Dataset of the Botrytis cinerea phosphoproteome induced by different plant-based elicitors

Liñeiro, Eva; Chiva, Cristina; Cantoral, Jesús M.; Sabidó, Eduard; Fernández-Acero, Francisco Javier

doi:10.1016/j.dib.2016.04.039

Cited by 4 publications

(12 citation statements)

References 4 publications

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“…To this aim, proteins identified under each condition were categorized according to their specific gene ontology (GO) annotations, by MF and BP; and SEA analysis was performed. GO results showed a more active and variated metabolism when an easy assimilable carbon source was present in the culture medium, which agree with data obtained from the B. cinerea membranome and phosphoproteome, but not with the phosphomembranome, when they were independently analyzed [9,12]. Phosphomembranome was the only proteome that presented a higher number of GO categories under TCW conditions, which may indicate a crucial role as a switch in the change between pathogenic states of those membrane proteins regulated by phosphorylation.…”

Section: Go Analysissupporting

confidence: 86%

“…B. cinerea membranome was obtained from ground mycelium using ReadyPrep Protein Extraction Kit (membrane I) (Bio Rad, Hercules, CA, USA) and acetone precipitation, as previously described byLineiro et al (2016) [ 7 ]. Protein digestion and sample preparation for MS analysis was performed as previously described [ 12 ]. Protein extraction in phosphoproteome was carried out, treating powdered mycelium with a phenol-based procedure, as previously reported [ 6 ].…”

Section: Methodsmentioning

confidence: 99%

“…Protein extraction in phosphoproteome was carried out, treating powdered mycelium with a phenol-based procedure, as previously reported [ 6 ]. The protein extract was through phosphopeptide enrichment using titanium dioxide and MS sample preparation, as described byLineiro et al (2016) [ 12 ]. Finally, phosphomembranome was isolated by the temperature-dependent partition method [ 13 ] with minor modifications [ 7 ] using powdered mycelium.…”

Section: Methodsmentioning

confidence: 99%

“…These networks went through a deeper analysis to identify clusters by using the software MCODE [16]. This analysis identified 14 and 41 clusters in TCW and GLU, respectively (Supplementary Tables S5 and S6), showing more cluster numbers in each condition than the individual analysis of each proteome on its own [7,9,12]. The number of clusters relating to signal transductions were higher too, with three clusters under the GLU condition and one under TCW.…”

Section: Protein Interaction Analysismentioning

confidence: 99%

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Deciphering the Dynamics of Signaling Cascades and Virulence Factors of B. cinerea during Tomato Cell Wall Degradation

et al. 2021

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The ascomycete Botrytis cinerea is one of the most relevant plant pathogenic fungi, affecting fruits, flowers, and greenhouse-grown crops. The infection strategy used by the fungus comprises a magnificent set of tools to penetrate and overcome plant defenses. In this context, the plant-pathogen communication through membrane receptors and signal transduction cascades is essential to trigger specific routes and the final success of the infection. In previous reports, proteomics approaches to B. cinerea signal transduction cascades changes in response to different carbon source and plant-based elicitors have been performed. Analyzing the secretome, membranome, phosphoproteome, and the phosphomembranome. Moreover, phenotypic changes in fungal biology was analyzed, specifically toxin production. To obtain the whole picture of the process and reveal the network from a system biology approach, this proteomic information has been merged with the phenotypic characterization, to be analyzed using several bioinformatics algorithms (GO, STRING, MCODE) in order to unravel key points in the signal transduction regulation crucial to overcome plant defenses, as well as new virulence/pathogenicity factors that could be used as therapeutic targets in the control of the gray mold rot disease. A total of 1721 and 663 exclusive or overexpressed proteins were identified under glucose (GLU) and deproteinized tomato cell walls (TCW), summarizing all of the protein identifications under phenotypic characterized stages. Under GO analysis, there are more biological process and molecular functions described in GLU, highlighting the increase in signaling related categories. These results agree with the high number of total identified proteins in GLU, probably indicating a more varied and active metabolism of the fungus. When analyzing only GO annotations related with signal transduction, it was revealed that there were proteins related to TOR signaling, the phosphorelay signal transduction system, and inositol lipid-mediated signaling, only under GLU conditions. On the contrary, calcium-mediated signaling GO annotation is only present between the proteins identified under TCW conditions. To establish a potential relationship between expressed proteins, cluster analyses showed 41 and 14 clusters under GLU and TCW conditions, confirming an increase in biological activity in GLU, where we identified a larger number of clusters related to transcription, translation, and cell division, between others. From these analyses, clusters related to signal transduction and clusters related to mycotoxin production were found, which correlated with the phenotypic characterization. The identification of the proteins encompassed in each condition and signal transduction cascade would provide the research community with new information about the B. cinerea infection process and potential candidates of pathogenicity/virulence factors, overcoming plant defenses, and new therapeutic targets.

