Prediction of the Diplocarpon rosae secretome reveals candidate genes for effectors and virulence factors

Neu, Enzo; Debener, Thomas

doi:10.1016/j.funbio.2018.12.003

Cited by 18 publications

(15 citation statements)

References 80 publications

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“…Fungal pathogens, especially necrotrophic pathogens, produce a variety of CAZymes for the degradation of plant polysaccharide materials to facilitate infection and/or gain nutrition [ 56 , 57 , 58 , 59 ]. CAZymes that are known as plant cell wall degradation enzymes mainly include pectinases, cellulases, and hemicellulase, which can destroy plant epidermis and act as important virulence factors during the initial infection process [ 60 , 61 ]. In this study, we found that the numbers and types of CAZymes in Foc1 and Foc4 were relatively similar, which is consistent with previous reports that both Foc1 and Foc4 can successfully invade banana plants [ 5 , 62 ].…”

Section: Discussionmentioning

confidence: 99%

In Vitro Secretome Analysis Suggests Differential Pathogenic Mechanisms between Fusarium oxysporum f. sp. cubense Race 1 and Race 4

Zhou

et al. 2021

Biomolecules

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Banana Fusarium wilt, caused by the fungus pathogen Fusarium oxysporum f. sp. cubense (Foc), is a devastating disease that causes tremendous reductions in banana yield worldwide. Secreted proteins can act as pathogenicity factors and play important roles in the Foc–banana interactions. In this study, a shotgun-based proteomic approach was employed to characterize and compare the secretomes of Foc1 and Foc4 upon banana extract treatment, which detected 1183 Foc1 and 2450 Foc4 proteins. Comprehensive in silico analyses further identified 447 Foc1 and 433 Foc4 proteins in the classical and non-classical secretion pathways, while the remaining proteins might be secreted through currently unknown mechanisms. Further analyses showed that the secretomes of Foc1 and Foc4 are similar in their overall functional characteristics and share largely conserved repertoires of CAZymes and effectors. However, we also identified a number of potentially important pathogenicity factors that are differentially present in Foc1 and Foc4, which may contribute to their different pathogenicity against banana hosts. Furthermore, our quantitative PCR analysis revealed that genes encoding secreted pathogenicity factors differ significantly between Foc1 and Foc4 in their expression regulation in response to banana extract treatment. To our knowledge, this is the first experimental secretome analysis that focused on the pathogenicity mechanism in different Foc races. The results of this study provide useful resources for further exploration of the complicated pathogenicity mechanisms in Foc.

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Section: Discussionmentioning

confidence: 99%

In Vitro Secretome Analysis Suggests Differential Pathogenic Mechanisms between Fusarium oxysporum f. sp. cubense Race 1 and Race 4

Zhou

et al. 2021

Biomolecules

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“…These databases comprise, to date, more than 4000 proteins involved in pathogenicity, from more than 260 plant and animal pathogens; 70% of them being phytopathogens [19,20]. The search for protein effectors in the PHI base for the positive data set was done using the following criteria: length ≤400 amino acids [5,[21][22][23][24][25], ≥4 cysteine residues [26,27], presence of signal peptide and lack of transmembrane domains [1,27,28].…”

Section: Validation Of Effhunter Pipeline In Ab Initio Approachmentioning

confidence: 99%

“…These pathogenic fungi secrete diverse small proteins in the infection process which are pathogenicity or virulence determinants that manipulate the interaction, and thus are commonly referred to as "effectors" [1][2][3][4]. Small, secreted, cysteine-rich proteins constitute a common source of fungal effectors [3,[5][6][7].…”

Section: Introductionmentioning

confidence: 99%

EffHunter: A Tool for Prediction of Effector Protein Candidates in Fungal Proteomic Databases

et al. 2020

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Pathogens are able to deliver small-secreted, cysteine-rich proteins into plant cells to enable infection. The computational prediction of effector proteins remains one of the most challenging areas in the study of plant fungi interactions. At present, there are several bioinformatic programs that can help in the identification of these proteins; however, in most cases, these programs are managed independently. Here, we present EffHunter, an easy and fast bioinformatics tool for the identification of effectors. This predictor was used to identify putative effectors in 88 proteomes using characteristics such as size, cysteine residue content, secretion signal and transmembrane domains.

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“…Pathogens generate secretory proteins (SPs) that are critical for infection of the host and function in processes including degradation of the cell wall and biomacromolecules as well as contributing to modulation of metabolic processes and immune responses [ 3 , 4 ]. Studies of SPs have revealed many pathogenic mechanisms.…”

Section: Introductionmentioning

confidence: 99%

“…Secretome profiling and prediction have been used to identify SPs of many pathogens, including Tilletia horrida [ 10 ], Fusarium proliferatum [ 11 ], Tilletia indica [ 12 , 13 ], rose black spot [ 4 ], Trichoderma virens [ 14 ], Arbuscular mycorrhizal [ 15 ], and Puccinia striiformis f. sp. tritici [ 16 ].…”

Section: Introductionmentioning

confidence: 99%

Secretome Analysis of the Banana Fusarium Wilt Fungi Foc R1 and Foc TR4 Reveals a New Effector OASTL Required for Full Pathogenicity of Foc TR4 in Banana

et al. 2020

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Banana Fusarium wilt (BFW), which is one of the most important banana diseases worldwide, is mainly caused by Fusarium oxysporum f. sp. cubense tropic race 4 (Foc TR4). In this study, we conducted secretome analysis of Foc R1 and Foc TR4 and discovered a total of 120 and 109 secretory proteins (SPs) from Foc R1 cultured alone or with banana roots, respectively, and 129 and 105 SPs respectively from Foc TR4 cultured under the same conditions. Foc R1 and Foc TR4 shared numerous SPs associated with hydrolase activity, oxidoreductase activity, and transferase activity. Furthermore, in culture with banana roots, Foc R1 and Foc TR4 secreted many novel SPs, of which approximately 90% (Foc R1; 57/66; Foc TR4; 50/55) were unconventional SPs without signal peptides. Comparative analysis of SPs in Foc R1 and Foc TR4 revealed that Foc TR4 not only generated more specific SPs but also had a higher proportion of SPs involved in various metabolic pathways, such as phenylalanine metabolism and cysteine and methionine metabolism. The cysteine biosynthesis enzyme O-acetylhomoserine (thiol)-lyase (OASTL) was the most abundant root inducible Foc TR4-specific SP. In addition, knockout of the OASTL gene did not affect growth of Foc TR4; but resulted in the loss of pathogenicity in banana ‘Brazil’. We speculated that OASTL functions in banana by interfering with the biosynthesis of cysteine, which is the precursor of an enormous number of sulfur-containing defense compounds. Overall, our studies provide a basic understanding of the SPs in Foc R1 and Foc TR4; including a novel effector in Foc TR4.

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Prediction of the Diplocarpon rosae secretome reveals candidate genes for effectors and virulence factors

Cited by 18 publications

References 80 publications

In Vitro Secretome Analysis Suggests Differential Pathogenic Mechanisms between Fusarium oxysporum f. sp. cubense Race 1 and Race 4

In Vitro Secretome Analysis Suggests Differential Pathogenic Mechanisms between Fusarium oxysporum f. sp. cubense Race 1 and Race 4

EffHunter: A Tool for Prediction of Effector Protein Candidates in Fungal Proteomic Databases

Secretome Analysis of the Banana Fusarium Wilt Fungi Foc R1 and Foc TR4 Reveals a New Effector OASTL Required for Full Pathogenicity of Foc TR4 in Banana

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