Development of an ultra-dense genetic map of the sunflower genome based on single-feature polymorphisms.

The development of ultra-dense genetic maps has the potential to facilitate detailed comparative genomic analyses and whole genome sequence assemblies. Here we describe the use of a custom Affymetrix GeneChip containing nearly 2.4 million features (25 bp sequences) targeting 86,023 unigenes from sun...

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Autores principales:	John E Bowers, Savithri Nambeesan, Jonathan Corbi, Michael S Barker, Loren H Rieseberg, Steven J Knapp, John M Burke
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2012
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/3177962d835a42b1bf45230408a5df48
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spelling	oai:doaj.org-article:3177962d835a42b1bf45230408a5df482021-11-18T08:04:34ZDevelopment of an ultra-dense genetic map of the sunflower genome based on single-feature polymorphisms.1932-620310.1371/journal.pone.0051360https://doaj.org/article/3177962d835a42b1bf45230408a5df482012-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/23284684/pdf/?tool=EBIhttps://doaj.org/toc/1932-6203The development of ultra-dense genetic maps has the potential to facilitate detailed comparative genomic analyses and whole genome sequence assemblies. Here we describe the use of a custom Affymetrix GeneChip containing nearly 2.4 million features (25 bp sequences) targeting 86,023 unigenes from sunflower (Helianthus annuus L.) and related species to test for single-feature polymorphisms (SFPs) in a recombinant inbred line (RIL) mapping population derived from a cross between confectionery and oilseed sunflower lines (RHA280×RHA801). We then employed an existing genetic map derived from this same population to rigorously filter out low quality data and place 67,486 features corresponding to 22,481 unigenes on the sunflower genetic map. The resulting map contains a substantial fraction of all sunflower genes and will thus facilitate a number of downstream applications, including genome assembly and the identification of candidate genes underlying QTL or traits of interest.John E BowersSavithri NambeesanJonathan CorbiMichael S BarkerLoren H RiesebergSteven J KnappJohn M BurkePublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 7, Iss 12, p e51360 (2012)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q John E Bowers Savithri Nambeesan Jonathan Corbi Michael S Barker Loren H Rieseberg Steven J Knapp John M Burke Development of an ultra-dense genetic map of the sunflower genome based on single-feature polymorphisms.
description	The development of ultra-dense genetic maps has the potential to facilitate detailed comparative genomic analyses and whole genome sequence assemblies. Here we describe the use of a custom Affymetrix GeneChip containing nearly 2.4 million features (25 bp sequences) targeting 86,023 unigenes from sunflower (Helianthus annuus L.) and related species to test for single-feature polymorphisms (SFPs) in a recombinant inbred line (RIL) mapping population derived from a cross between confectionery and oilseed sunflower lines (RHA280×RHA801). We then employed an existing genetic map derived from this same population to rigorously filter out low quality data and place 67,486 features corresponding to 22,481 unigenes on the sunflower genetic map. The resulting map contains a substantial fraction of all sunflower genes and will thus facilitate a number of downstream applications, including genome assembly and the identification of candidate genes underlying QTL or traits of interest.
format	article
author	John E Bowers Savithri Nambeesan Jonathan Corbi Michael S Barker Loren H Rieseberg Steven J Knapp John M Burke
author_facet	John E Bowers Savithri Nambeesan Jonathan Corbi Michael S Barker Loren H Rieseberg Steven J Knapp John M Burke
author_sort	John E Bowers
title	Development of an ultra-dense genetic map of the sunflower genome based on single-feature polymorphisms.
title_short	Development of an ultra-dense genetic map of the sunflower genome based on single-feature polymorphisms.
title_full	Development of an ultra-dense genetic map of the sunflower genome based on single-feature polymorphisms.
title_fullStr	Development of an ultra-dense genetic map of the sunflower genome based on single-feature polymorphisms.
title_full_unstemmed	Development of an ultra-dense genetic map of the sunflower genome based on single-feature polymorphisms.
title_sort	development of an ultra-dense genetic map of the sunflower genome based on single-feature polymorphisms.
publisher	Public Library of Science (PLoS)
publishDate	2012
url	https://doaj.org/article/3177962d835a42b1bf45230408a5df48
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Development of an ultra-dense genetic map of the sunflower genome based on single-feature polymorphisms.

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