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Protocols

EffectorP specifications

Information


Unique identifier OMICS_14236
Name EffectorP
Interface Web user interface
Restrictions to use None
Input data A protein sequence or several protein sequences.
Input format FASTA
Output data A summary table which shows the predictions (effector or non-effector) for each submitted protein.
Output format FASTA
Programming languages Python
License GNU General Public License version 3.0
Computer skills Basic
Version 2.0
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Jana Sperschneider

Information


Unique identifier OMICS_14236
Name EffectorP
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Python
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.0
Stability Stable
Requirements
EMBOSS, WEKA
Maintained Yes

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Versioning


No version available

Maintainer


  • person_outline Jana Sperschneider

Publications for EffectorP

EffectorP citations

 (27)
library_books

Comparative systems analysis of the secretome of the opportunistic pathogen Aspergillus fumigatus and other Aspergillus species

2018
Sci Rep
PMCID: 5919931
PMID: 29700415
DOI: 10.1038/s41598-018-25016-4

[…] tomes of Aspergillus species, SSPs were defined as those with sequence length less than or equal to 300 amino acid residues,,. The SSPs were then evaluated for effector-like properties based on their EffectorP (http://effectorp.csiro.au/) predictions or cysteine-richness. For identifying effector-like SSPs, cysteine-rich sequences are those which contain at least 4 cysteine residues and have great […]

library_books

Comparative genomics of the wheat fungal pathogen Pyrenophora tritici repentis reveals chromosomal variations and genome plasticity

2018
BMC Genomics
PMCID: 5913888
PMID: 29685100
DOI: 10.1186/s12864-018-4680-3

[…] Genes with potential effector properties were predicted for all isolates (including the race 4 isolate SD20). Predicted effector gene numbers ranged between 179 and 260 based on an EffectorP score > 0.5 [], (Table ). Of the predicted effectors, extracellular proteins supported 42, 52 and 34% for 11,137, DW5 and M4 respectively (Table ). Two potential novel candidate effectors un […]

library_books

Inter genome comparison of the Quorn fungus Fusarium venenatum and the closely related plant infecting pathogen Fusarium graminearum

2018
BMC Genomics
PMCID: 5907747
PMID: 29673315
DOI: 10.1186/s12864-018-4612-2

[…] teins. WoLfPSort [] (extracellular score > 17, WoLfPSort) was used to identify final destination and big-PI [] to further remove GPI-anchored proteins. Putative effector proteins were predicted using EffectorP (v1.0). […]

library_books

Genomics analysis of Aphanomyces spp. identifies a new class of oomycete effector associated with host adaptation

2018
BMC Biol
PMCID: 5907361
PMID: 29669603
DOI: 10.1186/s12915-018-0508-5

[…] ion and 86% (138/160, Additional file : ST1i) coded for small proteins (Fig. ). Interestingly, 59% of these small proteins were predicted to be putative effectors from A. euteiches or A. astaci using EffectorP (Additional file : ST1i), a software based on properties shared by fungal effectors []. This suggests that Aphanomyces species presented a set of SSPs similar to fungal effectors.Fig. 3 […]

library_books

Comparative Genomics of Smut Pathogens: Insights From Orphans and Positively Selected Genes Into Host Specialization

2018
Front Microbiol
PMCID: 5897528
PMID: 29681893
DOI: 10.3389/fmicb.2018.00660

[…] ays were recovered (Supplementary File ). The predicted secretome was defined by the presence of a signal peptide and absence of any transmembrane domain, using Phobius v.1.01 () and SignalP v4.1 (). EffectorP was used to predict the effector repertoire from the predicted secretome based on machine learning (). Characterized effectors in smut species were screened for orthologs and tblastn was use […]

library_books

The Apoplastic Secretome of Trichoderma virens During Interaction With Maize Roots Shows an Inhibition of Plant Defence and Scavenging Oxidative Stress Secreted Proteins

2018
Front Plant Sci
PMCID: 5896443
PMID: 29675028
DOI: 10.3389/fpls.2018.00409

[…] al secretome databases: Fungal Secretome Database (FSD) (Choi et al., ) and FunSeckB2 (Meinken et al., ), and one plant secretome database: PlanSeckB (Min et al., ). Additionally, the prediction tool EffectorP was used to identify putative effectors-like proteins from T. virens (Sperschneider et al., ). Predicted functional analysis of the APs was performed using Blast2GO that combines GO (http:// […]

Citations

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EffectorP institution(s)
Centre for Environment and Life Sciences, CSIRO Agriculture and Food, Perth, WA, Australia; Black Mountain Laboratories, CSIRO Agriculture and Food, Canberra, ACT, Australia; CSIRO Agriculture and Food, Queensland Bioscience Precinct, Brisbane, QLD, Australia; Centre for Crop and Disease Management, Department of Environment and Agriculture, Curtin University, Bentley, WA, Australia
EffectorP funding source(s)
Supported by a CSIRO OCE Postdoctoral Fellowship.

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