Project description:This experiment captures the gene expression data from pea roots during interaction with two pathogenic oomycetes: Phytophthora pisi and Aphanomyces euteiches, at 6 hours and 20 hours after infection and the control samples at each time point. In this experiment medicago genome array is used.
Project description:For transcript analysis of early hypersensitive and susceptible responses of Medicago truncatula to the powdery mildew pathogen, Erysiphe pisi, we compared transcripts from pathogen-inoculated and control (non-inoculated) plants 12 h after infection in resistant (A14), partially resistant (A20), and susceptible (DZA315.16) genotypes. Published in: Medicago truncatula to the powdery mildew 1 and anthracnose pathogens, Erysiphe pisi and Colletotrichum trifolii. Molecular Plant Pathology 8(3):307-319 Keywords: 1 time points and 3 genotypes
Project description:Erysiphe pisi causes powdery mildew disease in garden pea. It is a biotrophic ascomycete member necessitating a living host for its survival. An attempt to identify the global proteome of E. pisi pathogen is made using a sensitive and reliable nano LC-MS/MS approach. The protein profiling of two isolates of E. pisi; Ep01 and Ep02 varying for virulence upon testing on a commercial cultivar, Arkel led to the detection of a total of 211 and 214 distinct proteins in Ep01 and Ep03 isolates respectively. In addition, a total of 203 and 207proteins from Ep01 and Ep03 isolates respectively were found to be hypothetical or proteins with not yet predicted functions based on GO (biological process). The protein accessions detected in these isolates were categorized into functional protein classes with some of the identified proteins reported to be involved in pathogenesis or virulence. The proteins belonging to the functional classes like stress related, signal transduction and secondary metabolite formation might be involved in virulence and pathogenesis. The proteome proposed in this study would serve as a reference proteome to facilitate the understanding of the functional aspects of an obligate biotrophic fungal pathogen.
Project description:We report the genome-wide small RNA of soybean early maturation seed coat parenchyma compartment soybean early maturation seeds using Illumina high-throughput sequencing technology.
Project description:We report the 6mA methylation profiling in two Phytophthora species and one psdamt3 mutant. Genomic DNA of Phytophthora sojae P6497 mycelium (3-days old), Phytophthora infestans T30-4 mycelium and psdamt3 mutant T9 (lost 374bp by CRISPR/Cas9) was extracted and sonicated to 200-400bp using Biorupter UCD-600. The antibody sysy 202003 was used to immunoprecipitation. We find that 6mA is associated with lowly expressed genes in two Phytophthora species. 6mA methylome is preferentially associated with TEs, the genes and intergenic regions that form the gene-sparse compartments of Phytophthora genomes. In the psdamt3 mutant, 6mA level reduced in TEs and illustrates the uneven reduction pattern around the TSS.
Project description:ngs2013_07_pcapsici-effecaps-phytophthora capsici-The analysed RNAseq concerned the oomycete Phytophthora capsici in growth on pepper plants. 1/ How the adaptation of a pathogen to a host depends on its gene expression? 2/ How the plant host impacts the expression of pathogen genes at the very beginning of infection?-Two isolates of Phytophthora capsici were used: the Pc107 isolate (called A for adapted to pepper from INRAE GAFL Avignon), and the Pc273 isolate (N for non-adapted to pepper, collected on pumpkin in the USA). Two accessions of pepper (Capsicum annuum L., the host) were used: Yolo Wonder (YW, PM0031), susceptible (S) to Phytophthora capsici, and Criollo de Morelos 334 (CM334, PM0702), partially resistant (R). Inoculations were performed, as described in Lefebvre and Palloix (1996), by putting on the wounded stem a plug of mycelium. Inoculated plants were transferred to a growth chamber at 24°C/22°C temperature on a 12h/12h light/dark cycle. At 24 hours-post-inoculation, 12 total RNA samples were extracted from inoculated plants for the 4 host-isolate interactions: R_A, S_A, R_N and S_N. Each sample consisted of six pooled stem fragments. The stem fragments are the 5-mm region immediately under the visible stem necrosis. Samples were flash-frozen in liquid-nitrogen and stored at -80ºC. They were ground in liquid nitrogen with a cold mortar and pestle. Total RNA was extracted using QIAGEN Rneasy Plant Mini Kit. RNA-seq libraries were constructed at IPS2 POPS platform (France) by TruSeq_Stranded_mRNA_SamplePrep_Guide_15031047_D protocol (Illumina®, California, USA). Sequencing was conducted on an Illumina Hiseq2000 hosted by Genoscope (Evry, France). The RNA-seq samples have been sequenced in paired-end (PE) with a sizing of 260 bp and a read length of 100 bases, lane repartition and barcoding giving approximately 35 million of paired-end reads per sample.
