Ontology highlight
ABSTRACT:
PROVIDER: PRJNA661430 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:The functional diversity of soil microbial communities was explored for a poplar plantation, which was treated solely with biogas slurry, or combined with biochar at different fertilization intensities over several years.
2020-03-30 | GSE133800 | GEO
Project description:Root rot is one of the most severe diseases affecting agricultural productivity worldwide, particularly wolfberry. However, the mechanisms underlying wolfberry resistance to root rot pathogens remain unclear. In this study, we selected Chinese wolfberry (Lycium chinense Mill., LC) and Ningxia wolfberry ‘Ningqi No.5’ (Lycium barbarum L., N5) as research materials, which have been reported to show different tolerances to root rot.
2023-06-26 | PXD043279 | iProX
Project description:Rice (Oryza sativa L.) is one of the most important staple foods in the world, feeding more than 50% of the human population. One of its most damaging pathogens, with major impact on rice yield, is the migratory root rot nematode Hirschmanniella oryzae. In comparison with the existing knowledge on the infection process of dicots by sedentary nematodes, far less is known about the interaction between monocot plants and nematodes or plant interactions with migratory nematode species. Therefore, to gain deeper insight into the systemic transcriptional changes in rice after migratory root rot nematode infection we have performed mRNA-Seq on the shoots of root rot nematode infected rice plants. The observations were independently validated using qRT-PCR and biochemical analyses. This research reveals significant modifications in the metabolism of the plant, with a general suppression of chlorophyll biosynthesis, and primary metabolic processes involved in plant growth . Differential expression analysis between controls rice shoots and shoots from root rot nematode (H. oryzae) infected rice at two time points.
2015-05-18 | E-GEOD-57707 | biostudies-arrayexpress
Project description:Rice (Oryza sativa L.) is one of the most important staple foods in the world, feeding more than 50% of the human population. One of its most damaging pathogens, with major impact on rice yield, is the migratory root rot nematode Hirschmanniella oryzae. In comparison with the existing knowledge on the infection process of dicots by sedentary nematodes, far less is known about the interaction between monocot plants and nematodes or plant interactions with migratory nematode species. Therefore, to gain deeper insight into the systemic transcriptional changes in rice after migratory root rot nematode infection we have performed mRNA-Seq on the shoots of root rot nematode infected rice plants. The observations were independently validated using qRT-PCR and biochemical analyses. This research reveals significant modifications in the metabolism of the plant, with a general suppression of chlorophyll biosynthesis, and primary metabolic processes involved in plant growth .
2015-05-18 | GSE57707 | GEO
Project description:Across Canada, infections associated with Fusarium have a devastating impact on the agricultural sector. For example, Fusarium head blight (FHB) costs the Canadian grain industry over $1.5 billion annually in diminished export and domestic sales. For Ontario’s most productive and lucrative crops infection by Fusarium spp., leads to losses of over $200 million annually through yield reduction in corn (i.e., stalk and ear rot), cereals (i.e., FHB), and soybeans (i.e., root rot and sudden death syndrome). Additionally, mycotoxin production by Fusarium spp. (e.g., deoxynivalenol [DON]) has severe consequences for the livestock and poultry industries through consumption of contaminated feed, as well as concerns for human health upon consumption of contaminated processed grains. Current management strategies against FHB rely on fungicide application at heading, which reduces infection but does not limit the accumulation of dangerous mycotoxins within the grains. Moreover, such fungicide applications substantially increase the economic cost to growers, raise public concerns over chemical exposure, and contribute to the development of antimicrobial resistance. The critical role of Fusarium fungal pathogens and their toxins in the health of crops, livestock, and humans underscores the need for innovative strategies to better understand mechanisms of disease and identify novel management strategies to limit the incidence of infection and to critically, reduce the accumulation of mycotoxins within infected grains
2022-09-27 | PXD037035 | Pride
Project description:Introduction: Hemibiotrophic Phytophthora are a group of agriculturally and ecologically important pathogenic oomycetes causing severe decline in plant growth and fitness. The lifestyle of these pathogens consists of an initial biotrophic phase followed by a switch to a necrotrophic phase in the latter stages of infection. Between these two phases is the biotrophic to necrotrophic switch (BNS) phase, the timing and controls of which are not well understood particularly in Phytophthora spp. where host resistance has a purely quantitative genetic basis. Methods: To investigate this we sequenced and annotated the genome of Phytophthora medicaginis, causal agent of root rot and substantial yield losses to Fabaceae hosts. We analysed the transcriptome of P. medicaginis across three phases of colonisation of a susceptible chickpea host (Cicer arietinum) and performed co-regulatory analysis to identify putative small secreted protein (SSP) effectors that influence timing of the BNS in a quantitative pathosystem. Results: The genome of P. medicaginis is ~78 Mb, comparable to P. fragariae and P. rubi which also cause root rot. Despite this, it encodes the second smallest number of RxLR (arginine-any amino acid-leucine-arginine) containing proteins of currently sequenced Phytophthora species. Only quantitative resistance is known in chickpea to P. medicaginis, however, we found that many RxLR, Crinkler (CRN), and Nep1-like protein (NLP) proteins and carbohydrate active enzymes (CAZymes) were regulated during infection. Characterisation of one of these, Phytmed_10271, which encodes an RxLR effector demonstrates that it plays a role in the timing of the BNS phase and root cell death. Discussion: These findings provide an important framework and resource for understanding the role of pathogenicity factors in purely quantitative Phytophthora pathosystems and their implications to the timing of the BNS phase.
2024-08-05 | GSE183604 | GEO
Project description:Pathogens that cause soybean sudden death syndrome or bean root rot
| PRJNA289542 | ENA
Project description:White root rot disease caused by Rosellinia necatrix is one of the most important pathogens affecting avocado productivity in temperate, tropical and subtropical climates. Control of this disease is complex and nowadays, lies in the use of physical and chemical methods, although none have proven to be fully effective. Detailed understanding of the molecular mechanisms underlying white root rot disease has the potential of aiding future developments in disease resistance and management. In this regard, this study used RNAseq technology to compare the transcriptomic profiles of R. necatrix during infection of susceptible avocado `Dusa´ roots with that obtained from the fungus cultured in rich medium. The transcriptomes from three biological replicates of R. necatrix colonizing avocado roots (RC) and R. necatrix growing on potato dextrose agar media (PDA) were obtained using Illumina sequencing. A total of 12,104 transcripts were obtained, among which 1937 were differentially expressed genes (DEG), 137 exclusively expressed in RC and 160 and PDA. Interestingly genes involved in the production of fungal toxins, detoxification of toxic compounds, hormone biosynthesis, gene silencing and plant cell wall degradation were overexpressed during the infection process. In addition, 23 out of the 137 contigs, only expressed during R. necatrix growth on avocado roots, were predicted as candidate effector proteins (CEP) by the CSIRO tool with a probability above 60%. The PHI (Pathogen Host Interaction) database revealed that 11 R. necatrix CEP were previously annotated as effectors genes proven experimentally via pathogen-host interaction.
2020-01-08 | GSE134243 | GEO