The Oryza BAC resource: a genus-wide and genome scale tool for exploring rice genome evolution and leveraging useful genetic diversity from wild relatives

Jetty S.S. Ammiraju; Xiang Song; Meizhong Luo; Nicholas Sisneros; Angelina Angelova; David Kudrna; HyeRan Kim; Yeisoo Yu; Jose Luis Goicoechea; Mathias Lorieux; Nori Kurata; Darshan Brar; Doreen Ware; Scott Jackson; Rod A. Wing

doi:10.1270/jsbbs.60.536

Reviews

The Oryza BAC resource: a genus-wide and genome scale tool for exploring rice genome evolution and leveraging useful genetic diversity from wild relatives

Jetty S.S. Ammiraju, Xiang Song, Meizhong Luo, Nicholas Sisneros, Angelina Angelova, David Kudrna, HyeRan Kim, Yeisoo Yu, Jose Luis Goicoechea, Mathias Lorieux, Nori Kurata, Darshan Brar, Doreen Ware, Scott Jackson, Rod A. Wing

Author information

Jetty S.S. Ammiraju
Arizona Genomics Institute, School of Plant Sciences, BIO5 Institute, University of Arizona
Xiang Song
Arizona Genomics Institute, School of Plant Sciences, BIO5 Institute, University of Arizona
Meizhong Luo
College of Life Sciences and Technology, Huazhong Agricultural University
Nicholas Sisneros
Arizona Genomics Institute, School of Plant Sciences, BIO5 Institute, University of Arizona
Angelina Angelova
Arizona Genomics Institute, School of Plant Sciences, BIO5 Institute, University of Arizona
David Kudrna
Arizona Genomics Institute, School of Plant Sciences, BIO5 Institute, University of Arizona
HyeRan Kim
Plant Genomics Institute, Chungnam National University
Yeisoo Yu
Arizona Genomics Institute, School of Plant Sciences, BIO5 Institute, University of Arizona
Jose Luis Goicoechea
Arizona Genomics Institute, School of Plant Sciences, BIO5 Institute, University of Arizona
Mathias Lorieux
Agrobiodiversity and Biotechnology Project, International Center for Tropical Agriculture (CIAT)
Nori Kurata
National Institute of Genetics (NIG)
Darshan Brar
Department of Plant Breeding and Genetics, International Rice Research Institute (IRRI)
Doreen Ware
Cold Spring Harbor Laboratory, Cold Spring Harbor
USDA-ARS NAA Plant, Soil and Nutrition Laboratory Research Unit
Scott Jackson
Department of Agronomy, Purdue University
Rod A. Wing
Arizona Genomics Institute, School of Plant Sciences, BIO5 Institute, University of Arizona

Keywords: Oryza, BACs, OMAP

JOURNAL FREE ACCESS

2010 Volume 60 Issue 5 Pages 536-543

DOI https://doi.org/10.1270/jsbbs.60.536

Details

Abstract

Rice was the first crop to have a high-quality reference genome sequence and is now at the forefront of intense functional and evolutionary research for two reasons—its central role in world food security, and its status as a model system for grasses. A thorough characterization of the rice genome cannot be accomplished without a deep understanding of its evolutionary history. The genus Oryza contains two cultivated and 22 wild rice species that represent 10 distinct genome types embedded within a robust phylogeny spanning a ~15 million year time span. The genus contains an untapped reservoir of agriculturally important traits and a historical record of genomic changes (especially those related to domestication, polyploidy, speciation and adaption).The two main objectives of the ‘Oryza Map Alignment Project’ (OMAP) were to functionally characterize the rice genome from a comparative standpoint and to provide essential tools to leverage the novel genetic diversity from wild relatives for rice improvement. The objective of this review is to summarize our efforts towards developing the most comprehensive genus-wide set of publicly available BAC resources for the genus Oryza, the first of its kind among plants (and perhaps higher eukaryotes), and their applications.

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