title: Resistance gene analogue markers are mapped to homeologous chromosomes in cultivated tetraploid cotton.
abstract: Degenerate primers designed from conserved motifs of known plant resistance gene products were used to amplify genomic DNA sequences from the root-knot nematode (Meloidogyne incognita) resistance genetic source, Upland cotton (Gossypium hirsutum) cultivar Auburn 634 RNR. A total of 165 clones were isolated, and sequence analysis revealed 57 of the clones to be novel nucleotide sequences, many containing the resistance (R)-protein nucleotide-binding site motif. A cluster analysis was performed with resistance gene analogue (RGA) nucleotide sequences isolated in this study, in addition to 99 cotton RGA nucleotide sequences already deposited in GenBank, to generate a phylogenetic tree of cotton R genes. The cotton RGA nucleotide sequences were arranged into 11 groups and 56 sub-groups, based on genetic distances. Multiple sequence alignments were performed on the RGA sequences of each sub-group, and either the consensus sequences or individual RGA sequences were used to design 61 RGA-sequence-tagged site primers. A recombinant inbred line (RIL) population of cultivated tetraploid cotton was genotyped using RGA-specific primers that amplified polymorphic fragments between the two RIL parents. Nine RGA markers were mapped to homeologous chromosomes 12 and 26, based on linkage to existing markers that are located on these chromosomes.
authors.affiliation: Department of Agronomy and Horticulture, New Mexico State University, Las Cruces, NM 88003, USA.
authors.forename: Doug J
authors.initials: DJ
authors.lastname: Hinchliffe
authors.forename: Yingzhi
authors.initials: Y
authors.lastname: Lu
authors.forename: Carol
authors.initials: C
authors.lastname: Potenza
authors.forename: Champa
authors.initials: C
authors.lastname: Segupta-Gopalan
authors.forename: Roy G
authors.initials: RG
authors.lastname: Cantrell
authors.forename: Jinfa
authors.initials: J
authors.lastname: Zhang
mesh_terms: D000595:Amino Acid Sequence; D000818:Animals; D001483:Base Sequence; D002874:Chromosome Mapping; D032461:Chromosomes, Plant / Q000235:genetics*; D003001:Cloning, Molecular; D016000:Cluster Analysis; D017931:DNA Primers; D005819:Genetic Markers / Q000235:genetics; D003368:Gossypium / Q000235:genetics* / Q000469:parasitology; D007113:Immunity, Innate / Q000235:genetics*; D008969:Molecular Sequence Data; D010802:Phylogeny; D010935:Plant Diseases / Q000235:genetics / Q000469:parasitology*; D017422:Sequence Analysis, DNA; D014431:Tylenchoidea
chemical_list: D017931:DNA Primers; D005819:Genetic Markers
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