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Genome-wide identification and mapping of NBS-encoding resistance genes in Solanum tuberosum group phureja.

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dc.contributor.author Lozano, Roberto
dc.contributor.author Ponce, Olga
dc.contributor.author Ramirez, Manuel
dc.contributor.author Mostajo, Nelly
dc.contributor.author Orjeda, Gisella
dc.date.accessioned 2022-01-18T19:34:39Z
dc.date.available 2022-01-18T19:34:39Z
dc.date.issued 2012
dc.identifier.uri https://hdl.handle.net/20.500.12866/11097
dc.description.abstract 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. en_US
dc.language.iso eng
dc.publisher Public Library of Science
dc.relation.ispartofseries PLoS ONE
dc.rights info:eu-repo/semantics/restrictedAccess
dc.rights.uri https://creativecommons.org/licenses/by-nc-nd/4.0/deed.es
dc.subject Controlled study en_US
dc.subject genetics en_US
dc.subject metabolism en_US
dc.subject non nucleotide sequence en_US
dc.subject phylogeny en_US
dc.subject Amino Acid Sequence en_US
dc.subject Molecular Sequence Data en_US
dc.subject gene sequence en_US
dc.subject genetic association en_US
dc.subject Protein Binding en_US
dc.subject immunology en_US
dc.subject sequence homology en_US
dc.subject Base Sequence en_US
dc.subject molecular genetics en_US
dc.subject chemistry en_US
dc.subject protein en_US
dc.subject Binding Sites en_US
dc.subject sequence alignment en_US
dc.subject Phylogeny en_US
dc.subject genome analysis en_US
dc.subject sequence analysis en_US
dc.subject phylogenetic tree en_US
dc.subject Chromosome Mapping en_US
dc.subject Chromosomes, Plant en_US
dc.subject gene mapping en_US
dc.subject Genome, Plant en_US
dc.subject plant chromosome en_US
dc.subject potato en_US
dc.subject Solanaceae en_US
dc.subject Solanum tuberosum en_US
dc.subject gene function en_US
dc.subject protein domain en_US
dc.subject Proteins en_US
dc.subject Protein Structure, Tertiary en_US
dc.subject Plant Proteins en_US
dc.subject vegetable protein en_US
dc.subject disease resistance en_US
dc.subject multigene family en_US
dc.subject Plant Diseases en_US
dc.subject Multigene Family en_US
dc.subject gene location en_US
dc.subject pseudogene en_US
dc.subject alternative RNA splicing en_US
dc.subject chromosome map en_US
dc.subject Conserved Sequence en_US
dc.subject Disease Resistance en_US
dc.subject frameshift mutation en_US
dc.subject Genome-Wide Association Study en_US
dc.subject interleukin 1 receptor en_US
dc.subject leucine en_US
dc.subject leucine rich repeat proteins en_US
dc.subject leucine-rich repeat proteins en_US
dc.subject nucleotide en_US
dc.subject nucleotide binding site en_US
dc.subject Nucleotides en_US
dc.subject plant disease en_US
dc.subject protein tertiary structure en_US
dc.subject Pseudogenes en_US
dc.subject Sequence Homology, Amino Acid en_US
dc.subject Solanum phureja en_US
dc.subject stop codon en_US
dc.subject tuberosum group en_US
dc.title Genome-wide identification and mapping of NBS-encoding resistance genes in Solanum tuberosum group phureja. en_US
dc.type info:eu-repo/semantics/article
dc.identifier.doi https://doi.org/10.1371/journal.pone.0034775
dc.subject.ocde https://purl.org/pe-repo/ocde/ford#3.01.00
dc.relation.issn 1932-6203


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