3.2 Pasantías y ponencias

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https://hdl.handle.net/20.500.12390/361

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Examinando 3.2 Pasantías y ponencias por Autor "rp00555"
  • Publicación
    Construction of Reference Chromosome-Scale Pseudomolecules for Potato: Integrating the Potato Genome with Genetic and Physical Maps
    (Genetics Society of America, 2013)
    Sharma, SK
    ;
    Bolser, D
    ;
    de Boer, J
    ;
    Sonderkaer, M
    ;
    Amoros, W
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    Carboni, MF
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    D'Ambrosio, JM
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    de la Cruz, G
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    Di Genova, A
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    Douches, DS
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    Eguiluz, M
    ;
    Guo, X
    ;
    Guzman, F
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    Hackett, CA
    ;
    Hamilton, JP
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    Li, GC
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    Li, Y
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    Lozano, R
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    Maass, A
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    Marshall, D
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    Martinez, D
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    McLean, K
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    Mejia, N
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    Milne, L
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    Munive, S
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    Nagy, I
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    Ponce, O
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    Ramirez, M
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    Simon, R
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    Thomson, SJ
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    Torres, Y
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    Waugh, R
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    Zhang, ZH
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    Huang, SW
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    Visser, RGF
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    Bachem, CWB
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    Sagredo, B
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    Feingold, SE
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    Orjeda, G
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    Veilleux, RE
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    Bonierbale, M
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    Jacobs, JME
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    Milbourne, D
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    Martin, DMA
    ;
    Bryan, GJ
    The genome of potato, a major global food crop, was recently sequenced. The work presented here details the integration of the potato reference genome (DM) with a new sequence-tagged site marker2based linkage map and other physical and genetic maps of potato and the closely related species tomato. Primary anchoring of the DM genome assembly was accomplished by the use of a diploid segregating population, which was genotyped with several types of molecular genetic markers to construct a new ~936 cM linkage map comprising 2469 marker loci. In silico anchoring approaches used genetic and physical maps from the diploid potato genotype RH89-039-16 (RH) and tomato. This combined approach has allowed 951 superscaffolds to be ordered into pseudomolecules corresponding to the 12 potato chromosomes. These pseudomolecules represent 674 Mb (~93%) of the 723 Mb genome assembly and 37,482 (~96%) of the 39,031 predicted genes. The superscaffold order and orientation within the pseudomolecules are closely collinear with independently constructed high density linkage maps. Comparisons between marker distribution and physical location reveal regions of greater and lesser recombination, as well as regions exhibiting significant segregation distortion. The work presented here has led to a greatly improved ordering of the potato reference genome superscaffolds into chromosomal “pseudomolecules”.
  • Publicación
    Genome-Wide Identification and Mapping of NBS-Encoding Resistance Genes in Solanum tuberosum Group Phureja
    (PLOS, 2012)
    Lozano, R
    ;
    Ponce, O
    ;
    Ramirez, M
    ;
    Mostajo, N
    ;
    Orjeda, G
    The majority of disease resistance (R) genes identified to date in plants encode a nucleotide-binding site (NBS) and leucine-rich repeat (LRR) domain containing protein. Additional domains such as coiled-coil (CC) and TOLL/interleukin-1 receptor (TIR) domains can also be present. In the recently sequenced Solanum tuberosum group phureja genome we used HMM models and manual curation to annotate 435 NBS-encoding R gene homologs and 142 NBS-derived genes that lack the NBS domain. Highly similar homologs for most previously documented Solanaceae R genes were identified. A surprising ∼41% (179) of the 435 NBS-encoding genes are pseudogenes primarily caused by premature stop codons or frameshift mutations. Alignment of 81.80% of the 577 homologs to S. tuberosum group phureja pseudomolecules revealed non-random distribution of the R-genes; 362 of 470 genes were found in high density clusters on 11 chromosomes.