Identification of potential Rsf1 promoter-interacting proteins in rice (Oryza sativa Nipponbare) roots during nematode infection
Ontology highlight
ABSTRACT:
INSTRUMENT(S):
ORGANISM(S): Oryza Sativa (rice)
TISSUE(S): Plant Cell, Root
SUBMITTER: 
Jingwen Yu
LAB HEAD: Jingwen Yu
PROVIDER: PXD071646 | Pride | 2025-12-07
REPOSITORIES: Pride
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| Rsf1-Biao-0dpi.csv | Csv | |||
| Rsf1-Biao-0dpi.raw | Raw | |||
| Rsf1-Biao-1dpi.csv | Csv | |||
| Rsf1-Biao-1dpi.raw | Raw | |||
| Rsf1-Biao-3dpi.csv | Csv |
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Project description:affy_meloidogyne_rice - affy_meloidogyne_rice - Plant-parasitic nematodes cause profound economic losses to global agriculture with the obligate sedentary endoparasitic varieties; amongst them the cyst and Root Knot Nematode (RKN) species are the most damaging. Meloidogyne graminicola is a RKN mainly found in the monocotyledous plants. In the compatible interaction with Oryza sativa, M. graminicola induces the characteristic formation of hook-like galls resulting from the redifferentiation of root cells into multinucleate giant cells. In order to understand the global transcriptome changes occurring during infection, several recent microarray studies on root knots have demonstrated complex changes in host plant gene expression in response to infection. However, to our knowledge, all these transcriptome studies were performed on dicotyledous plants. A histological study enabled us to observe hyperplasia and hypertrophy of the surrounding cells leading to the formation of hook-like galls. We also investigated the plant response to M. graminicola by carrying out a global analysis of gene expression during gall formation in rice, using giant cell-enriched root tissues at an early stage (2dpi) and a latter stage (4dpi) of gall development.-Oryza sativa (var. Nipponbare) seedlings were grown on 6 cm3 SAP substrate completed with diluted Hoaglands solution (Reversat et al., 1999). Culture units were placed in a growth chamber illuminated with fluorescent tubes 9/24 h and maintained at 23°C for 5 days before being inoculated with a 100 J2-stage juveniles M. graminicola. One day after inoculation (dai), the rice seedlings were immersed in de-ionised water to remove all J2s that had not penetrated the roots and allowing synchronization of the infection. Each seedling was transferred to a hydroponic mini chamber (Reversat et al., 2004). Sampling was performed at 2 and 4 dai and each of them contained galls from 70 infected plants, they were then hand-dissected, frozen in liquid-nitrogen and stored at -80°C. As reference samples, uninfected meristematic root fragments were dissected from seedlings grown under the same conditions. Each sample was replicated 3 times. Keywords: normal vs disease comparison,time course 9 arrays - rice
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Project description:affy_meloidogyne_rice2 - affy_meloidogyne_rice2 - Plant-parasitic nematodes cause heavy economic losses to global agriculture. The root knot nematode, Meloidogyne incognita, is an obligate parasite that causes significant damage to a broad range of host plants. M. incognita infection to dicotyledous plants is extensively studied but it is also important to study their interaction with monocotyledous plants, in particular with cereals. In our growing conditions, as of day 6, histological studies revealed a profound rice tissue reorganisation around nematodes, notably characterized by the plant feeding site formation. We are investigating the molecular plant response to M. incognita by carrying out a global analysis of gene expression during gall formation in rice, using giant cell-enriched root tissues at this early stage (6dpi) of gall development-Oryza sativa (var. Nipponbare) seedlings were grown on 6 cm3 SAP substrate completed with diluted Hoaglands solution (Reversat et al., 1999). Culture units were placed in a growth chamber illuminated with fluorescent tubes 9/24 h and maintained at 23°C for 6 days before being inoculated with a 300 J2-stage juveniles M. incognita. One day after inoculation (dai), the rice seedlings were immersed in de-ionised water to remove all J2s that had not penetrated the roots and allowing synchronization of the infection. Each seedling was transferred to a hydroponic mini chamber (Reversat et al., 2004). Sampling was performed at 6 dai and each of them contained galls from 45 infected plants, they were then hand-dissected, frozen in liquid-nitrogen and stored at -80°C. As reference samples, uninfected meristematic root fragments were dissected from seedlings grown under the same conditions. Each sample was replicated 3 times. Keywords: normal vs disease comparison 6 arrays - rice
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Project description:This study employed label-free quantitative mass spectrometry to investigate the proteomic changes in roots of the susceptible rice cultivar Nipponbare during a compatible interaction with the root-knot nematode Meloidogyne graminicola. Root samples were collected at four time points: before inoculation (0 dpi), and at 1, 3, and 7 days post-inoculation (dpi). For time points where galls were visible (3 and 7 dpi), root sections containing galls were specifically collected. Three biological replicates were analyzed for each condition. In total, 6,072 proteins were identified. Comparative analysis between infected and uninfected roots identified 513 proteins uniquely regulated in response to nematode infection. Bioinformatic analyses (GO, KEGG) of these proteins highlighted significant enrichment in defense-related pathways, including phenylpropanoid biosynthesis, glutathione metabolism, and alpha-linolenic acid metabolism. Key downregulated defense-related proteins were further validated, and their corresponding gene expression was analyzed in a resistant rice accession.
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