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Abstract Detail


Genome Evolution

Wing, Rod [1], Kim, HyeRan [2], Goicoechea, Jose Luis [2], Hurwitz, Bonnie [3], Yu, Yeisoo [2], Nelson, Will [4], Kudrna, Dave [2], Zuccolo, Andrea [2], Ammiraju, Jetty [2], Luo, Meizhong [2], Collura, Kristi [5], Sanchez, Paul [2], Song, Xiang [2], Fan, Chuanzhu [2], Ma, Jianxin [6], San Miguel, Phillip [7], Ware, Doreen [3], Soderlund, Carol [4], Stein, Lincoln [3], Jackson, Scott [8].

The Oryza Map Alignment Project: A new resource for comparative genome studies within Oryza.

With the completion of a finished genome sequence we must now functionally characterize the rice genome by a variety of methods including comparative genomic analysis between cereal species and within the genus Oryza. Oryza contains 2 cultivated and 22 wild species that represent 10 distinct genome types. The wild species, in particular, contain an essentially untapped reservoir of agriculturally important genes that must be harnessed if we are to maintain a safe and secure food supply for the 21st century. OMAP was established two years ago to generate a comprehensive set of genomics resources to investigate genome evolution and enhance positional cloning efforts in the genus Oryza. To date we have generated: A) 12 high quality BAC libraries that encompass the 10 genome types of Oryza; B) ~1000 Mb of BAC end sequence from these libraries; and C) SNaPshot fingerprint databases for all 12 libraries. All of these resources are publicly available through the AGI BAC/EST Resource Center, GenBank or at www.OMAP.org. The fingerprints and end sequences (BES) have been combined to develop 12 phase I physical maps. Eight of these physical maps, O. nivara [AA], O. rufipogon [AA], O. glaberrima [AA], O. punctata [BB], O. officinalis [CC], O. australiensis [EE], brachyantha [FF], and O. minuta [AABB] have been heavily manually edited (HME) and aligned to the reference rice genome sequence. These alignments have revealed a large array of genome rearrangements relative to the IRGSP reference sequence and have allowed us to begin draw a more complete picture of Oryza genome evolution. In this poster we will present the current status of OMAP and discuss recent analysis of the HME maps, a global analysis of structural variation among the AA genome species, comparative sequence analysis of select loci across Oryza.


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The Oryza Map Alignment Project


1 - Arizona Genomics Institute, University of Arizona, Plant Sciences, PO Box 210036, Forbes 303, Tucson, AZ, 85721, USA
2 - Arizona Genomics Institute, University of Arizona, Plant Sciences
3 - Cold Spring Harbor, Cold Spring Harbor Laboratory
4 - University of Arizona, Arizona Computational Laboratory
5 - Arizona Genomics Institute, University of Arizona,, Plant Sciences
6 - University of Purdue, Dept. of Agronomy
7 - Purdue University, Genomics Core Facility
8 - Purdue University, Dept. of Agronomy

Keywords:
Omap
Oryza
wild rice
BAC libraries
Physical Map.

Presentation Type: Plant Biology Abstract
Session: P
Location: Exhibit Hall (Northeast, Southwest & Southeast)/Hilton
Date: Sunday, July 8th, 2007
Time: 8:00 AM
Number: P40019
Abstract ID:2100


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