RNA-Seq revealed that infection with white tip nematodes could downregulate rice photosynthetic genes

Wang, Hong-Le; Yang, Si-Hua; Lv, Mei; Ding, S.; Li, Junyi; Xu, Chunling; Xie, Hui

doi:10.1007/s10142-019-00717-9

Cited by 12 publications

(13 citation statements)

References 46 publications

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“…The expression of OsKAT1 was restricted to internodes and rachides of wild-type rice, whereas other Shaker family genes were expressed in various organs [ 192 ]. Some of the genes from CGN of Os06g0565100 were also involved in rice response to pathogen attack, such as bacteria ( Os10g0567900 [ 172 ]), insects ( Os01g0974200 [ 193 ]) and fungi ( Os12g0586300 [ 67 ], Os03g0854600 , MR = 33.764 [ 194 ]). Finally, genes related to developmental processes were identified in CGN of analysed MAX1 .…”

Section: Resultsmentioning

confidence: 99%

Diverse Roles of MAX1 Homologues in Rice

Marzec

Situmorang

Brewer

et al. 2020

Genes

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Cytochrome P450 enzymes encoded by MORE AXILLARY GROWTH1 (MAX1)-like genes produce most of the structural diversity of strigolactones during the final steps of strigolactone biosynthesis. The diverse copies of MAX1 in Oryza sativa provide a resource to investigate why plants produce such a wide range of strigolactones. Here we performed in silico analyses of transcription factors and microRNAs that may regulate each rice MAX1, and compared the results with available data about MAX1 expression profiles and genes co-expressed with MAX1 genes. Data suggest that distinct mechanisms regulate the expression of each MAX1. Moreover, there may be novel functions for MAX1 homologues, such as the regulation of flower development or responses to heavy metals. In addition, individual MAX1s could be involved in specific functions, such as the regulation of seed development or wax synthesis in rice. Our analysis reveals potential new avenues of strigolactone research that may otherwise not be obvious.

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Section: Resultsmentioning

confidence: 99%

Diverse Roles of MAX1 Homologues in Rice

Marzec

Situmorang

Brewer

et al. 2020

Genes

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“…There could also be an overlapping response that is generally believed to be a response to biotic stress but could also be involved in root low P responses. This biotic response that plays a role in modulating RSA in response to chitin, involves the downregulation of WRKY transcription factors (Supplemental Data File 1) that play roles in root responses to fungal chitins that alter root system architecture (Wang et al, 2019; Wang et al, 2020).…”

Section: Discussionmentioning

confidence: 99%

Sorghum Root Epigenetic Landscape During Limiting Phosphorus Conditions

Gladman

Hufnagel²,

Regulski

et al. 2021

Preprint

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Efficient acquisition and use of available phosphorus from the soil is crucial for plant growth, development, and yield. With an ever-increasing acreage of croplands with suboptimal available soil phosphorus, genetic improvement of sorghum germplasm for enhanced phosphorus acquisition from soil is crucial to increasing agricultural output and reducing inputs, while confronted with a growing world population and uncertain climate. Sorghum bicolor is a globally important commodity for food, fodder, and forage. Known for robust tolerance to heat, drought, and other abiotic stresses, its capacity for optimal phosphorus use efficiency (PUE) is still being investigated for optimized root system architectures (RSA). Whilst a few RSA-influencing genes have been identified in sorghum and other grasses, the epigenetic impact on expression and tissue-specific activation of candidate PUE genes remains elusive. Here, we present transcriptomic, epigenetic, and regulatory network profiling of RSA modulation in the BTx623 sorghum background in response to limiting phosphorus (LP) conditions. We show that during LP, sorghum RSA is remodeled to increase root length and surface area, likely enhancing its ability to acquire P. Global DNA 5-methylcytosine and H3K4 and H3K27 trimethylation levels decrease in response to LP, while H3K4me3 peaks and DNA hypomethylated regions contain recognition motifs of numerous developmental and nutrient responsive transcription factors that display disparate expression patterns between different root tissues (primary root apex, elongation zone, and lateral root apex). Suggesting that epigenetic shifts during growth on LP results in targeted gene expression in a tissue-specific manner that optimizes the RSA for improved P uptake.

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“…Through this method, some genes related to rice blast resistance and defense were further analyzed and verified. Some examples are the cell recognition-related resistance genes, NBS-LRR family genes and WAK kinase genes, the signal transduction-related genes, serine/threonine protein kinase family genes, as well as the transcriptional regulation-associated genes, the WRKY family, and MYB family genes [12][13][14]. Through our research, we expected to find some genes that are closely related to rice blast infection that were ignored in previous studies.…”

Section: Introductionmentioning

confidence: 93%

A genome-wide survey of interaction between rice and Magnaporthe oryzae via microarray analysis

et al. 2020

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The main aim of the work is to study the regulation of gene expression in the interaction between rice and Magnaporthe oryzae by gene chip technology. In this study, we mainly focused on changes of gene expression at 24, 48, and 72 hours post-inoculation (hpi), through which we could conduct a more comprehensive analysis of rice blast-related genes in the process of infection. The results showed that the experimental groups contained 460, 1227, and 3937 significant differentially expressed genes at 24, 48, and 72 hpi, respectively. Furthermore, 115 significantly differentially expressed genes were identified in response to rice blast infection at all three time points. By annotating these 115 genes, they were divided into three categories: metabolic pathways, proteins or enzymes, and organelle components. As expected, many of these genes were known rice blast-related genes; however, we discovered new genes with high fold changes. Most of them encoded conserved hypothetical proteins, and some were hypothetically conserved genes. Our study may contribute to finding new resistance genes and understanding the mechanism of rice blast development.

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RNA-Seq revealed that infection with white tip nematodes could downregulate rice photosynthetic genes

Cited by 12 publications

References 46 publications

Diverse Roles of MAX1 Homologues in Rice

Diverse Roles of MAX1 Homologues in Rice

Sorghum Root Epigenetic Landscape During Limiting Phosphorus Conditions

A genome-wide survey of interaction between rice and Magnaporthe oryzae via microarray analysis

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