Publication detail

PhytoAFP: In Silico Approaches for Designing Plant-Derived Antifungal Peptides

TYAGI, A. ROY, S. PROVAZNÍK, I. SINGH, S. SEMWAL, M. SHASANY, A. SHARMA, A.

Original Title

PhytoAFP: In Silico Approaches for Designing Plant-Derived Antifungal Peptides

Type

journal article in Web of Science

Language

English

Original Abstract

Emerging infectious diseases (EID) are serious problems caused by fungi in humans and plant species. They are a severe threat to food security worldwide. In our current work, we have developed a support vector machine (SVM)-based model that attempts to design and predict therapeutic plant-derived antifungal peptides (PhytoAFP). The residue composition analysis shows the preference of C, G, K, R, and S amino acids. Position preference analysis shows that residues G, K, R, and A dominate the N-terminal. Similarly, residues N, S, C, and G prefer the C-terminal. Motif analysis reveals the presence of motifs like NYVF, NYVFP, YVFP, NYVFPA, and VFPA. We have developed two models using various input functions such as mono-, di-, and tripeptide composition, as well as binary, hybrid, and physiochemical properties, based on methods that are applied to the main data set. The TPC-based monopeptide composition model achieved more accuracy, 94.4%, with a Matthews correlation coefficient (MCC) of 0.89. Correspondingly, the second-best model based on dipeptides achieved an accuracy of 94.28% under the MCC 0.89 of the training dataset.

Keywords

plant defensins; innate immunity; host defense peptides; antimicrobial peptides

Authors

TYAGI, A.; ROY, S.; PROVAZNÍK, I.; SINGH, S.; SEMWAL, M.; SHASANY, A.; SHARMA, A.

Released

5. 7. 2021

Publisher

MDPI

Location

Basel, Switzerland

ISBN

2079-6382

Periodical

Antibiotics

Year of study

10

Number

7

State

Swiss Confederation

Pages from

1

Pages to

12

Pages count

12

URL

https://www.mdpi.com/2079-6382/10/7/815

Full text in the Digital Library

http://hdl.handle.net/11012/203026

BibTex

@article{BUT173151,
  author="Atul {Tyagi} and Sudeep {Roy} and Sanjay {Singh} and Manoj {Semwal} and Ajit {Shasany} and Ashok {Sharma} and Valentine {Provazník}",
  title="PhytoAFP: In Silico Approaches for Designing Plant-Derived Antifungal Peptides",
  journal="Antibiotics",
  year="2021",
  volume="10",
  number="7",
  pages="1--12",
  doi="10.3390/antibiotics10070815",
  issn="2079-6382",
  url="https://www.mdpi.com/2079-6382/10/7/815"
}