Detail publikace

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

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

Originální název

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

Typ

článek v časopise ve Web of Science, Jimp

Jazyk

angličtina

Originální abstrakt

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.

Klíčová slova

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

Autoři

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

Vydáno

5. 7. 2021

Nakladatel

MDPI

Místo

Basel, Switzerland

ISSN

2079-6382

Periodikum

Antibiotics

Ročník

10

Číslo

7

Stát

Švýcarská konfederace

Strany od

1

Strany do

12

Strany počet

12

URL

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

Plný text v Digitální knihovně

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"
}