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New Sugarcane Microsatellites and Target Region Amplification Polymorphism Primers Designed from Candidate Genes Related to Disease Resistance

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Abstract

Many types of molecular marker systems have been developed to detect and map genomic regions related to disease resistance in many major agronomic crops. However, in sugarcane, molecular marker systems for genetic mapping of genomic regions associated to disease resistance is not yet established mainly due to its complex polyploid genome. In addition, there is a lack of information to develop molecular marker systems (e.g., TRAP and EST–SSR) targeting specific genic regions related to disease resistance. In the present work, a set of 10 EST–SSR primer pairs and 16 fixed TRAP primers designed from sugarcane-derived sequence related to disease resistance are reported. Most of the primers were amplifiable and polymorphic in the sugarcane genotypes tested. In addition, these set of primers were also tested in sorghum, Miscanthus and a cross between sugarcane commercial varieties showing good cross-transferability. This new set of primers, in particular the TRAP ones, will be useful in genetic mapping of genome regions related to disease resistance in sugarcane and related genera.

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Acknowledgments

Authors are grateful to the Fundação de Amparo a Pesquisa do Estado de São Paulo (FAPESP, grants 2009/51392-0 and FAPESP 2005/55258-6), to the Coordenação de Aperfeiçoamento de Ensino Superior (CAPES, BEX 8872/11-2), both from Brazil, and to Chevron Technology Venture grant to Dr. Jorge da Silva. The SUCEST-FUN database development was funded by FAPESP under its Bioenergy Program (Project Number 08/52146-0).

Funding

This study was funded by FAPESP (Grant Number 2005/55258-6; 2008/52146-0).

Author information

Authors and Affiliations

  1. Centro Avançado de Pesquisa Tecnológica do Agronegócio da Cana, IAC/APTA, Anel Viário Contorno Sul, Km 321, CP 206, Ribeirão Preto, SP, CEP 14001-970, Brazil

    Fernanda R. C. dos Santos, Marcos G. A. Landell & Luciana R. Pinto

  2. Polo Centro Sul, APTA, Rodovia SP 127, Km 30, CP 28, Piracicaba, SP, CEP 13400-970, Brazil

    Maria I. Zucchi

  3. Texas AgriLife Research, The Texas A&M University System, 2415 East Highway 83, Weslaco, TX, 78596, USA

    Jong-Won Park, Thiago R. Benatti & Jorge A. da Silva

  4. Departamento de Bioquímica, Instituto de Química, USP, Av. Prof. Lineu Prestes 748, São Paulo, SP, CEP 05508-000, Brazil

    Glaucia M. Souza

Authors
  1. Fernanda R. C. dos Santos
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  2. Maria I. Zucchi
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  3. Jong-Won Park
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  4. Thiago R. Benatti
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  5. Jorge A. da Silva
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  6. Glaucia M. Souza
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  7. Marcos G. A. Landell
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  8. Luciana R. Pinto
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Corresponding author

Correspondence to Luciana R. Pinto.

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Conflict of interest

Authors Jong-Won Park, Thiago R. Benatti, Marcos G.A. Landell and Maria I. Zucchi have not received any research grant. Author Fernanda R. C. dos Santos has received research fellowship from FAPESP 2009/51392-0 and CAPES, BEX 8872/11-2, author Luciana R. Pinto has received research grant from FAPESP 2005/55258-6. Author Glaucia M. Souza received research grant from FAPESP under its Bioenergy Program (Project Number 08/52146-0). Author Jorge A. da Silva has received research grants from: Genetic Breeding of Sugarcane/Energycane. Texas A&M AgriLife Research. Bioenergy/Bioproducts Seed Grant. Program FY’16-FY’17. PI. Sugarcane as Feedstock for High Value Bioproducts and Hydrocarbon Biofuels. Bioenergy/Bioproducts Seed Grant. Program FY’16-FY’17. PI: Susie Dai; Co-PI. Genomics-enabled Targeted Trait Improvement of Sugarcane and Energycane. Bioenergy/Bioproducts Seed Grant. Program FY’16-FY’17. PI: Kranthi Mandadi. Co-PIs. A Water and Risk Management Tool for Sustainable Production of Bioenergy Feedstocks. USDA-AFRI-NIFA-004029: Sustainable Bioenergy Program: Impacts of Regional Bioenergy Systems on Water Availability and Quality. PIs. Perennial Energy Grass Breeding Program (2012–2014). BP Biofues. PIs. Evaluation of New Gen II Feedstocks for Biofuels (2012–2015). Chevron Technology Venture. PIs. Intergeneric Hybridization of Sorghum, Sugarcane, and Miscanthus to Create and Enhance Energy Feedstock Productivity. Ceres Inc. (2011–2015). PIs. Regional Adaptability and Quality of Lignocellulosic Bioenergy Feedstocks for South Central States. PI—South Central Sun Grant.

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dos Santos, F.R.C., Zucchi, M.I., Park, JW. et al. New Sugarcane Microsatellites and Target Region Amplification Polymorphism Primers Designed from Candidate Genes Related to Disease Resistance. Sugar Tech 19, 219–224 (2017). https://doi.org/10.1007/s12355-016-0457-7

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  • DOI: https://doi.org/10.1007/s12355-016-0457-7

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