ArticleBMC plant biology2010
Whole genome wide expression profiles of Vitis amurensis grape responding to downy mildew by using Solexa sequencing technology.
Article in BMC plant biology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 79 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
79 citing papers in PubMed.
- Article
- The Transcriptional Landscape of Berry Skin in Red and White PIWI ("Pilzwiderstandsfähig") Grapevines Possessing QTLs for Partial Resistance to Downy and Powdery Mildews.Plants (Basel, Switzerland) · 2024Article
- Study on the Effect of Sooty Mould Disease in Tea Plants.Plants (Basel, Switzerland) · 2024Article
- Physiological responses and transcriptome analysis ofFrontiers in plant science · 2024Article
- The Endophytic Microbiome of Wild GrapevinesPlants (Basel, Switzerland) · 2023Article
- Discovery and genome-guided mapping ofHorticulture research · 2023Article
- Comparative transcriptome analysis of resistant and susceptible Kentucky bluegrass varieties in response to powdery mildew infection.BMC plant biology · 2022Article
- The Diversity of Fungal Endophytes from Wild GrapePlants (Basel, Switzerland) · 2022Article
- The Biodiversity of Grapevine Bacterial Endophytes ofPlants (Basel, Switzerland) · 2022Article
- Article
- Transcriptomic and metabolomic integration as a resource in grapevine to study fruit metabolite quality traits.Frontiers in plant science · 2022Article
- The Small Secreted Protein FoSsp1 Elicits Plant Defenses and Negatively Regulates Pathogenesis inFrontiers in plant science · 2022Article
- Characterization ofFrontiers in plant science · 2022Article
- The Influence of the Grapevine Bacterial and Fungal Endophytes on Biomass Accumulation and Stilbene Production by the In Vitro Cultivated Cells ofPlants (Basel, Switzerland) · 2021Article
- Proteomic analysis of early-stage incompatible and compatible interactions between grapevine and P. viticola.Horticulture research · 2021Article
- Comprehensive Leaf Cell Wall Analysis Using Carbohydrate Microarrays Reveals Polysaccharide-Level Variation betweenPolymers · 2021Article
- Characterization of a novel levopimaradiene synthase gene responsible for the biosynthesis of terpene trilactones inPlant signaling & behavior · 2021Article
- A Novel, Small Cysteine-Rich Effector, RsSCR10 inFrontiers in microbiology · 2021Article
- Article
- De novo transcriptome sequencing and analysis of salt-, alkali-, and drought-responsive genes in Sophora alopecuroides.BMC genomics · 2020Article
19 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundDowny mildew (DM), caused by pathogen Plasmopara viticola (PV) is the single most damaging disease of grapes (Vitis L.) worldwide. However, the mechanisms of the disease development in grapes are poorly understood. A method for estimating gene expression levels using Solexa sequencing of Type I restriction-endonuclease-generated cDNA fragments was used for deep sequencing the transcriptomes resulting from PV infected leaves of Vitis amurensis Rupr. cv. Zuoshan-1. Our goal is to identify genes that are involved in resistance to grape DM disease.
resultsApproximately 8.5 million (M) 21-nt cDNA tags were sequenced in the cDNA library derived from PV pathogen-infected leaves, and about 7.5 M were sequenced from the cDNA library constructed from the control leaves. When annotated, a total of 15,249 putative genes were identified from the Solexa sequencing tags for the infection (INF) library and 14,549 for the control (CON) library. Comparative analysis between these two cDNA libraries showed about 0.9% of the unique tags increased by at least five-fold, and about 0.6% of the unique tags decreased more than five-fold in infected leaves, while 98.5% of the unique tags showed less than five-fold difference between the two samples. The expression levels of 12 differentially expressed genes were confirmed by Real-time RT-PCR and the trends observed agreed well with the Solexa expression profiles, although the degree of change was lower in amplitude. After pathway enrichment analysis, a set of significantly enriched pathways were identified for the differentially expressed genes (DEGs), which associated with ribosome structure, photosynthesis, amino acid and sugar metabolism.
conclusionsThis study presented a series of candidate genes and pathways that may contribute to DM resistance in grapes, and illustrated that the Solexa-based tag-sequencing approach was a powerful tool for gene expression comparison between control and treated samples.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.