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

dc.date.accessioned2022-01-18T19:34:39Z
dc.date.available2022-01-18T19:34:39Z
dc.date.created2022-01-18T19:34:39Z
dc.date.issued2012
dc.identifierhttps://hdl.handle.net/20.500.12866/11097
dc.identifierhttps://doi.org/10.1371/journal.pone.0034775
dc.description.abstractThe 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.
dc.languageeng
dc.publisherPublic Library of Science
dc.relationPLoS ONE
dc.relation1932-6203
dc.rightshttps://creativecommons.org/licenses/by-nc-nd/4.0/deed.es
dc.rightsinfo:eu-repo/semantics/restrictedAccess
dc.subjectControlled study
dc.subjectgenetics
dc.subjectmetabolism
dc.subjectnon nucleotide sequence
dc.subjectphylogeny
dc.subjectAmino Acid Sequence
dc.subjectMolecular Sequence Data
dc.subjectgene sequence
dc.subjectgenetic association
dc.subjectProtein Binding
dc.subjectimmunology
dc.subjectsequence homology
dc.subjectBase Sequence
dc.subjectmolecular genetics
dc.subjectchemistry
dc.subjectprotein
dc.subjectBinding Sites
dc.subjectsequence alignment
dc.subjectPhylogeny
dc.subjectgenome analysis
dc.subjectsequence analysis
dc.subjectphylogenetic tree
dc.subjectChromosome Mapping
dc.subjectChromosomes, Plant
dc.subjectgene mapping
dc.subjectGenome, Plant
dc.subjectplant chromosome
dc.subjectpotato
dc.subjectSolanaceae
dc.subjectSolanum tuberosum
dc.subjectgene function
dc.subjectprotein domain
dc.subjectProteins
dc.subjectProtein Structure, Tertiary
dc.subjectPlant Proteins
dc.subjectvegetable protein
dc.subjectdisease resistance
dc.subjectmultigene family
dc.subjectPlant Diseases
dc.subjectMultigene Family
dc.subjectgene location
dc.subjectpseudogene
dc.subjectalternative RNA splicing
dc.subjectchromosome map
dc.subjectConserved Sequence
dc.subjectDisease Resistance
dc.subjectframeshift mutation
dc.subjectGenome-Wide Association Study
dc.subjectinterleukin 1 receptor
dc.subjectleucine
dc.subjectleucine rich repeat proteins
dc.subjectleucine-rich repeat proteins
dc.subjectnucleotide
dc.subjectnucleotide binding site
dc.subjectNucleotides
dc.subjectplant disease
dc.subjectprotein tertiary structure
dc.subjectPseudogenes
dc.subjectSequence Homology, Amino Acid
dc.subjectSolanum phureja
dc.subjectstop codon
dc.subjecttuberosum group
dc.titleGenome-wide identification and mapping of NBS-encoding resistance genes in Solanum tuberosum group phureja.
dc.typeinfo:eu-repo/semantics/article


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