Marker Systems Diversity: SNP

Date: Monday, January 14, 2013
Time: 7:00 AM-10:00 PM
Room: Grand Exhibit Hall
SNP Genotyping of Markers with Nearby Secondary Polymorphisms using the Affymetrix® Axiom® Genotyping Solution
Laurent R. Bellon, Affymetrix Inc.; Jeremy Gollub, Affymetrix Inc.; Hong Gao, Affymetrix Inc.; Ali Pirani, Affymetrix, Inc.; Michael Mittmann, Affymetrix Inc.; Michael Shapero, Affymetrix Inc.; Shantanu Kaushikkar, Affymetrix Inc.; Fiona Brew, Affymetrix UK Ltd; Teresa A. Webster, Affymetrix, Inc.

Sequence-based Genotyping for Marker Discovery and Co-dominant Scoring in Germplasm and Populations
Anker P. Sørensen, KeyGene; René C.J. Hogers, KeyGene; Lily H.T. Truong, KeyGene; Lorena DaPonte, KeyGene; Erwin Datema, KeyGene; Jifeng Tang, KeyGene; Antoine Janssen, KeyGene; Nathalie J. van Orsouw, KeyGene; Michiel J.T. van Eijk, KeyGene

Large Scale SNP Genotyping in Various Plant Species
Ralf Wieseke, TraitGenetics GmbH; Gregor Durstewitz, TraitGenetics GmbH; Andreas Polley, TraitGenetics GmbH; Joerg Plieske, TraitGenetics GmbH; Hartmut Luerssen, TraitGenetics GmbH; Eva-Maria Graner, TraitGenetics GmbH

Analysis of Genome-Wide Patterns of Genetic Variation Across Wheat Genome using 90,000 SNP iSelect Assay
Eduard Akhunov, Kansas State University; Shichen Wang, Kansas State University; Shiaoman Chao, USDA-ARS; Gina Brown-Guedira, USDA/ARS PSRU; Deven See, USDA-ARS/Washington State University; Alina Akhunova, Kansas State University; Kerrie Forrest, Department of Primary Industries Victoria; Alexandra M Allen, University of Bristol; Roberto Tuberosa, DipSA - University of Bologna; Michele Morgante, Università Di Udine, Istituto di Genomica Applicata; Luigi Cattivelli, CRA-GPG, Genomics Research Centre; Jan Dvorak, University of California, Davis; Mingcheng Luo, University of California; Mark Sorrells, Cornell University; Catherine Feuillet, INRA GDEC; Jerome Salse, INRA Clermont-Ferrand; Jorge Dubcovsky, University of California Davis & HHMI; Keith J. Edwards, University of Bristol; Martin W. Ganal, TraitGenetics GmbH; Colin Cavanagh, CSIRO, Plant Industry and Food Futures Flagship; Matthew J. Hayden, Department of Primary Industries Victoria

Targeted Re-sequencing of Polyploid Wheat Genome
Katherine Jordan, Kansas State University; Shichen Wang, Kansas State University; Alina Akhunova, Kansas State University; Yanni Lun, Kansas State University; Cyrille Saintenac, Kansas State University; Curtis Pozniak, University of Saskatchewan; Anthony Hall, University of Liverpool; Luther Talbert, Montana State University; Eduard Akhunov, Kansas State University

Diagnostic SNP Assays to Identify Key Canadian Oat Varieties and Variation Among Seed Sources
Benazir K Marquez, University of Ottawa, AAFC; Charlene P. Wight, Agriculture and Agri-Food Canada; Douglas A. Johnson, Department of Biology, University of Ottawa; Nick Tinker, Agriculture and Agri-Food Canada

SNP Mining in Sugarcane through Next-Generation RNA Sequencing
Estela A Costa, University of Campinas- UNICAMP; Claudio Benicio Cardoso- Silva, University of Campinas- UNICAMP; Melina C Mancini, University of Campinas- UNICAMP; Luciana R. Pinto, Centro de Cana, Instituto Agronômico; Antonio A F Garcia, Escola Superior Luiz de Queiroz - USP, Piracicaba - Brasil; Anete P. Souza, Laboratory of Genetics and Molecular Analysis, UNICAMP

Genotyping-by-Sequencing in Switchgrass (Panicum virgatum): Method Development and use in Genetic Diversity Assessment
Ananta Raj Acharya, University of Georgia; Yanling Wei, The Samuel Roberts Noble Foundation; Malay C. Saha, The Samuel Roberts Noble Foundation; Katrien M. Devos, University of Georgia; Charlie Brummer, The Samuel Roberts Noble Foundation

