Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

74 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcription analysis by RNAseq of adult wheat after inoculation with Puccinia graminis f. sp. tritici

ABSTRACT: The RNA sequencing analysis was undertaken to investigate the transcriptomic changes in adult wheat inoculated with Puccinia graminis f. sp. tritici the causal agent of stem rust disease. The project firstly aims to compare gene expression in one susceptible wheat line with two wheat lines exhibiting adult plant resistance to the stem rust. Secondly, the project aims to examine the temporal changes in gene expression in wheat after inoculation. Wheat plants was grown until maturity under greenhouse conditions. Plants were inoculated with Puccinia graminis f. sp. tritici and the flag leaf sheath sampled for RNA sequencing. The project aims to give essential insight into the adult plant resistance response in wheat to Puccinia graminis f. sp. tritici inoculation.

INSTRUMENT(S): Ion Torrent Proton

ORGANISM(S): Triticum aestivum

SUBMITTER: Howard Castelyn

PROVIDER: E-MTAB-9681 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Proteomics of non-host response in barley

Project description:Nonhost resistance, a resistance of plant species against all nonadapted pathogens, is considered the most durable and efficient immune system in plants. To increase our understanding of the response of barley (Hordeum vulgare L.) plants to infection by powdery mildew, Blumeria graminis f. sp. Tritici, we used quantitative proteomic analysis (LC-MS/MS). We compared the response of two genotypes of barley cultivar Golden Promise, wild type (WT) and plants with overexpression of phytoglobin (previously hemoglobin) class 1 (HO), which has previously been shown to significantly weaken non-host resistance. A total of 8804 proteins were identified and quantified, out of which the abundance of 1044 proteins changed significantly in at least one of the four comparisons (‘i’ stands for ‘inoculated’)- HO/WT and HOi/WTi (giving genotype differences), and WTi/WT and HOi/HO (giving treatment differences). Among these differentially abundant proteins (DAP) were proteins related to structural organization, disease/defense, metabolism, transporters, signal transduction and protein synthesis. More proteins changed in abundance in WT than in HO after inoculation and most DAP increased in abundance.

2020-08-18 | PXD015089 | Pride

Expression data in wheat (T. aestivum L.) near isogenic lines in response to powdery mildew infection

Project description:We used two wheat genotypes, the susceptible wheat cultivar ‘8866 ’(S) and its near isogenic line with single powdery mildew resistance gene ‘pm30’ (R), to investigate gene expression changes in response to powdery mildew infection by using Wheat Genome Array wheat young leveas of near isogenic lines before or 12 hours after powdery mildew infection were selected for RNA extraction and hybridization on Affymetrix microarrays.The leaf samples were harvested from three independent biological replicates, and the leaves without inoculation were regarded as control.

2011-02-15 | E-GEOD-27320 | biostudies-arrayexpress

Genome-wide sequencing small RNAs in response to powdery mildew and heat stress in wheat

Project description:To test whether non-coding RNAs play roles in regulating response to powdery mildew infection and heat stress in wheat, by using Solexa high-throughput sequencing and computational analysis and experimental approach we cloned the small RNAs and identified 125 putative long npcRNAs from wheat leaves infected by preponderant physiological strain Erysiphe graminis f. sp. tritici (Egt) or by heat stress treatment. Among long non-coding RNAs, some were precursors of small RNAs such as microRNAs and siRNAs, two long npcRNAs were identified as signal recognition particle (SRP) 7S RNA variants, and three were characterized as U3 snoRNAs. Wheat long npcRNAs showed tissue dependent expression patterns and were responsive to powdery mildew infection and heat stress. Examination non-coding RNAs of 2 near isogenic lines 8866 (Susceptible) and Pm30 (Resistant) in response to powdery milew and two genotypes CK (insensitive) and TAM107 (insensitive) to heat. CK and TAM107 represent the same material in different treatments (no heat stress or 1hour after heat stress).

2011-02-15 | E-GEOD-27327 | biostudies-arrayexpress

Expression data from wheat cultivars

Project description:To identify genes involved in susceptibility, genechip hybridization experiments were performed in order to examine genes differentially expressed upon inoculation of resistant and susceptible wheat cultivars with powdery mildew. Some genes were identified which were just expressed in the susceptible host both after mock-inoculation and pathogen infection. Also, a total of 2693 transcripts were differentially expressed (fold change≥2) in Yumai 13 in response to powdery mildew as compared to itself, comprising 1464 and 1229 up- and down-regulated genes respectively. Seven-day-old wheat seedlings of susceptible cultivar Yumai 13, two resistant cultivars HY and CYC were inoculated with powdery mildew and harvested at 0, 24, 48 hpi for RNA extraction and hybridization on Affymetrix microarrays. We sought to screen some genes which have very high expression in Yumai 13, but not in CYC and HY by pairwise comparation.

