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Microarray analysis of broad-spectrum resistance derived from an indica cultivar Rathu Heenati

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Abstract

Rathu Heenati (RHT) is a Sri Lankan rice cultivar that carries a brown planthopper (BPH) resistance gene, Bph3, and shows broad-spectrum resistance to all four biotypes of BPH. The BPH-resistance loci in RHT has been studied extensively and assigned to four different rice chromosomes (3, 4, 6, and 10) by different research groups, but the gene has not been cloned previously. An Affymetrix rice genome array containing 48,564 japonica and 1,260 indica sequences was used to analyze the potential resistance-related genes on the four chromosomes by comparative analysis of the differentially expressed genes between resistant and susceptible rice cultivars exposed to BPH attack. The microarray results showed that at least 17 genes related to induced resistance and at least 193 genes related to constitutive resistance in RHT. On chromosome 3, the AOC4 was hypothesized to be the most important candidate gene. On chromosome 6, no valuable candidate resistance gene was identified in the Bph3 localization region. In the three Quantitative trait locus regions of chromosomes 3, 4, and 10, the numbers of constitutive and induced resistance-related genes found were 17, 26, and 12, respectively. The major probe on chromosome 10 represents a constitutive expression gene with a very high absolute fold-change of 2,588.82. The microarray analysis indicated that BPH resistance in RHT is probably controlled by a series of resistance-related genes. This study provides valuable information for cloning, functional analysis and marker-assisted breeding of these BPH resistance genes.

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Abbreviations

RHT:

Rathu Heenati

BPH:

Brown planthopper

SSR:

Simple sequence repeat

QTL:

Quantitative trait locus

LOD:

Logarithm (base 10) of odds

RFLP:

Restriction fragment length polymrophism

BAC:

Bacterial artificial chromosome

FISH:

Fluorescence in situ hybridization

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Acknowledgments

We sincerely thank Prof. Xiangxiong Zhu for his valuable comment and revision of the manuscript. This work was supported by the National Basic Research Program of China (2010CB126202), the National Transgenic Great Subject from the Ministry of Agriculture of China (2009ZX08001-003B) and a Grant (10JC1416300) from the Shanghai Commission of Science.

Conflict of interest

The authors declare that they have no conflict of interest.

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Authors and Affiliations

  1. Key Laboratory of Insect Developmental and Evolutionary Biology, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, 200032, People’s Republic of China

    Yubing Wang, Haichao Li, Hao Zhang, Huimin Guo & Xuexia Miao

  2. Graduate School of Chinese Academy of Sciences, Shanghai, 200032, People’s Republic of China

    Yubing Wang, Hao Zhang & Huimin Guo

  3. School of Life Sciences, Fudan University, Shanghai, 200433, People’s Republic of China

    Yuan Si

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  1. Yubing Wang
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  2. Haichao Li
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  3. Yuan Si
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  4. Hao Zhang
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  5. Huimin Guo
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  6. Xuexia Miao
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Correspondence to Xuexia Miao.

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Wang, Y., Li, H., Si, Y. et al. Microarray analysis of broad-spectrum resistance derived from an indica cultivar Rathu Heenati. Planta 235, 829–840 (2012). https://doi.org/10.1007/s00425-011-1546-1

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