TY - JOUR
T1 - Anchoring of rice BAC clones to the rice genetic map in silico
AU - Yuan, Qiaoping
AU - Liang, Feng
AU - Hsiao, Joseph
AU - Zismann, Victoria
AU - Benito, Maria Ines
AU - Quackenbush, John
AU - Wing, Rod
AU - Buell, Robin
PY - 2000/9/15
Y1 - 2000/9/15
N2 - A wealth of molecular resources have been developed for rice genomics, including dense genetic maps, expressed sequence tags (ESTs), yeast artificial chromosome maps, bacterial artificial chromosome (BAC) libraries and BAC end sequence databases. Integration of genetic and physical maps involves labor-intensive empirical experiments. To accelerate the integration of the bacterial clone resources with the genetic map for the International Rice Genome Sequencing Project, we cleaned and filtered the available EST and BAC end sequences for repetitive sequences and then searched all available rice genetic markers with our filtered databases. We identified 418 genetic markers that aligned with at least one BAC end sequence with >95% sequence identity, providing a set of large insert clones with an average separation of 1 Mb that can serve as nucleation points for the sequencing phase of the International Rice Genome Sequencing Project.
AB - A wealth of molecular resources have been developed for rice genomics, including dense genetic maps, expressed sequence tags (ESTs), yeast artificial chromosome maps, bacterial artificial chromosome (BAC) libraries and BAC end sequence databases. Integration of genetic and physical maps involves labor-intensive empirical experiments. To accelerate the integration of the bacterial clone resources with the genetic map for the International Rice Genome Sequencing Project, we cleaned and filtered the available EST and BAC end sequences for repetitive sequences and then searched all available rice genetic markers with our filtered databases. We identified 418 genetic markers that aligned with at least one BAC end sequence with >95% sequence identity, providing a set of large insert clones with an average separation of 1 Mb that can serve as nucleation points for the sequencing phase of the International Rice Genome Sequencing Project.
UR - http://www.scopus.com/inward/record.url?scp=0034666019&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=0034666019&partnerID=8YFLogxK
U2 - 10.1093/nar/28.18.3636
DO - 10.1093/nar/28.18.3636
M3 - Article
C2 - 10982886
AN - SCOPUS:0034666019
SN - 0305-1048
VL - 28
SP - 3636
EP - 3641
JO - Nucleic acids research
JF - Nucleic acids research
IS - 18
ER -