Genome Wide Allele Frequency Fingerprints (GWAFFs) of Populations via Genotyping by Sequencing
Stephen Byrne, Aarhus University; Adrian Czaban, Molecular Biology and Genetics, Aarhus University; Torben Asp, Molecular Biology and Genetics, Aarhus University

An Improved Genotyping-by-Sequencing (GBS) Approach in Soybean Offering Increased Versatility and Efficiency
Francois Belzile, Université Laval; Humira Sonah, Université Laval; Maxime Bastien, Université Laval; Elmer Iquira, Université Laval; Aurélie Tardivel, Université Laval; Gaétan Légaré, Université Laval; Brian Boyle, Université Laval; Jérôme Laroche, Université Laval; Stéphane Larose, Université Laval; Éric Normandeau, Université Laval; Martine Jean, Université Laval

Diversity Analysis in Chickpea Germplasm Using SNP and DArT markers
Manish Roorkiwal, ICRISAT; Eric J von Wettberg, Florida International University; Hari Upadhyaya, ICRISAT; R. Varma Penmetsa, University of California; Douglas R Cook, University of California-Davis, Davis, CA; Rajeev Varshney, ICRISAT

Allelic Diversity and Association Analysis for Candidate Abiotiic Stress Responsive Genes with Drought Tolerance in Chickpea
Manish Roorkiwal, ICRISAT; Spurthi Nayak, University of Florida; Mahendar Thudi, ICRISAT; Hari Upadhyaya, ICRISAT; Rajeev Varshney, ICRISAT; Prakash Sharma, Guru Gobind Singh Indraprastha University

Diversity Assessment in Cajanus Germplasm using Single-Nucleotide Polymorphisms (SNPs)
Rachit Kumar Saxena, ICRISAT; Eric von Wettberg, Florida International University; Hari Upadhyaya, ICRISAT; Serah Songok, Egerton University; Vanessa Sanchez, Florida International University; Paul Kimurto, Egerton University; Douglas R Cook, University of California-Davis, Davis, CA; Rajeev Varshney, ICRISAT

A Novel EPGV Workflow for a Successful Design of 13K SNPs for High Throughput Genotyping on Illumina Array in an Polyploid Species: Rapeseed (Brassica napus L)
Dominique Brunel, INRA, CEA-IG/Centre National de Génotypage; Mathieu Charles, INRA_EPGV; A. Berard, INRA; Aurélie Chauveau, INRA, US1279 EPGV, CEA-IG/ Centre National Genotypage; Marie-Christine Le Paslier, INRA, US1279 EPGV, CEA-IG/Centre National de Génotypage; Patrick Wincker, CEA - Genoscope; Regine Delourme, UMR APBV; Boulos Chalhoub, URGV-INRA

SNP Discovery by Amplicon Sequencing to Study Genetic Diversity in Brassica A Genome
Pirjo Tanhuanpaa, MTT Agrifood Research Finland; M Erkkila, MTT Agrifood Research Finland; J Tanskanen, MTT Agrifood Research Finland; O Manninen, Boreal Plant Breeding Ltd

a-Glucan Phosphorylase: Variability in Solanaceae Species
Elena Kochieva, Centre “Bioengineering” RAS; Maria Slugina, Center “Bioengineering” RAS; Ksenia Boris, Centre “Bioengineering” RAS; Natalia Ryzhova, Centre “Bioengineering” RAS

Genome-Wide Marker-Trait Association Among Ten Horticultural Traits and 322 SNP Markers in a Special Collection of 298 Homozygous Cultivated Lettuce Lines
Jinguo Hu, USDA ARS; Soon-Jae Kwon, USDA-ARS Plant Introduction; Ivan Simko, USDA-ARS; Barbara Hellier, USDA-ARS; Beiquan Mou, USDA-ARS

In silico Discovery of EST-Based SNP Markers Useful for Identification of Citrus Species and Cultivars
Jamila Bernardi, Università Cattolica del Sacro Cuore; Concetta Licciardello, CRA-ACM; Raffaele Mazza, AIA - Italian Breeders Association; Paola Caruso, CRA-ACM; Giuseppe Reforgiato Recupero, CRA-ACM; Adriano Marocco, Università Cattolica del Sacro Cuore

