title: SNP genotyping allows an in-depth characterisation of the genome of sugarcane and other complex autopolyploids.
abstract: Many plant species of great economic value (e.g., potato, wheat, cotton, and sugarcane) are polyploids. Despite the essential roles of autopolyploid plants in human activities, our genetic understanding of these species is still poor. Recent progress in instrumentation and biochemical manipulation has led to the accumulation of an incredible amount of genomic data. In this study, we demonstrate for the first time a successful genetic analysis in a highly polyploid genome (sugarcane) by the quantitative analysis of single-nucleotide polymorphism (SNP) allelic dosage and the application of a new data analysis framework. This study provides a better understanding of autopolyploid genomic structure and is a sound basis for genetic studies. The proposed methods can be employed to analyse the genome of any autopolyploid and will permit the future development of high-quality genetic maps to assist in the assembly of reference genome sequences for polyploid species.
authors.affiliation: 1] Departamento de Genética, Escola Superior de Agricultura "Luiz de Queiroz" Universidade de São Paulo, Brazil [2].
authors.forename: Antonio A F
authors.initials: AA
authors.lastname: Garcia
authors.forename: Marcelo
authors.initials: M
authors.lastname: Mollinari
authors.forename: Thiago G
authors.initials: TG
authors.lastname: Marconi
authors.forename: Oliver R
authors.initials: OR
authors.lastname: Serang
authors.forename: Renato R
authors.initials: RR
authors.lastname: Silva
authors.forename: Maria L C
authors.initials: ML
authors.lastname: Vieira
authors.forename: Renato
authors.initials: R
authors.lastname: Vicentini
authors.forename: Estela A
authors.initials: EA
authors.lastname: Costa
authors.forename: Melina C
authors.initials: MC
authors.lastname: Mancini
authors.forename: Melissa O S
authors.initials: MO
authors.lastname: Garcia
authors.forename: Maria M
authors.initials: MM
authors.lastname: Pastina
authors.forename: Rodrigo
authors.initials: R
authors.lastname: Gazaffi
authors.forename: Eliana R F
authors.initials: ER
authors.lastname: Martins
authors.forename: Nair
authors.initials: N
authors.lastname: Dahmer
authors.forename: Danilo A
authors.initials: DA
authors.lastname: Sforça
authors.forename: Claudio B C
authors.initials: CB
authors.lastname: Silva
authors.forename: Peter
authors.initials: P
authors.lastname: Bundock
authors.forename: Robert J
authors.initials: RJ
authors.lastname: Henry
authors.forename: Glaucia M
authors.initials: GM
authors.lastname: Souza
authors.forename: Marie-Anne
authors.initials: MA
authors.lastname: van Sluys
authors.forename: Marcos G A
authors.initials: MG
authors.lastname: Landell
authors.forename: Monalisa S
authors.initials: MS
authors.lastname: Carneiro
authors.forename: Michel A G
authors.initials: MA
authors.lastname: Vincentz
authors.forename: Luciana R
authors.initials: LR
authors.lastname: Pinto
authors.forename: Roland
authors.initials: R
authors.lastname: Vencovsky
authors.forename: Anete P
authors.initials: AP
authors.lastname: Souza
mesh_terms: D000483:Alleles; D018745:Genome, Plant / Q000235:genetics*; D005838:Genotype; D020641:Polymorphism, Single Nucleotide / Q000235:genetics*; D011123:Polyploidy; D031786:Saccharum / Q000235:genetics*