Dizon, R., Seetan, R.I., Alnemer, L.M., Denton, A.M., Doğramacı, M., Šimková, H., Doležel, J., Seth, K., Luo, M.-C., Dvorak, J., Gu, Y.Q., Kianian, S.F.
  FUNCTIONAL & INTEGRATIVE GENOMICS 13, 19-32, 2013 Fulltext: PDF link on intranet only
• A simple and robust approach for genotyping in Musaceae
  Hřibová, E., Christelová, P., Roux, N., Doležel, J.
  ACTA HORTICULTURAE 986, 241-246, 2013 Fulltext: PDF link on intranet only
• Contrasting patterns of evolution of 45S and 5S rDNA families uncover new aspects in the genome constitution of the agronomically important grass Thinopyrum intermedium (Triticeae)
  Mahelka, V., Kopecký, D., Baum, B.R.
  MOLECULAR BIOLOGY AND EVOLUTION 30(9), 2065-2086, 2013 Fulltext: PDF link on intranet only
• Contrasting patterns of transposable element and satellite distribution on sex chromosomes (XY1Y2) in the dioecious plant Rumex acetosa
  Steflova, P., Tokan, V., Vogel, I., Lexa, M., Macas, J., Novak, P., Hobza, R., Vyskot, B., Kejnovsky, E.
  GENOME BIOLOGY AND EVOLUTION 5, 769-782, 2013 Fulltext: PDF link on intranet only
• Development of COS-SNP and HRM markers for high-throughput and reliable haplotype-based detection of Lr14a in durum wheat (Triticum durum Desf.)
  Terracciano, I., Maccaferri, M., Bassi, F., Mantovani, P., Sanguineti, M.C., Salvi, S., Šimková, H., Doležel, J., Massi, A., Ammar, K., Kolmer, J., Tuberosa, R.
  THEORETICAL AND APPLIED GENETICS 126, 1077-1101, 2013 Fulltext: PDF link on intranet only
• Dispersion and domestication shaped the genome of bread wheat
  Berkman, P.J., Visendi, P., Lee, H.C., Stiller, J., Manoli, S., Lorenc, M.T., Lai, K., Batley, J., Fleury, D., Šimková, H., Kubaláková, M., Weining, S., Doležel, J., Edwards, D.
  PLANT BIOTECHNOLOGY JOURNAL 11, 564-571, 2013 Fulltext: PDF link on intranet only
• Draft genome sequence of chickpea (Cicer arietinum) provides a resource for trait improvement
  Varshney, R.K., Song, C., Saxena, R.K., Azam, S., Yu, S., Sharpe, A.G., Cannon, S., Baek, J., Rosen, B.D., Tar’an, B., Millan, T., Zhang, X., Ramsay, L.D., Iwata, A., Wang, Y., Nelson, W., Farmer, A.D., Gaur, P.M., Soderlund, C., Penmetsa, R.V., Xu, C., Bharti, A.K., He, W., Winter, P., Zhao, S., Hane, J.K., Carrasquilla-Garcia, N., Condie, J.A., Upadhyaya, H.D., Luo, M.-C., Thudi, M., Gowda, C.L.L., Singh, N.P., Lichtenzveig, J., Gali, K.K., Rubio, J., Nadarajan, N., Doležel, J., Bansal, K.C., Xu, X., Edwards, D., Zhang, G., Kahl, G., Gil, J., Singh, K.B., Datta, S.K., Jackson, S.A., Wang, J., Cook, D.R.
  NATURE BIOTECHNOLOGY 31, 240-246, 2013 Fulltext: PDF link on intranet only
• Genome size variation in Orchidaceae subfamily Apostasioideae: filling the phylogenetic gap
  Jersáková, J., Trávníček, P., Kubátová, B., Krejčíková, J., Urfus, T., Liu, Z.-J., Lamb, A., Ponert, J., Schulte, K., Čurn, V., Vrána, J., Leitch, I.J., Suda, J.
  BOTANICAL JOURNAL OF THE LINNEAN SOCIETY 172, 95-105, 2013 Fulltext: PDF link on intranet only
• Integration of mate pair sequences to improve shotgun assemblies of flow-sorted chromosome arms of hexaploid wheat
  Belova, T., Zhan, B., Wright, J., Caccamo, M., Asp, T., Šimková, H., Kent, M., Bendixen, C., Panitz, F., Lien, S., Doležel, J., Olsen, O.-A., Sandve, S.R.
  BMC GENOMICS 14, 222, 2013 Fulltext: PDF link on intranet only
• NITRILASE1 regulates the exit from proliferation, genome stability and plant development.
  Doskočilová A., Kohoutová L., Volc J., Kourová H., Benada O., Chumová J., Plíhal O., Petrovská B., Halada P., Bögre L., Binarová P.
  NEW PHYTOLOGIST 198, 685-698, 2013
• Physical mapping integrated with syntenic analysis to characterize the gene space of the long arm of wheat chromosome 1A.
  Lucas, S.J., Akpınar, B.A., Kantar, M., Weinstein, Z., Aydınoglu, F., Šafář, J., Šimková, H., Frenkel, Z., Korol, A., Magni, F., Cattonaro, F., Vautrin, S., Bellec, A., Berges, H., Doležel, J., Budak, H.
  PLoS ONE 8, e59542, 2013 Fulltext: PDF link on intranet only
• Syntenic relationships between the U and M genomes of Aegilops, wheat and the model species Brachypodium and rice as revealed by COS markers
  Molnár, I., Šimková, H., Leverington-Waite, M., Goram, R., Cseh, A., Vrána, J., Farkas, A., Doležel, J., Molnár-Láng, M., Griffiths, S.
  PLoS ONE 8, e70844, 2013 Fulltext: PDF link on intranet only
• The wheat powdery mildew genome shows the unique evolution of an obligate biotroph
  Wicker, T., Oberhaensli, S., Parlange, F., Buchmann, J.P., Shatalina, M., Roffler, S., Ben-David, R., Doležel, J., Šimková, H., Schulze-Lefert, P., Spanu, P.D., Bruggmann, R., Amselem, J., Quesneville, H., Ver Loren van Themaat, E., Paape, T., Shimizu, K.K., Keller, B.
  NATURE GENETICS 45, 1092-1096, 2013 Fulltext: PDF link on intranet only