The way to a more precise sheath blight resistance QTL in rice

Zeng, Yanwei; Ji, Zhijuan; Yang, Chuanxi

doi:10.1007/s10681-014-1246-6

Cited by 20 publications

(26 citation statements)

References 39 publications

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“…Accompanying cultivars that are susceptible to sheath blight are planted in most rice-growing regions of the world, which increases yield losses from this disease. Although rice varieties that are relatively resistant to sheath blight have been identified (Prasad and Eizenga 2008), no completely field resistant rice cultivar or immune variety has been found (Zeng et al 2015; Taheri and Tarighi 2011). At present, management of this disease mainly involves chemical methods.…”

Section: Introductionmentioning

confidence: 99%

Comparison of gene co-networks reveals the molecular mechanisms of the rice (Oryza sativa L.) response to Rhizoctonia solani AG1 IA infection

Zhang

Zhao

et al. 2018

Funct Integr Genomics

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Rhizoctonia solani causes rice sheath blight, an important disease affecting the growth of rice (Oryza sativa L.). Attempts to control the disease have met with little success. Based on transcriptional profiling, we previously identified more than 11,947 common differentially expressed genes (TPM > 10) between the rice genotypes TeQing and Lemont. In the current study, we extended these findings by focusing on an analysis of gene co-expression in response to R. solani AG1 IA and identified gene modules within the networks through weighted gene co-expression network analysis (WGCNA). We compared the different genes assigned to each module and the biological interpretations of gene co-expression networks at early and later modules in the two rice genotypes to reveal differential responses to AG1 IA. Our results show that different changes occurred in the two rice genotypes and that the modules in the two groups contain a number of candidate genes possibly involved in pathogenesis, such as the VQ protein. Furthermore, these gene co-expression networks provide comprehensive transcriptional information regarding gene expression in rice in response to AG1 IA. The co-expression networks derived from our data offer ideas for follow-up experimentation that will help advance our understanding of the translational regulation of rice gene expression changes in response to AG1 IA.Electronic supplementary materialThe online version of this article (10.1007/s10142-018-0607-y) contains supplementary material, which is available to authorized users.

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Section: Introductionmentioning

confidence: 99%

Comparison of gene co-networks reveals the molecular mechanisms of the rice (Oryza sativa L.) response to Rhizoctonia solani AG1 IA infection

Zhang

Zhao

et al. 2018

Funct Integr Genomics

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“…In addition, two SSR markers namely RM336 and RM205 were found to be closely associated with the major QTLs qshb7.3 and qshb9.2 respectively and were attested as well in BC1F2 population by bulk segregant analysis approach (Yadav et al 2015). Lastly, Zeng et al (2014) constructed the first physical map of previously reported ShB-QTLs, plant height-QTLs, and heading date-QTLs in which this map can be more conveniently used in MAB programs.…”

Section: Sheath Blightmentioning

confidence: 98%

Current Applicable DNA Markers for Marker Assisted Breeding in Abiotic and Biotic Stress Tolerance in Rice (Oryza sativa L.)

Nogoy¹,

Song²,

Ouk³

et al. 2016

Plant Breed. Biotech.

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This is an Open-Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited. ABSTRACT Abiotic and biotic stresses adversely affect rice (Oryza sativa L.) growth and yield. Conventional breeding is a very effective method to develop tolerant rice variety; however, it takes a decade long to establish a new rice variety. DNA-based markers have a huge potential to improve the efficiency and precision of conventional plant breeding via marker-assisted selection (MAS). The large number of quantitative trait loci (QTLs) mapping studies for rice has provided an abundance of DNA marker-trait associations. The limitations of conventional breeding such as linkage drag and lengthy time consumption can be overcome by utilizing DNA markers in plant breeding. The major applications of DNA markers such as MAS, QTL mapping and gene pyramiding have been surveyed. In this review, we presented the latest markers available for some of the most important abiotic and biotic stresses in rice breeding programs. Achieving a significant impact on crop improvement by marker assisted breeding (MAB) represents the great challenge for agricultural scientists in the next few decades.

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“…Plant morphology and phenology affect disease progress and are considered to be associated with disease escape mechanisms in several crops and pathosystems (Danon, 1982; Kicherer et al, 2000; Lore et al, 2013; Simón et al, 2004; Zhu et al, 1999). In particular, PH and FT have been found to be correlated with resistance to sheath blight and are considered to be two of the major confounding effects on disease rating (Srinivasachary and Savary, 2011; Zeng et al, 2015).…”

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confidence: 99%

“…Studies that do not consider the effect of phenology and morphology on disease rating lead to many QTL for resistance that overlap with those of phenological and morphological traits (Zeng et al, 2015). For example, Li et al (1995) identified sheath blight resistance QTL that also affected FT and PH, and Sharma et al (2009) identified one QTL for sheath blight resistance colocalizing with the semidwarf gene sd‐1 in chromosome 1.…”

mentioning

confidence: 99%

“…In most cases, it is impossible to distinguish between linkage and pleiotropy at those QTL (Wiesner‐Hanks and Nelson, 2016). Proposed strategies for minimizing the confounding effect of FT and PH for evaluating resistance to confounded diseases include the use of controlled phenotyping methodologies such as microchambers and mist chambers (Jia et al, 2007; Liu et al, 2013), rating systems that are not influenced by PH (Zeng et al, 2015), mapping populations that do not segregate for FT or PH (Liu et al, 2013), and using FT and PH as covariates for correcting phenotypic disease scores (Paillard et al, 2004) or using FT and PH as covariates in the QTL mapping analysis (Nelson et al, 2012).…”

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confidence: 99%

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Resistance to Multiple Temperate and Tropical Stem and Sheath Diseases of Rice

et al. 2018

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Stem rot and aggregated sheath spot are the two major stem and sheath diseases affecting rice (Oryza sativa L.) in temperate areas. A third fungal disease, sheath blight, is a major disease in tropical areas. Resistance to these diseases is a key objective in rice breeding programs but phenotyping is challenged by the confounding effects of phenological and morphological traits such as flowering time (FT) and plant height (PH). This study sought to identify quantitative trait loci (QTL) for resistance to these three diseases after removing the confounding effects of FT and PH. Two populations of advanced breeding germplasm, one with 316 tropical japonica and the other with 325 indica genotypes, were evaluated in field and greenhouse trials for resistance to the diseases. Phenotypic means for field and greenhouse disease resistance, adjusted by FT and PH, were analyzed for associations with 29,000 single nucleotide polymorphisms (SNPs) in tropical japonica and 50,000 SNPs in indica. A total of 29 QTL were found for resistance that were not associated with FT or PH. Multilocus models with selected resistanceassociated SNPs were fitted for each disease to estimate their effects on the other diseases. A QTL on chromosome 9 accounted for more than 15% of the phenotypic variance for the three diseases. When resistance-associated SNPs at this locus from both the tropical japonica and indica populations were incorporated into the model, resistance was improved for all three diseases with little impact on FT and PH.

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The way to a more precise sheath blight resistance QTL in rice

Cited by 20 publications

References 39 publications

Comparison of gene co-networks reveals the molecular mechanisms of the rice (Oryza sativa L.) response to Rhizoctonia solani AG1 IA infection

Comparison of gene co-networks reveals the molecular mechanisms of the rice (Oryza sativa L.) response to Rhizoctonia solani AG1 IA infection

Current Applicable DNA Markers for Marker Assisted Breeding in Abiotic and Biotic Stress Tolerance in Rice (Oryza sativa L.)

Resistance to Multiple Temperate and Tropical Stem and Sheath Diseases of Rice

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