Anchor probes for comparative mapping of grass genera |
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Authors: | A E Van Deynze M E Sorrells W D Park N M Ayres H Fu S W Cartinhour E Paul S R McCouch |
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Institution: | (1) Department of Plant Breeding and Biometry, Cornell University, Ithaca, NY 14853, USA Fax: +1 607-255-6683 E-mail: srm4@cornell.edu, US;(2) Department of Biochemistry and Biophysics, Texas A&M University, College Park, TX 77843-2128, and Crop Biotechnology Center, Texas A&M University, College Station, TX 77843-2123, USA, US;(3) Department of Biochemistry and Biophysics, Texas A&M University, College Park, TX 77843-2128, USA, US |
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Abstract: | Comparative mapping of cDNA clones provides an important foundation for examining structural conservation among the chromosomes
of diverse genera and for establishing hypotheses about the relationship between gene structure and function in a wide range
of organisms. In this study, “anchor probes” were selected from cDNA libraries developed from rice, oat, and barley that were
informative for comparative mapping in the grass family. One thousand eight hundred probes were screened on garden blots containing
DNA of rice, maize, sorghum, sugarcane, wheat, barley, and oat, and 152 of them were selected as “anchors” because (1) they
hybridized to the majority of target grass species based on Southern analysis, (2) they appeared to be low or single copy
in rice, and (3) they helped provide reasonably good genome coverage in all species. Probes were screened for polymorphism
on mapping parents, and polymorphic markers were mapped onto existing species-specific linkage maps of rice, oat, maize, and
wheat. In wheat, both polymorphic and monomorphic markers could be assigned to chromosomes or chromosome arms based on hybridization
to nullitetrasomic and ditelosomic stocks. Linkage among anchored loci allowed the identification of homoeologous regions
of these distantly related genomes. Anchor probes were sequenced from both ends, providing an average of 260 bp in each direction,
and sequences were deposited in GenBank. BLAST was used to compare the sequences with each other and with a non-redundant
protein sequence database maintained at the European Molecular Biology Laboratory (EMBL). Of the anchor probes identified
in this study 78% showed significant similarity to protein sequences for known genes with BLASTX scores exceeding 100.
Received: 27 June 1997 / Accepted: 17 July 1997 |
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Keywords: | Grass family Anchor probes cDNA libraries Comparative mapping |
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