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Front. Plant Sci. | doi: 10.3389/fpls.2018.00350

Identifying quantitative trait loci (QTLs) and developing diagnostic markers linked to orange rust resistance in sugarcane (Saccharum spp.)

 Xiping Yang1, Md. S. Islam2,  Sushma Sood2, Stephanie Maya1, Erik A. Hanson1, Jack Comstock2 and  Jianping Wang1, 3*
  • 1Agronomy Department, University of Florida, United States
  • 2Sugarcane Field Station, USDA-ARS, United States
  • 3Center for Genomics and Biotechnology, Key Laboratory of Genetics, Breeding and Multiple Utilization of Corps, Ministry of Education; Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Fujian Agriculture and Forestry University, China

Sugarcane (Saccharum spp.) is an important economic crop, contributing up to 80% of table sugar used in the world and has become a promising feedstock for biofuel production. Sugarcane production has been threatened by many diseases, and fungicide applications for disease control have been opted out for sustainable agriculture. Orange rust is one of the major diseases impacting sugarcane production worldwide. Identifying quantitative trait loci (QTLs) and developing diagnostic markers are valuable for breeding programs to expedite release of superior sugarcane cultivars for disease control. In this study, an F1 segregating population derived from a cross between two hybrid sugarcane clones, CP95-1039 and CP88-1762, was evaluated for orange rust resistance in replicated trails. Three QTLs controlling orange rust resistance in sugarcane (qORR109, qORR4 and qORR102) were identified for the first time ever, which can explain 58, 12 and 8% of the phenotypic variation, separately. We also characterized 1,574 sugarcane putative resistance (R) genes. These sugarcane putative R genes and simple sequence repeats in the QTL intervals were further used to develop diagnostic markers for marker-assisted selection of orange rust resistance. A PCR-based Resistance gene-derived maker, G1 was developed, which showed significant association with orange rust resistance. The putative QTLs and marker developed in this study can be effectively utilized in sugarcane breeding programs to facilitate the selection process, thus contributing to the sustainable agriculture for orange rust disease control.

Keywords: Orange rust disease, sugarcane, Saccharum spp., Quantitative trait locus (QTL), marker-assisted selection (MAS)

Received: 25 Sep 2017; Accepted: 02 Mar 2018.

Edited by:

Piergiorgio Stevanato, Università degli Studi di Padova, Italy

Reviewed by:

Christopher J. Lambrides, The University of Queensland, Australia
Hongjun Liu, Shandong Agricultural University, China  

Copyright: © 2018 Yang, Islam, Sood, Maya, Hanson, Comstock and Wang. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

* Correspondence: Dr. Jianping Wang, University of Florida, Agronomy Department, Gainesville, 32606, Florida, United States,