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Section: Go Analysissupporting

confidence: 86%

Section: Methodsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

Section: Protein Interaction Analysismentioning

confidence: 99%

See 2 more Smart Citations

Deciphering the Dynamics of Signaling Cascades and Virulence Factors of B. cinerea during Tomato Cell Wall Degradation

et al. 2021

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“…Various forms of proteomics are significant in studying plant-pathogen relations and other factors which include elicitors. An example of this is phosphoproteomics which has to some extent been studied in necrotrophic pathogens like B. cinerea [156][157][158], Septoria tritici [159]. These studies need to be extended to F. graminearum to deepen the understanding of its pathogenicity and virulence.…”

Section: Fusarium Graminearum Pathogenesis Proteins Discovered Using mentioning

confidence: 99%

Pathogenicity and Virulence Factors of Fusarium graminearum Including Factors Discovered Using Next Generation Sequencing Technologies and Proteomics

et al. 2020

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Fusarium graminearum is a devasting mycotoxin-producing pathogen of grain crops. F. graminearum has been extensively studied to understand its pathogenicity and virulence factors. These studies gained momentum with the advent of next-generation sequencing (NGS) technologies and proteomics. NGS and proteomics have enabled the discovery of a multitude of pathogenicity and virulence factors of F. graminearum. This current review aimed to trace progress made in discovering F. graminearum pathogenicity and virulence factors in general, as well as pathogenicity and virulence factors discovered using NGS, and to some extent, using proteomics. We present more than 100 discovered pathogenicity or virulence factors and conclude that although a multitude of pathogenicity and virulence factors have already been discovered, more work needs to be done to take advantage of NGS and its companion applications of proteomics.

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An “omic” approach to Pyrocystis lunula: New insights related with this bioluminescent dinoflagellate

Fajardo

Amil-Ruíz

Fuentes-Almagro

et al. 2019

Journal of Proteomics

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Background: Pyrocystis lunula (Schutt) is a photoautotrophic dinoflagellate without armored, frequently found in marine environments. Today, there are several biotechnological applications derived from the bioluminescent system of this species. From a post-genomic perspective, in order to study the whole proteome of P. lunula, an "omic" approach (transcriptomic-proteomic analysis) was assessed using fresh microalgae samples. Results: A total of 80,874,825 raw reads were generated (11,292,087,505 pb; 55.82 % GC) by mRNA sequencing. Very high quality sequences were assembled into 414,295 contigs (219,203,407 pb; 55.38 % GC) by the Trinity software, generating a comprehensive reference transcriptome for this species. Then, a P. lunula proteome was predicted and further employed through the first proteomic analysis on this species. A total of 17,461 peptides were identified, yielding 3,182 protein identification hits. The identified proteins were further categorized according to functional description and gene ontology classification. Conclusions: The first comprehensive molecular analysis of the microalgae P. lunula using both, transcriptomic and proteomic approaches, has been reported. Proteomic results represent a valuable piece in the understanding of this microalgae regulation at molecular level, and shed light on the identification of important factors involved in gene expression regulation. Indeed, the presence of the luciferin-binding protein (LBP), which had not been described so far in the genus Pyrocystis has been highlighted. Background The dinoflagellates belong to a phylum of unicellular eukaryotes that live in marine and freshwater. In the ocean, they are the most important primary producers, only exceeded by diatoms, and have received a lot of attention, mostly because they are a source of valuable bioactive compounds. Additionally, dinoflagellates are related to various marine phenomena, such as bioluminescence, symbiosis and harmful algal blooms [ 1-7 ]. Pyrocystis is a marine photoautotrophic genus of the Dinophyceae, which has received attention as a model organism due to its bioluminescence capacity according to circadian rhythms [

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Dataset of the Botrytis cinerea phosphoproteome induced by different plant-based elicitors

Cited by 4 publications

References 4 publications

Deciphering the Dynamics of Signaling Cascades and Virulence Factors of B. cinerea during Tomato Cell Wall Degradation

Deciphering the Dynamics of Signaling Cascades and Virulence Factors of B. cinerea during Tomato Cell Wall Degradation

Pathogenicity and Virulence Factors of Fusarium graminearum Including Factors Discovered Using Next Generation Sequencing Technologies and Proteomics

An “omic” approach to Pyrocystis lunula: New insights related with this bioluminescent dinoflagellate

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