Construction, alignment and analysis of twelve framework physical maps that represent the ten genome types of the genus Oryza

Persistent Link:
http://hdl.handle.net/10150/610146
Title:
Construction, alignment and analysis of twelve framework physical maps that represent the ten genome types of the genus Oryza
Author:
Kim, HyeRan; Hurwitz, Bonnie; Yu, Yeisoo; Collura, Kristi; Gill, Navdeep; SanMiguel, Phillip; Mullikin, James; Maher, Christopher; Nelson, William; Wissotski, Marina; Braidotti, Michele; Kudrna, David; Goicoechea, Jose; Stein, Lincoln; Ware, Doreen; Jackson, Scott; Soderlund, Carol; Wing, Rod
Affiliation:
Arizona Genomics Institute, Department of Plant Sciences, University of Arizona, Tucson, Arizona 85721, USA; Cold Spring Harbor Laboratory, Cold Spring Harbor, New York 11724, USA; Department of Agronomy, Purdue University, West Lafayette, Indiana 47907, USA; Department of Horticulture, Purdue University, West Lafayette, Indiana 47907, USA; Genome Technology Branch, NHGRI, National Institutes of Health, Bethesda, Maryland, 20892, USA; Department of Biomedical Engineering, Stony Brook University, Stony Brook, New York 11794, USA; Arizona Genomics Computational Laboratory, University of Arizona, Tucson, Arizona 85721, USA; USDA-ARS NAA Plant, Soil and Nutrition Laboratory Research Unit, Ithaca, New York 14853, USA
Issue Date:
2008
Publisher:
BioMed Central
Citation:
Genome Biology 2008, 9:R45 (doi:10.1186/gb-2008-9-2-r45)
Journal:
Genome Biology
Rights:
© 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)
Collection Information:
This item is part of the UA Faculty Publications collection. For more information this item or other items in the UA Campus Repository, contact the University of Arizona Libraries at repository@u.library.arizona.edu.
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
Version:
Final published version
Additional Links:
http://genomebiology.com/2008/9/2/R45

Full metadata record

DC FieldValue Language
dc.contributor.authorKim, HyeRanen
dc.contributor.authorHurwitz, Bonnieen
dc.contributor.authorYu, Yeisooen
dc.contributor.authorCollura, Kristien
dc.contributor.authorGill, Navdeepen
dc.contributor.authorSanMiguel, Phillipen
dc.contributor.authorMullikin, Jamesen
dc.contributor.authorMaher, Christopheren
dc.contributor.authorNelson, Williamen
dc.contributor.authorWissotski, Marinaen
dc.contributor.authorBraidotti, Micheleen
dc.contributor.authorKudrna, Daviden
dc.contributor.authorGoicoechea, Joseen
dc.contributor.authorStein, Lincolnen
dc.contributor.authorWare, Doreenen
dc.contributor.authorJackson, Scotten
dc.contributor.authorSoderlund, Carolen
dc.contributor.authorWing, Roden
dc.date.accessioned2016-05-20T08:59:34Z-
dc.date.available2016-05-20T08:59:34Z-
dc.date.issued2008en
dc.identifier.citationGenome Biology 2008, 9:R45 (doi:10.1186/gb-2008-9-2-r45)en
dc.identifier.doi10.1186/gb-2008-9-2-r45en
dc.identifier.urihttp://hdl.handle.net/10150/610146-
dc.description.abstractWe 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.en
dc.language.isoenen
dc.publisherBioMed Centralen
dc.relation.urlhttp://genomebiology.com/2008/9/2/R45en
dc.rights© 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)en
dc.titleConstruction, alignment and analysis of twelve framework physical maps that represent the ten genome types of the genus Oryzaen
dc.typeArticleen
dc.contributor.departmentArizona Genomics Institute, Department of Plant Sciences, University of Arizona, Tucson, Arizona 85721, USAen
dc.contributor.departmentCold Spring Harbor Laboratory, Cold Spring Harbor, New York 11724, USAen
dc.contributor.departmentDepartment of Agronomy, Purdue University, West Lafayette, Indiana 47907, USAen
dc.contributor.departmentDepartment of Horticulture, Purdue University, West Lafayette, Indiana 47907, USAen
dc.contributor.departmentGenome Technology Branch, NHGRI, National Institutes of Health, Bethesda, Maryland, 20892, USAen
dc.contributor.departmentDepartment of Biomedical Engineering, Stony Brook University, Stony Brook, New York 11794, USAen
dc.contributor.departmentArizona Genomics Computational Laboratory, University of Arizona, Tucson, Arizona 85721, USAen
dc.contributor.departmentUSDA-ARS NAA Plant, Soil and Nutrition Laboratory Research Unit, Ithaca, New York 14853, USAen
dc.identifier.journalGenome Biologyen
dc.description.collectioninformationThis item is part of the UA Faculty Publications collection. For more information this item or other items in the UA Campus Repository, contact the University of Arizona Libraries at repository@u.library.arizona.edu.en
dc.eprint.versionFinal published versionen
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