Institute of Experimental Botany AS CR
We are Discovering the Plant World

Identifying new sex-linked genes through BAC sequencing in the dioecious plant Silene latifolia

Blavet, N., Blavet, H., Muyle, A., Käfer, J., Cegan, R., Deschamps, C., Zemp, N., Mousset, S., Aubourg, S., Bergero, R., Charlesworth, D., Hobza, R., Widmer, A., Marais, G.A.B.
BMC GENOMICS 16 : 546 , 2015
Keywords: Sex chromosomes, Sex-linked genes, Plant, BAC, RNA-seq, Gene loss, Y degeneration, Silene latifolia, Silene vulgaris

High transcript abundance, RNA editing, and small RNAs in intergenic regions within the massive mitochondrial genome of the angiosperm Silene noctiflora

Wu Z.Q., Stone J.D., Štorchová H., Sloan D.B.
BMC GENOMICS in press : , 2015
Keywords: antisense RNA; junk DNA; mtDNA; ORFs; plant mitochondrial genome; regulatory RNA; spurious transcription

Radiation hybrid maps of the D-genome of Aegilops tauschii and their application in sequence assembly of large and complex plant genomes

Kumar, A., Seetan, R., Mergoum, M., Tiwari, V.K., Iqbal, M.J., Wang, Y., Al-Azzam, O., Šimková, H., Luo, M.C., Dvorak, J., Gu, Y.Q., Denton, A., Kilian, A., Lazo, G.R., Kianian, S.F.
BMC GENOMICS 16 : 800 , 2015
Keywords: Aegilops tauschii, Deletion, Physical mapping, Radiation hybrid mapping, Sequence assembly, Wheat

A high-resolution physical map integrating an anchored chromosome with the BAC physical maps of wheat chromosome 6B

Kobayashi, F., Wu, J., Kanamori, H., Tanaka, T., Katagiri, S., Karasawa, W., Kaneko, S., Watanabe, S., Sakaguchi, T., Hanawa, Y., Fujisawa, H., Kurita, K., Abe, C., Iehisa, J.C.M., Ohno, R., Šafář, J., Šimková, H., Mukai, Y., Hamada, M., Saito, M., Ishikawa, G., Katayose, Y., Endo, T.R., Takumi, S., Nakamura, T., Sato, K., Ogihara, Y., Hayakawa, K., Doležel, J., Nasuda, S., Matsumoto, T., Handa, H.
BMC GENOMICS 16 : 595 , 2015
Keywords: Centromere, Chromosomal rearrangement, Chromosome 6B, DNA marker, Gene order, Nucleolus organizer region, BAC physical map, RH map, Synteny, Wheat

The physical map of wheat chromosome 5DS revealed gene duplications and small rearrangements

Akpinar, B.A., Magni, F., Yuce, M., Lucas, S.J., Šimková, H., Šafář, J., Vautrin, S., Bergès, H., Cattonaro, F., Doležel. J., Budak, H.
BMC GENOMICS 16 : 453 , 2015
Keywords: Triticum aestivum, 5DS, Hexaploid wheat, Physical mapping, Gene space, Grass evolution

Characterization of repetitive DNA landscape in wheat homeologous group 4 chromosomes

Garbus, I., Romero, J.R., Valárik, M., Vanžurová, H., Karafiátová, M., Cáccamo, M., Doležel, J., Tranquilli, G., Helguera, M., Echenique,V.
BMC GENOMICS 16 : 375 , 2015
Keywords:

Next-generation sequencing of flow-sorted wheat chromosome 5D reveals lineage-specific translocations and widespread gene duplications

Lucas, S.J., Akpınar, B.A., Šimková, H., Kubaláková, M., Doležel, J., Budak, H.
BMC GENOMICS 15 : 1080 , 2014
Keywords: Wheat genome, Chromosome sorting, Triticum aestivum, Genome zipper, Triticeae genome, Chromosome arm shotgun, Comparative grass genomics

SNP Discovery for mapping alien introgressions in wheat

Tiwari, V.K., Wang, S., Sehgal, S., Vrána, J., Friebe, B., Kubaláková, M., Chhuneja, P., Doležel, J., Akhunov, E., Kalia, B., Sabir, J., Gill, B.S.
BMC GENOMICS 15 : 273 , 2014
Keywords:

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
Keywords: Wheat, Assembly, Scaffold, Mate-pair, MDA, Improvement

Comparative analysis of a plant pseudoautosomal region (PAR) in Silene latifolia with the corresponding S. vulgaris autosome

Blavet, N., Blavet, H., Čegan, R., Zemp, N., Zdanska, J., Janoušek, B., Hobza, R., Widmer, A.
BMC GENOMICS 13 : 226 , 2012
Keywords: BAC library, Pseudoautosomal region, PAR, Silene latifolia, Sex chromosome, Evolution