2014-01-30 | E-GEOD-43930 | biostudies-arrayexpress

Biological control of Wheat take-all disease by earthworms

Project description:The take-all disease caused by the soilborne fungus Gaeumannomyces graminis var tritici (Ggt) is one of the most-studied and widespread root diseases worldwide. Here, we investigated the ability of the earthworm Aporrectodea caliginosa to induce take-all disease tolerance in Triticum aestivum. In a greenhouse experiment, plants were grown in a sandy soil. Plants were inoculated or not with Ggt and in the presence or absence of earthworms. There was 4 levels of treatment (plants only, inoculated with Ggt, inoculated with earthworms or inoculated with earthworms and Ggt), and 2-3 plants per treatments.

2013-06-01 | E-GEOD-47479 | biostudies-arrayexpress

Transcription profiling by array of wheat cultivars Flame and Longbow responce to Mycosphaerella graminicola

Project description:Mycosphaerella graminicola is the causal agent of Mycosphaerella graminicola infection (STB) disease of wheat. Wheat genotypes vary in their response to this disease. Cultivar (cv.) Longbow is susceptible and cv. Flame is resistant to STB disease, with cv. Flame possessing the STB resistance locus Stb6 that confers resistance to pathogen strain IPO323. Gene expression profiling (conducted using Affymetrix wheat gene chip) identified transcripts that accumulate in leaves of both these wheat cultivars as an early response to M. graminicola strain IPO323 (at 24h post-treatment). At this initial time point, microscopic analysis verified that fungal spores had germinated, but not penetrated the leaves of both genotypes. Results showed that basal defence genes were activated in both the compatible and incompatible interactions. A subset of genes were identified that were more pathogen-responsive in the cv. Flame v. IPO323 incompatible interaction as compared to the cv. Longbow v. IPO323 compatible interaction, including defence genes such as peroxidases, beta-1,3-glucanase, annexin, chitinases, brassinosteroid-associated kinase 1 and a jasmonate-inducible protein.

2014-06-04 | E-MEXP-3584 | biostudies-arrayexpress

Transcriptome analysis in the old Brazilian wheat variety Toropi in response to infection with Puccinia triticina, the causal pathogen of leaf rust

Project description:We undertook a time course analysis of gene expression between mock (non)-inoculated and pathogen (Puccinia triticinia)-infected wheat samples using RNA sequencing (RNA-Seq).

2022-06-26 | E-MTAB-9791 | biostudies-arrayexpress

Transcription profiling by array of wheat after inoculation with Puccinia triticina, Puccinia hordei or mock-inoculation to identify candidate genes for nonhost resistance against rust disease

Project description:In this experiment the transcriptome reprogramming in wheat during host and nonhost interaction with Puccinia sp. was analyzed in a time-series approach. Ten days old wheat plants of cv. Renan were mock-inoculated or inoculated with P. triticina (Pt), BRW96258 isolate, or P. hordei (Ph), 1.2.1 isolate. After 12, 24, 36 and 48 hours first leaves were sampled. Total RNA was extracted using the RNeasy Plant Mini Kit (Qiagen, Hilden, Germany), the Ambion TURBO DNA-free DNase Kit was used for DNA elimination, and RNA was hybridized to Agilent 44k oligonucleotide arrays.

2017-12-02 | E-MTAB-5656 | biostudies-arrayexpress

Transcriptome sequencing at early stage infection of the wheat pathogen Zymoseptoria tritici reveals chromosomal differences in transcription patterns and host specific gene expression.

Project description:We have applied whole transcriptome profiling to infer genetic determinants of pathogenicity and host specialization in Z. tritici. Our data includes RNAseq data from early infection stages of a compatible (wheat) and a non-compatible host (Brachypodium distachyon). Overall transcription of AC genes is remarkably lower than genes on core chromosomes (CC) and only 40% of the genes are transcribed. We identify 31 AC and 1069 CC genes showing plant specific expression. In addition 21 CC genes are only upregulated in wheat supporting functional relevance in host specificity. We further explore the genomic composition and distribution of unique and paralogous genes in Z. tritici focusing on the evolutionary origin of AC genes. In contrast to previous studies we show that ACs mainly encode unique genes. Phylogenetic analyses suggest that rare duplication events in the Z. tritici genome precede diversification of Zymoseptoria species and demonstrate that ACs have been maintained in the genome of Zymoseptoria over long evolutionary times. Examination of gene expression at 3 different growth condition of the wheat pathogen Z. tritici.

2014-06-30 | E-GEOD-54874 | biostudies-arrayexpress

Expression data from after-ripened wheat seeds imbibed in ABA

Project description:Wheat seed germination and seminal root growth can be inhibited by treatment with exogenous ABA We used Affymetrix GeneChip Wheat Genome Array to detail transcriptional programs affected by ABA during imbibition After-ripened seeds imbibed in ABA for 24 h were used for RNA extraction and hybridization on Affymetrix GeneChip. After-ripened seeds were generated by storing dormant seeds at room temperature for 10 months.

2013-06-05 | E-GEOD-32409 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data