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In planta expression profiles of five Fusarium fujikuroi species complex (FFC) isolates revealed common and different sets of up-regulated genes

ABSTRACT: The five FFC strains analyzed are able to penetrate maize roots and grow invasively, the efficiency of this growth as well as the ability to subsequently grow in other parts of maize plants differ significantly. To gain insight into these differences, we examined the transcriptome of the five isolates in infected maize roots with that of in vitro (CM agar) growing fungi by a RNA sequencing approach.

OTHER RELATED OMICS DATASETS IN: PRJNA311604

ORGANISM(S): Zea mays Fusarium mangiferae Fusarium proliferatum Fusarium verticillioides 7600 Fusarium fujikuroi IMI 58289 Fusarium proliferatum ET1

PROVIDER: GSE77595 | GEO | 2016/12/06

SECONDARY ACCESSION(S): PRJNA311604

REPOSITORIES: GEO

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In planta expression profiles of five Fusarium fujikuroi species complex (FFC) isolates revealed common and different sets of up-regulated genes

Project description:In planta expression profiles of five Fusarium fujikuroi species complex (FFC) isolates revealed common and different sets of up-regulated genes

| PRJNA311604 | ENA

Expression profiles of nine Fusarium fujikuroi strains revealed common and different sets of up-regulated genes

Project description:We provide genome sequences of altogether 9 F. fujikuroi and one F. oxysporum (outgroup) strains, all isolated from rice plants in different geographical regions of the world, and searched for differences in genome structure, chromosome size, secondary metabolite production, virulence on rice, and in vitro and in planta transcriptome profiles. Despite their high relatedness on genome level, they differ significantly in their ability to infect rice, to form asexual spores (micro-and macroconidia), and to produce secondary metabolites. To gain insight into these differences, we compared the transcriptome of the ten strains in infected rice roots with that of liquid culture at low and high nitrogen (6 mM and 60 mM Gln) in vitro conditions by a RNA sequencing approach.

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Functional and morphological renal changes in a Göttingen Minipig model of obesity-related and diabetic nephropathy

Project description:Male Göttingen Minipigs were divided into 4 groups: SD (standard diet, n=8), FFC (FFC diet, n=16), FFC-DIA (FFC diet + diabetes, n=14), FFC-DIA+S (FFC diet with extra salt + diabetes, n=14). Blood and urine biomarkers, glomerular filtration rate (GFR), blood pressure and resistive index (RI) were evaluated after 6-7 months (T1) and 12-13 months (T2). Histology, electron microscopy and gene expression (excluding FFC-DIA+S) were evaluated at T2. Göttingen Minipigs fed FFC diet displayed some of the characteristic features of human ORG. Presence of diabetes on top of FFC diet, lead to changes resembling the early phases of human DN.

2023-04-19 | GSE215843 | GEO

System analysis of microRNAs in the development and aluminium stress responses of the maize root system.

2014-03-01 | GSE53865 | GEO

The distinct transcription patterns correlate with the differential growth responses to salt stress in maize roots

Project description:We found that primary root (PR) is more resistant to salt stress compared with crown roots (CR) and seminal roots (SR). To understand better salt stress responses in maize roots, six RNA libraries were generated and sequenced from primary root (PR), primary roots under salt stress (PR-salt) , seminal roots (SR), seminal roots under salt stress (SR-salt), crown roots (CR), and crown roots under salt stress (CR-salt). Through integrative analysis, we identified 444 genes regulated by salt stress in maize roots, and found that the expression patterns of some genes and enzymes involved in important pathway under salt stress, such as reactive oxygen species scavenging, plant hormone signal perception and transduction, and compatible solutes synthesis differed dramatically in different maize roots. 16 of differentially expressed genes were selected for further validation with quantitative real time RT-PCR (qRT-PCR).We demonstrate that the expression patterns of differentially expressed genes are highly diversified in different maize roots. The differentially expressed genes are correlated with the differential growth responses to salt stress in maize roots. Our studies provide deeper insight into the molecular mechanisms about the differential growth responses of different root types in response to environmental stimuli in planta.

