Development and Validation of 697 Novel Polymorphic Genomic and EST-SSR Markers in the American Cranberry (Vaccinium macrocarpon Ait.)
The American cranberry, Vaccinium macrocarpon Ait., is an economically important North American fruit crop that is consumed because of its unique flavor and potential health benefits. However, a lack of abundant, genome-wide molecular markers has limited the adoption of modern molecular assisted sel...
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doaj-9275f56157e84675af4f29cd351657642020-11-24T22:02:38ZengMDPI AGMolecules1420-30492015-01-012022001201310.3390/molecules20022001molecules20022001Development and Validation of 697 Novel Polymorphic Genomic and EST-SSR Markers in the American Cranberry (Vaccinium macrocarpon Ait.)Brandon Schlautman0Diego Fajardo1Tierney Bougie2Eric Wiesman3James Polashock4Nicholi Vorsa5Shawn Steffan6Juan Zalapa7Department of Horticulture, University of Wisconsin-Madison, 1575 Linden Dr. Madison, WI 53706, USANational Center for Genome Resources, 2935 Rodeo Park Dr. East, Sante Fe, NM 87505, USADepartment of Horticulture, University of Wisconsin-Madison, 1575 Linden Dr. Madison, WI 53706, USAUSDA-ARS, Vegetable Crops Research Unit, University of Wisconsin, Madison, WI 53706, USAUSDA-ARS, Genetic Improvement of Fruits and Vegetables Laboratory, Rutgers University Chatsworth, NJ 08019, USABlueberry and Cranberry Research and Extension Center, Rutgers University, Chatsworth, NJ 08019, USAUSDA-ARS, Vegetable Crops Research Unit, University of Wisconsin, Madison, WI 53706, USADepartment of Horticulture, University of Wisconsin-Madison, 1575 Linden Dr. Madison, WI 53706, USAThe American cranberry, Vaccinium macrocarpon Ait., is an economically important North American fruit crop that is consumed because of its unique flavor and potential health benefits. However, a lack of abundant, genome-wide molecular markers has limited the adoption of modern molecular assisted selection approaches in cranberry breeding programs. To increase the number of available markers in the species, this study identified, tested, and validated microsatellite markers from existing nuclear and transcriptome sequencing data. In total, new primers were designed, synthesized, and tested for 979 SSR loci; 697 of the markers amplified allele patterns consistent with single locus segregation in a diploid organism and were considered polymorphic. Of the 697 polymorphic loci, 507 were selected for additional genetic diversity and segregation analyses in 29 cranberry genotypes. More than 95% of the 507 loci did not display segregation distortion at the p < 0.05 level, and contained moderate to high levels of polymorphism with a polymorphic information content >0.25. This comprehensive collection of developed and validated microsatellite loci represents a substantial addition to the molecular tools available for geneticists, genomicists, and breeders in cranberry and Vaccinium.http://www.mdpi.com/1420-3049/20/2/2001microsatelliteSSR MiningESTEricaceae |
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DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Brandon Schlautman Diego Fajardo Tierney Bougie Eric Wiesman James Polashock Nicholi Vorsa Shawn Steffan Juan Zalapa |
spellingShingle |
Brandon Schlautman Diego Fajardo Tierney Bougie Eric Wiesman James Polashock Nicholi Vorsa Shawn Steffan Juan Zalapa Development and Validation of 697 Novel Polymorphic Genomic and EST-SSR Markers in the American Cranberry (Vaccinium macrocarpon Ait.) Molecules microsatellite SSR Mining EST Ericaceae |
author_facet |
Brandon Schlautman Diego Fajardo Tierney Bougie Eric Wiesman James Polashock Nicholi Vorsa Shawn Steffan Juan Zalapa |
author_sort |
Brandon Schlautman |
title |
Development and Validation of 697 Novel Polymorphic Genomic and EST-SSR Markers in the American Cranberry (Vaccinium macrocarpon Ait.) |
title_short |
Development and Validation of 697 Novel Polymorphic Genomic and EST-SSR Markers in the American Cranberry (Vaccinium macrocarpon Ait.) |
title_full |
Development and Validation of 697 Novel Polymorphic Genomic and EST-SSR Markers in the American Cranberry (Vaccinium macrocarpon Ait.) |
title_fullStr |
Development and Validation of 697 Novel Polymorphic Genomic and EST-SSR Markers in the American Cranberry (Vaccinium macrocarpon Ait.) |
title_full_unstemmed |
Development and Validation of 697 Novel Polymorphic Genomic and EST-SSR Markers in the American Cranberry (Vaccinium macrocarpon Ait.) |
title_sort |
development and validation of 697 novel polymorphic genomic and est-ssr markers in the american cranberry (vaccinium macrocarpon ait.) |
publisher |
MDPI AG |
series |
Molecules |
issn |
1420-3049 |
publishDate |
2015-01-01 |
description |
The American cranberry, Vaccinium macrocarpon Ait., is an economically important North American fruit crop that is consumed because of its unique flavor and potential health benefits. However, a lack of abundant, genome-wide molecular markers has limited the adoption of modern molecular assisted selection approaches in cranberry breeding programs. To increase the number of available markers in the species, this study identified, tested, and validated microsatellite markers from existing nuclear and transcriptome sequencing data. In total, new primers were designed, synthesized, and tested for 979 SSR loci; 697 of the markers amplified allele patterns consistent with single locus segregation in a diploid organism and were considered polymorphic. Of the 697 polymorphic loci, 507 were selected for additional genetic diversity and segregation analyses in 29 cranberry genotypes. More than 95% of the 507 loci did not display segregation distortion at the p < 0.05 level, and contained moderate to high levels of polymorphism with a polymorphic information content >0.25. This comprehensive collection of developed and validated microsatellite loci represents a substantial addition to the molecular tools available for geneticists, genomicists, and breeders in cranberry and Vaccinium. |
topic |
microsatellite SSR Mining EST Ericaceae |
url |
http://www.mdpi.com/1420-3049/20/2/2001 |
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