Title

Construction, Alignment and Analysis of Twelve Framework Physical Maps that Represent the Ten Genome Types of the Genus Oryza

Authors

HyeRan Kim, University of Arizona
Bonnie Hurwitz, Cold Spring Harbor Laboratory
Yeisoo Yu, University of Arizona
Kristi Collura, University of Arizona
Navdeep Gill, Purdue UniversityFollow
Phillip SanMiguel, Purdue University
James C. Mullikin, National Institutes of Health
Christopher Maher, Stony Brook University
William Nelson, University of Arizona
Marina Wissotski, University of Arizona
Michele Braidotti, University of Arizona
David Kudrna, University of Arizona
José Luis Goicoechea, University of Arizona
Lincoln Stein, Cold Spring Harbor Laboratory
Doreen Ware, Cold Spring Harbor Laboratory
Scott A. Jackson, Purdue University
Carol Soderlund, University of Arizona
Rod A. Wing, University of Arizona

Document Type

Article

Publication Date

2-28-2008

Publication Title

Genome Biology

Keywords

Bacterial Artificial Chromosome, Additional Data File, Bacterial Artificial Chromosome Library, Single Nucleotide Variation, Genome Type

ISSN

1474-760X

Volume

9

First Page

R45

Abstract

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.

Comments

© 2008 Kim et al.; licensee BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Creative Commons License

This work is licensed under a Creative Commons Attribution 4.0 International License.

NSUWorks Citation

Kim, HyeRan; Bonnie Hurwitz; Yeisoo Yu; Kristi Collura; Navdeep Gill; Phillip SanMiguel; James C. Mullikin; Christopher Maher; William Nelson; Marina Wissotski; Michele Braidotti; David Kudrna; José Luis Goicoechea; Lincoln Stein; Doreen Ware; Scott A. Jackson; Carol Soderlund; and Rod A. Wing. 2008. "Construction, Alignment and Analysis of Twelve Framework Physical Maps that Represent the Ten Genome Types of the Genus Oryza." Genome Biology 9, (): R45. doi:10.1186/gb-2008-9-2-r45.

ORCID ID

http://orcid.org/0000-0003-3746-1866

DOI

10.1186/gb-2008-9-2-r45