Landscape Genomics of East Texas Loblolly Pine (Pinus taeda L.)
Vikram E. Chhatre, Texas A&M University; Tom D. Byram, TFS - WGFTIP; David Neale, University of California, Davis; Jill Wegrzyn, University of California, Davis; Konstantin V. Krutovsky, Georg-August-University of Göttingen

SNP Diversity of Candidate Genes Encoding Cellulose and Lignin Biosynthetic Enzymes in Populus nigra Clone Bank in Turkey: Its Implications for Conservation and Breeding
Zeki Kaya, Middle East Technical University; Aysun D. Gulsoy, Middle East Technical University; Asiye Ulug, Middle East Technical University; Jill Wegrzyn, University of California, Davis; David Neale, University of California, Davis

Genome-wide SNP Development and Validation for Intraspecific SNPs in Upland Cotton
Amanda M. Hulse, Texas A&M University; Kevin A. Hoegenauer, Texas A&M University; Hamid Ashrafi, Seed Biotechnology Center, University of California; Fei Wang, Texas A&M University; David Stelly, Texas A&M University; Allen Van Deynze, Seed Biotechnology Center, University of California; Lori Hinze, USDA-ARS; John Z. Yu, USDA-ARS, Southern Plains Agricultural Research Center; David Fang, USDA-ARS; Alan E Pepper, Texas A&M University; Joshua A. Udall, Brigham Young University; Z. Jeffrey Chen, The University of Texas at Austin; Don C. Jones, Cotton Incorporated

Development of a High-Throughput SNP Resource to Advance Genomic, Genetic and Breeding Research In Carrot (Daucus carota L.)
Massimo Iorizzo, University of Wisconsin-Madison; Douglas Senalik, USDA, ARS; Shelby L. Ellison, University of Wisconsin-Madison; Dariusz Grzebelus, Agricultural University of Krakow; Pablo Cavagnaro, CONICET, and INTA EEA La Consulta; David Spooner, USDA - ARS; Allen Van Deynze, Seed Biotechnology Center, University of California; Phil Simon, USDA ARS and University of Wisconsin - Madison

Analysis of B. taurus and B. indicus Admixture in Uganda as Revealed by the Illumina BovineSNP50 Genotyping BeadChip.
Lorenzo Bomba, Inst. of Zootechnics, Università Cattolica del S. Cuore; Licia Colli, Inst. of Zootechnics, Università Cattolica del S. Cuore; Marco Milanesi, Inst. of Zootechnics, Università Cattolica del S. Cuore; Fred Kabi, Makerere University; Vincent Muwanika, Makerere University; Charles Masembe, Makerere University; Stephane Joost, EPFL; Sylvie Stucki, EPFL; Pierre Taberlet, LECA - CNRS - Université de Grenoble 1; François Pompanon, LECA - CNRS - Université de Grenoble 1; Raffaele Mazza, Associazione Italiana Allevatori; Alessandra Stella, FPTP; Paolo Ajmone Marsan, Inst. of Zootechnics, Università Cattolica del S. Cuore; Riccardo Negrini, Associazione Italiana Allevatori; The NEXTGEN Consortium, EU funded project, http://nextgen.epfl.ch

Marker to Marker LD: Dependence on Separation Distance and Difference in MAF between the Markers in Relation to the History of the Site, as it Affects Number and Frequency of Marker Haplotypes
Morris Soller, Hebrew University of Jerusalem; Marlies A Dolezal, University of Milan; Alessandro Bagnato, Dept. VESPA, Università degli Studi di Milano; Neil P. O'Sullivan, Hy-Line International; Janet E. Fulton, Hy-Line International; Enrico Santus, ANARB; Ehud Lipkin, Hebrew University of Jerusalem

Using SNP Genotyping Arrays for Kinship and Parentage Analysis in Threatened Equid Species
Jessica Gurr, University of Sydney; Claire M. Wade, University of Sydney

Phenotypic Diversity and QTL Detection of Individual Sugars in RosBREED Apple Germplasm
Yingzhu Guan, Washington State University; Katherine M. Evans, Washington State University; Cameron Peace, Washington State University; James J. Luby, Dept. of Horticultural Science, University of Minnesota; Susan K. Brown, Cornell Univ./NYSAES; Cari A. Schmitz, Dept. of Horticultural Science, University of Minnesota; Matthew D. Clark, Dept. of Horticultural Science, University of Minnesota; Benjamin Orcheski, Cornell University; Sujeet Verma, Washington State University; David Rudell, USDA-ARS; Jerry Tangern, Washington State University; Amy Iezzoni, Michigan State University

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