SNP genotyping allows an in-depth characterisation of the genome of sugarcane and other complex autopolyploids.
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.
Main Authors: | , , , , , , , , , , , , , , , , , , , , , , , , , |
---|---|
Other Authors: | |
Format: | Artigo de periódico biblioteca |
Language: | English eng |
Published: |
2014-01-17
|
Subjects: | Genótipo, Genética vegetal, Genoma, Cana de açúcar, Genotype, Genome, Plant genetics, |
Online Access: | http://www.alice.cnptia.embrapa.br/alice/handle/doc/976559 |
Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
id |
dig-alice-doc-976559 |
---|---|
record_format |
koha |
spelling |
dig-alice-doc-9765592017-08-16T02:03:33Z SNP genotyping allows an in-depth characterisation of the genome of sugarcane and other complex autopolyploids. GARCIA, A. A. F. MOLLINARI, M. MARCONI, T. G. SERANG, O. R. SILVA, R. R. VIEIRA, M. L. C. VICENTINI, R. COSTA, E. A. MANCINI, M. C. GARCIA, M. O. S. PASTINA, M. M. GAZAFFI, R. MARTINS, E. R. F. DAHMER, N. SFORÇA, D. A. SILVA, C. B. C. BUNDOCK, P. HENRY, R. J. SOUZA, G. M. SLUYS, M.-A. V. LANDELL, M. G. A. CARNEIRO, M. S. VINCENTZ, M. A. G. PINTO, L. R. VENCOVSKY, R. SOUZA, A. P. MARIA MARTA PASTINA, CNPMS. Genótipo Genética vegetal Genoma Cana de açúcar Genotype Genome Plant genetics 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. 2014-01-17T11:11:11Z 2014-01-17T11:11:11Z 2014-01-17 2013 2017-05-17T11:11:11Z Artigo de periódico Scientific Reports, v. 3, p. 1-10, 2013. http://www.alice.cnptia.embrapa.br/alice/handle/doc/976559 10.1038/srep03399 en eng openAccess |
institution |
EMBRAPA |
collection |
DSpace |
country |
Brasil |
countrycode |
BR |
component |
Bibliográfico |
access |
En linea |
databasecode |
dig-alice |
tag |
biblioteca |
region |
America del Sur |
libraryname |
Sistema de bibliotecas de EMBRAPA |
language |
English eng |
topic |
Genótipo Genética vegetal Genoma Cana de açúcar Genotype Genome Plant genetics Genótipo Genética vegetal Genoma Cana de açúcar Genotype Genome Plant genetics |
spellingShingle |
Genótipo Genética vegetal Genoma Cana de açúcar Genotype Genome Plant genetics Genótipo Genética vegetal Genoma Cana de açúcar Genotype Genome Plant genetics GARCIA, A. A. F. MOLLINARI, M. MARCONI, T. G. SERANG, O. R. SILVA, R. R. VIEIRA, M. L. C. VICENTINI, R. COSTA, E. A. MANCINI, M. C. GARCIA, M. O. S. PASTINA, M. M. GAZAFFI, R. MARTINS, E. R. F. DAHMER, N. SFORÇA, D. A. SILVA, C. B. C. BUNDOCK, P. HENRY, R. J. SOUZA, G. M. SLUYS, M.-A. V. LANDELL, M. G. A. CARNEIRO, M. S. VINCENTZ, M. A. G. PINTO, L. R. VENCOVSKY, R. SOUZA, A. P. SNP genotyping allows an in-depth characterisation of the genome of sugarcane and other complex autopolyploids. |
description |
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. |
author2 |
MARIA MARTA PASTINA, CNPMS. |
author_facet |
MARIA MARTA PASTINA, CNPMS. GARCIA, A. A. F. MOLLINARI, M. MARCONI, T. G. SERANG, O. R. SILVA, R. R. VIEIRA, M. L. C. VICENTINI, R. COSTA, E. A. MANCINI, M. C. GARCIA, M. O. S. PASTINA, M. M. GAZAFFI, R. MARTINS, E. R. F. DAHMER, N. SFORÇA, D. A. SILVA, C. B. C. BUNDOCK, P. HENRY, R. J. SOUZA, G. M. SLUYS, M.-A. V. LANDELL, M. G. A. CARNEIRO, M. S. VINCENTZ, M. A. G. PINTO, L. R. VENCOVSKY, R. SOUZA, A. P. |
format |
Artigo de periódico |
topic_facet |
Genótipo Genética vegetal Genoma Cana de açúcar Genotype Genome Plant genetics |
author |
GARCIA, A. A. F. MOLLINARI, M. MARCONI, T. G. SERANG, O. R. SILVA, R. R. VIEIRA, M. L. C. VICENTINI, R. COSTA, E. A. MANCINI, M. C. GARCIA, M. O. S. PASTINA, M. M. GAZAFFI, R. MARTINS, E. R. F. DAHMER, N. SFORÇA, D. A. SILVA, C. B. C. BUNDOCK, P. HENRY, R. J. SOUZA, G. M. SLUYS, M.-A. V. LANDELL, M. G. A. CARNEIRO, M. S. VINCENTZ, M. A. G. PINTO, L. R. VENCOVSKY, R. SOUZA, A. P. |
author_sort |
GARCIA, A. A. F. |
title |
SNP genotyping allows an in-depth characterisation of the genome of sugarcane and other complex autopolyploids. |
title_short |
SNP genotyping allows an in-depth characterisation of the genome of sugarcane and other complex autopolyploids. |
title_full |
SNP genotyping allows an in-depth characterisation of the genome of sugarcane and other complex autopolyploids. |
title_fullStr |
SNP genotyping allows an in-depth characterisation of the genome of sugarcane and other complex autopolyploids. |
title_full_unstemmed |
SNP genotyping allows an in-depth characterisation of the genome of sugarcane and other complex autopolyploids. |
title_sort |
snp genotyping allows an in-depth characterisation of the genome of sugarcane and other complex autopolyploids. |
publishDate |
2014-01-17 |
url |
http://www.alice.cnptia.embrapa.br/alice/handle/doc/976559 |
work_keys_str_mv |
AT garciaaaf snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT mollinarim snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT marconitg snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT serangor snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT silvarr snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT vieiramlc snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT vicentinir snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT costaea snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT mancinimc snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT garciamos snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT pastinamm snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT gazaffir snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT martinserf snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT dahmern snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT sforcada snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT silvacbc snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT bundockp snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT henryrj snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT souzagm snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT sluysmav snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT landellmga snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT carneiroms snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT vincentzmag snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT pintolr snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT vencovskyr snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids AT souzaap snpgenotypingallowsanindepthcharacterisationofthegenomeofsugarcaneandothercomplexautopolyploids |
_version_ |
1756020489240707072 |