2014-03-01 | GSE53995 | GEO

Tissue-level transcriptome response to local and distal chilling reveals potential chilling survival mechanisms in maize

Project description:Chilling is a major stress to plants of subtropical and tropical origins including maize. To reveal molecular mechanisms underlying chilling tolerance and chilling survival, we investigated maize transcriptome responses to chilling stress in differentiated leaves and roots as well as in crowns with meristem activity for survival. Chilling stress on maize shoots and roots is found to each contribute to seedling lethality in maize. Comparison of maize lines with different chilling tolerance capacity reveals that chilling survival in maize is highly associated with upregulation in leaves and crowns of abscisic acid response pathway, transcriptional regulators and cold response as well as downregulation of heat response in crowns. Comparison of chilling treatment on whole and part of the plants reveals that response to distal-chilling is very distinct from, and sometimes opposite to, response to local- or whole-plant chilling in both leaves and roots, suggesting a communication between shoots and roots in environmental perception. In sum, this study details chilling responses in leaves, roots and crowns and reveals potential chilling survival mechanism in maize, which lays ground for further understanding survival and tolerance mechanisms under low but non-freezing temperatures in tropical and subtropical plants.

2023-07-14 | GSE167881 | GEO

MicroRNAs in the development and the environmental responses of the maize root system

Project description:Four sRNA libraries were generated and sequenced from the early developmental stage of primary roots (PRY), the later developmental stage of maize primary roots (PRO), seminal roots (SR), and crown roots (CR). Through integrative analysis, we identified 501 miRNAs (246 conserved and 255 novel ones) and found that the expression patterns of miRNAs differed dramatically in different maize roots. we generated and sequenced four maize small RNA libraries from the early developmental stage of primary roots (PRY), the later developmental stage of maize primary roots (PRO), seminal roots (SR), and crown roots (CR) using Solexa high-throughput sequencing technology

2014-03-01 | E-GEOD-53865 | biostudies-arrayexpress

Transcriptome analysis of four maize lines to detect the different responses to chilling stress and reveal the survival mechanisms in maize

Project description:Purpose: The goal of this analysis is that to reveal the different expression pattern in chilling-tolerant and chilling susceptible lines under chilling stress.Chilling is a major stress to plants of subtropical and tropical origins including maize. To reveal molecular mechanisms underlying chilling tolerance and chilling survival, we investigated maize transcriptome responses to chilling stress in differentiated leaves and roots as well as in crowns with meristem activity for survival. Chilling stress on maize shoots and roots is found to each contribute to seedling lethality in maize. Comparison of maize lines with different chilling tolerance capacity reveals that chilling survival in maize is highly associated with upregulation in leaves and crowns of abscisic acid response pathway, transcriptional regulators and metal ion transporters as well as downregulation of heat response in crowns. Comparison of chilling treatment on whole and part of the plants reveals that response to distal-chilling is very distinct from, and sometimes opposite to, response to local- or whole-plant chilling in both leaves and roots, suggesting a communication between shoots and roots in environmental perception. In sum, this study details chilling responses in leaves, roots and crowns and reveals potential chilling survival mechanism in maize, which lays ground for further understanding survival and tolerance mechanisms under low but non-freezing temperatures in tropical and subtropical plants.

2023-02-19 | GSE167156 | GEO

The distinct transcription patterns correlate with the differential growth responses to salt stress in maize roots

2014-03-01 | E-GEOD-53995 | biostudies-arrayexpress

Maize gene expression during infection with Ustilago maydis strain SG200Dpep1

Project description:The basidiomycete Ustilago maydis causes smut disease in maize. Colonization of the host plant is initiated by direct penetration of cuticle and cell wall of maize epidermis cells. The invading hyphae are surrounded by the plant plasma membrane and proliferate within the plant tissue. We identified a novel secreted protein, termed Pep1. Disruption mutants of pep1 are not affected in saprophytic growth and develop normal infection structures. However, Δpep1 mutants fail to penetrate the epidermal cell wall and elicit a strong plant defense response. Using Affymetrix maize arrays we identified about 110 plant genes which are differentially regulated in Δpep1 and wild type infections during the penetration stage.

2008-09-25 | GSE12892 | GEO

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