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New Developments in Sugarcane Genetics and Genomics

  • Melina Cristina Mancini
  • Cláudio Benício Cardoso-Silva
  • Estela Araujo Costa
  • Thiago Gibbin Marconi
  • Antonio Augusto Franco Garcia
  • Anete Pereira De SouzaEmail author
Chapter

Abstract

Modern sugarcane cultivars (Saccharum spp.) are derived from an interspecific hybridization between Saccharum officinarum and Saccharum spontaneum and pose a significant challenge for both genotyping and data analysis. Due to their large (estimated at approximately 10 Gb) and complex genome, which can include variable ploidy levels and aneuploidy, studies involving molecular markers for genetic and quantitative trait locus (QTL) mapping are extremely laborious. Several advances in the genetics and genomics of sugarcane have recently become possible with the emergence of new sequencing technologies, the use of several types of marker systems, and the use of genotyping data analysis software. Molecular markers and comparative genomics are powerful resources that allow us to explore allelic variation and to thus understand the genome organization of sugarcane. This chapter provides an overview of what is known about the genetic structure and the genomics of sugarcane as well as the main genomics strategies developed for sugarcane. Among the strategies discussed are the use of single-nucleotide polymorphisms (SNPs) and bacterial artificial chromosome (BAC) libraries and the analysis of the syntenic relationships with related species (maize, sorghum, and rice).

Keywords

Bacterial artificial chromosome Genetic mapping Molecular markers Transcriptome 

Notes

Acknowledgments

This research was supported by Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq, Grant 145478/2012-2) and Fundação de Amparo a Pesquisa do Estado de São Paulo (FAPESP, Grant 2005/55258-6, 2008/52197-4, 2010/50031-1, 2010/06715-3, 2010/50549-0). It was also part of the research of the Instituto Nacional de Ciência e Tecnologia do Bioetanol (granted by CNPq, 574002/2008-1, and FAPESP, 2008/57908-6), Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES, Computacional Biology Program) and the CeProBio Project (granted by CNPq). A.A.F. Garcia and A.P. Souza are recipients of research fellowships from CNPq.

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Copyright information

© Springer International Publishing AG 2017

Authors and Affiliations

  • Melina Cristina Mancini
    • 1
  • Cláudio Benício Cardoso-Silva
    • 1
  • Estela Araujo Costa
    • 1
  • Thiago Gibbin Marconi
    • 1
  • Antonio Augusto Franco Garcia
    • 2
  • Anete Pereira De Souza
    • 1
    • 3
    Email author
  1. 1.Centro de Biologia Molecular e Engenharia Genetica (CBMEG)Universidade Estadual de Campinas (UNICAMP)CampinasBrazil
  2. 2.Departamento de Genetica, Escola Superior de Agricultura Luiz de QueirozUniversidade de São PauloPiracicabaBrazil
  3. 3.Departamento de Biologia Vegetal, Instituto de BiologiaUniversidade Estadual de Campinas (UNICAMP)CampinasBrazil

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