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

ORCID

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

Document Type

Article

Publication Title

Genome Biology

ISSN

1474-760X

Publication Date

2-28-2008

Keywords

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

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.

DOI

10.1186/gb-2008-9-2-r45

Volume

9

First Page

R45

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.