Abstract
Sunflower germplasm collections are valuable resources for broadening the genetic base of commercial hybrids and ameliorate the risk of climate events. Nowadays, the most studied worldwide sunflower pre-breeding collections belong to INTA (Argentina), INRA (France), and USDA-UBC (United States of America-Canada). In this work, we assess the amount and distribution of genetic diversity (GD) available within and between these collections to estimate the distribution pattern of global diversity. A mixed genotyping strategy was implemented, by combining proprietary genotyping-by-sequencing data with public whole-genome-sequencing data, to generate an integrative 11,834-common single nucleotide polymorphism matrix including the three breeding collections. In general, the GD estimates obtained were moderate. An analysis of molecular variance provided evidence of population structure between breeding collections. However, the optimal number of subpopulations, studied via discriminant analysis of principal components (K = 12), the bayesian STRUCTURE algorithm (K = 6) and distance-based methods (K = 9) remains unclear, since no single unifying characteristic is apparent for any of the inferred groups. Different overall patterns of linka...Continue Reading
References
May 17, 2005·Genome Biology·Karen EilbeckMichael Ashburner
Jun 23, 2005·Molecular Ecology·G EvannoJ Goudet
Jan 25, 2008·BMC Plant Biology·Corina M FusariNorma B Paniego
Apr 10, 2008·Bioinformatics·Thibaut Jombart
Jul 21, 2010·Genome Research·Aaron McKennaMark A DePristo
May 17, 2011·PloS One·Robert J ElshireSharon E Mitchell
Jun 4, 2011·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·J R MandelJ M Burke
Mar 3, 2012·G3 : Genes - Genomes - Genetics·Julian M CatchenJohn H Postlethwait
Mar 6, 2012·Nature Methods·Ben Langmead, Steven L Salzberg
May 2, 2012·Genomics·Xi Chen, Hemant Ishwaran
Jun 8, 2012·PloS One·Brant K PetersonHopi E Hoekstra
Jun 13, 2012·Bioinformatics·Valentin WimmerChris-Carolin Schön
Oct 13, 2012·Bioinformatics·Xiuwen ZhengBruce S Weir
Oct 31, 2012·Journal of Biosciences·Andreas BörnerMarion S Röder
Feb 26, 2013·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Elena CadicPatrick Vincourt
Apr 5, 2013·PLoS Genetics·Jennifer R MandelJohn M Burke
Apr 2, 2014·PeerJ·Zhian N KamvarNiklaus J Grünwald
Apr 4, 2014·Bioinformatics·Anthony M BolgerBjoern Usadel
Apr 8, 2015·BMC Plant Biology·Carla V FilippiVeronica V Lia
Apr 19, 2015·BMC Plant Biology·Savithri U NambeesanJohn M Burke
Jun 9, 2016·Genome Biology·William McLarenFiona Cunningham
Dec 3, 2016·The Plant Genome·Zahirul I TalukderLili Qi
Mar 4, 2017·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Brigitte ManginStéphane Muños
May 26, 2017·Nature·Hélène BadouinNicolas B Langlade
Feb 2, 2018·Evolutionary Applications·Ana MondonLoren H Rieseberg
Mar 23, 2018·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·G J MaL L Qi
Jan 2, 2019·Nature Plants·Sariel HübnerLoren H Rieseberg
Jan 10, 2019·Evolutionary Applications·Gregory L OwensLoren H Rieseberg
Nov 1, 2017·Plant Disease·C V FilippiN B Paniego
Oct 11, 2019·Nucleic Acids Research·Kevin L HowePaul Flicek
Nov 14, 2019·Nucleic Acids Research·Clara AmidGuy Cochrane