Cargando…

A comparative map viewer integrating genetic maps for Brassica and Arabidopsis

BACKGROUND: Molecular genetic maps provide a means to link heritable traits with underlying genome sequence variation. Several genetic maps have been constructed for Brassica species, yet to date, there has been no simple means to compare this information or to associate mapped traits with the genom...

Descripción completa

Detalles Bibliográficos
Autores principales: Lim, Geraldine AC, Jewell, Erica G, Li, Xi, Erwin, Timothy A, Love, Christopher, Batley, Jacqueline, Spangenberg, German, Edwards, David
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2007
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1940001/
https://www.ncbi.nlm.nih.gov/pubmed/17645810
http://dx.doi.org/10.1186/1471-2229-7-40
_version_ 1782134425155272704
author Lim, Geraldine AC
Jewell, Erica G
Li, Xi
Erwin, Timothy A
Love, Christopher
Batley, Jacqueline
Spangenberg, German
Edwards, David
author_facet Lim, Geraldine AC
Jewell, Erica G
Li, Xi
Erwin, Timothy A
Love, Christopher
Batley, Jacqueline
Spangenberg, German
Edwards, David
author_sort Lim, Geraldine AC
collection PubMed
description BACKGROUND: Molecular genetic maps provide a means to link heritable traits with underlying genome sequence variation. Several genetic maps have been constructed for Brassica species, yet to date, there has been no simple means to compare this information or to associate mapped traits with the genome sequence of the related model plant, Arabidopsis. DESCRIPTION: We have developed a comparative genetic map database for the viewing, comparison and analysis of Brassica and Arabidopsis genetic, physical and trait map information. This web-based tool allows users to view and compare genetic and physical maps, search for traits and markers, and compare genetic linkage groups within and between the amphidiploid and diploid Brassica genomes. The inclusion of Arabidopsis data enables comparison between Brassica maps that share no common markers. Analysis of conserved syntenic blocks between Arabidopsis and collated Brassica genetic maps validates the application of this system. This tool is freely available over the internet on . CONCLUSION: This database enables users to interrogate the relationship between Brassica genetic maps and the sequenced genome of A. thaliana, permitting the comparison of genetic linkage groups and mapped traits and the rapid identification of candidate genes.
format Text
id pubmed-1940001
institution National Center for Biotechnology Information
language English
publishDate 2007
publisher BioMed Central
record_format MEDLINE/PubMed
spelling pubmed-19400012007-08-07 A comparative map viewer integrating genetic maps for Brassica and Arabidopsis Lim, Geraldine AC Jewell, Erica G Li, Xi Erwin, Timothy A Love, Christopher Batley, Jacqueline Spangenberg, German Edwards, David BMC Plant Biol Database BACKGROUND: Molecular genetic maps provide a means to link heritable traits with underlying genome sequence variation. Several genetic maps have been constructed for Brassica species, yet to date, there has been no simple means to compare this information or to associate mapped traits with the genome sequence of the related model plant, Arabidopsis. DESCRIPTION: We have developed a comparative genetic map database for the viewing, comparison and analysis of Brassica and Arabidopsis genetic, physical and trait map information. This web-based tool allows users to view and compare genetic and physical maps, search for traits and markers, and compare genetic linkage groups within and between the amphidiploid and diploid Brassica genomes. The inclusion of Arabidopsis data enables comparison between Brassica maps that share no common markers. Analysis of conserved syntenic blocks between Arabidopsis and collated Brassica genetic maps validates the application of this system. This tool is freely available over the internet on . CONCLUSION: This database enables users to interrogate the relationship between Brassica genetic maps and the sequenced genome of A. thaliana, permitting the comparison of genetic linkage groups and mapped traits and the rapid identification of candidate genes. BioMed Central 2007-07-24 /pmc/articles/PMC1940001/ /pubmed/17645810 http://dx.doi.org/10.1186/1471-2229-7-40 Text en Copyright © 2007 Lim et al; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 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.
spellingShingle Database
Lim, Geraldine AC
Jewell, Erica G
Li, Xi
Erwin, Timothy A
Love, Christopher
Batley, Jacqueline
Spangenberg, German
Edwards, David
A comparative map viewer integrating genetic maps for Brassica and Arabidopsis
title A comparative map viewer integrating genetic maps for Brassica and Arabidopsis
title_full A comparative map viewer integrating genetic maps for Brassica and Arabidopsis
title_fullStr A comparative map viewer integrating genetic maps for Brassica and Arabidopsis
title_full_unstemmed A comparative map viewer integrating genetic maps for Brassica and Arabidopsis
title_short A comparative map viewer integrating genetic maps for Brassica and Arabidopsis
title_sort comparative map viewer integrating genetic maps for brassica and arabidopsis
topic Database
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1940001/
https://www.ncbi.nlm.nih.gov/pubmed/17645810
http://dx.doi.org/10.1186/1471-2229-7-40
work_keys_str_mv AT limgeraldineac acomparativemapviewerintegratinggeneticmapsforbrassicaandarabidopsis
AT jewellericag acomparativemapviewerintegratinggeneticmapsforbrassicaandarabidopsis
AT lixi acomparativemapviewerintegratinggeneticmapsforbrassicaandarabidopsis
AT erwintimothya acomparativemapviewerintegratinggeneticmapsforbrassicaandarabidopsis
AT lovechristopher acomparativemapviewerintegratinggeneticmapsforbrassicaandarabidopsis
AT batleyjacqueline acomparativemapviewerintegratinggeneticmapsforbrassicaandarabidopsis
AT spangenberggerman acomparativemapviewerintegratinggeneticmapsforbrassicaandarabidopsis
AT edwardsdavid acomparativemapviewerintegratinggeneticmapsforbrassicaandarabidopsis
AT limgeraldineac comparativemapviewerintegratinggeneticmapsforbrassicaandarabidopsis
AT jewellericag comparativemapviewerintegratinggeneticmapsforbrassicaandarabidopsis
AT lixi comparativemapviewerintegratinggeneticmapsforbrassicaandarabidopsis
AT erwintimothya comparativemapviewerintegratinggeneticmapsforbrassicaandarabidopsis
AT lovechristopher comparativemapviewerintegratinggeneticmapsforbrassicaandarabidopsis
AT batleyjacqueline comparativemapviewerintegratinggeneticmapsforbrassicaandarabidopsis
AT spangenberggerman comparativemapviewerintegratinggeneticmapsforbrassicaandarabidopsis
AT edwardsdavid comparativemapviewerintegratinggeneticmapsforbrassicaandarabidopsis