Construction, alignment and analysis of twelve framework physical maps that represent the ten genome types of the genus Oryza.
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.
Kim
HyeRan
H
Arizona Genomics Institute, Department of Plant Sciences, University of Arizona, Tucson, Arizona 85721, USA. kimhr@cnu.ac.kr
Hurwitz
Bonnie
B
Yu
Yeisoo
Y
Collura
Kristi
K
Gill
Navdeep
N
SanMiguel
Phillip
P
Mullikin
James C
JC
Maher
Christopher
C
Nelson
William
W
Wissotski
Marina
M
Braidotti
Michele
M
Kudrna
David
D
Goicoechea
José Luis
JL
Stein
Lincoln
L
Ware
Doreen
D
Jackson
Scott A
SA
Soderlund
Carol
C
Wing
Rod A
RA
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*
D035683:MicroRNAs