title: Construction, alignment and analysis of twelve framework physical maps that represent the ten genome types of the genus Oryza.
abstract: We describe the establishment and analysis of a genus-wide comparative framework composed of 12 bacterial artificial chromosome fingerprint and end-sequenced physical maps representing the 10 genome types of Oryza aligned to the O. sativa ssp. japonica reference genome sequence. Over 932 Mb of end sequence was analyzed for repeats, simple sequence repeats, miRNA and single nucleotide variations, providing the most extensive analysis of Oryza sequence to date.
authors.affiliation: Arizona Genomics Institute, Department of Plant Sciences, University of Arizona, Tucson, Arizona 85721, USA. kimhr@cnu.ac.kr
authors.forename: HyeRan
authors.initials: H
authors.lastname: Kim
authors.forename: Bonnie
authors.initials: B
authors.lastname: Hurwitz
authors.forename: Yeisoo
authors.initials: Y
authors.lastname: Yu
authors.forename: Kristi
authors.initials: K
authors.lastname: Collura
authors.forename: Navdeep
authors.initials: N
authors.lastname: Gill
authors.forename: Phillip
authors.initials: P
authors.lastname: SanMiguel
authors.forename: James C
authors.initials: JC
authors.lastname: Mullikin
authors.forename: Christopher
authors.initials: C
authors.lastname: Maher
authors.forename: William
authors.initials: W
authors.lastname: Nelson
authors.forename: Marina
authors.initials: M
authors.lastname: Wissotski
authors.forename: Michele
authors.initials: M
authors.lastname: Braidotti
authors.forename: David
authors.initials: D
authors.lastname: Kudrna
authors.forename: José Luis
authors.initials: JL
authors.lastname: Goicoechea
authors.forename: Lincoln
authors.initials: L
authors.lastname: Stein
authors.forename: Doreen
authors.initials: D
authors.lastname: Ware
authors.forename: Scott A
authors.initials: SA
authors.lastname: Jackson
authors.forename: Carol
authors.initials: C
authors.lastname: Soderlund
authors.forename: Rod A
authors.initials: RA
authors.lastname: Wing
mesh_terms: D022202:Chromosomes, Artificial, Bacterial / Q000235:genetics; D014644:Genetic Variation; D018745:Genome, Plant; D035683:MicroRNAs / Q000235:genetics; D012275:Oryza / Q000235:genetics*; D020161:Physical Chromosome Mapping; D012091:Repetitive Sequences, Nucleic Acid / Q000235:genetics; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA / Q000379:methods*
chemical_list: D035683:MicroRNAs