In Silico Epitope-Based Vaccine Prediction against Fungal Infection Aspergillosis
Round 1
Reviewer 1 Report
This manuscript entitled "In-silico epitope-based vaccine prediction against fungal infection aspergillosis" have been describing about the B and T cells epitope prediction for fungal allergen aspergillus. Which is new and interesting but it is true for non-fungal allergen or not, it is not mentioned. Although this manuscript is well design and written but still its need some improvement.
1. In method section author mentioned Figure S2 but that figure is not available.
2. Line 143-144, why B cells epitope no. is in superscript but not T-cells?
3. Figure1. author should showed protein sequence as well as bar diagram with color code for all (Here, helix, random coil, extended strand and beta turn are blue, magenta, red and green respectively). For example
4. Move the text: The Grand Average Index of Hydropathicity (GRAVY) is used to depict the peptide hydrophobicity score, which measures the total of all amino acid hydropathy values divided by the length of the sequence to the line 168 before the amino acids Ala (A), Ser (S) and Thr (T).
5. line 194 Figure ?
6. Please provide the high resolution of Rama plot.
7. Figure 3 and 4. show the plot for 3D/1D vs average score for both model 1 and 2, along with existing figures.
Author Response
Thank you for your valuable suggestions. Corrections are made as follows:
Comments and Suggestions for AuthorsThis manuscript entitled "In-silico epitope-based vaccine prediction against fungal infection aspergillosis" have been describing about the B and T cells epitope prediction for fungal allergen aspergillus. Which is new and interesting but it is true for non-fungal allergen or not, it is not mentioned. Although this manuscript is well design and written but still its need some improvement.
Response
Non-fungal allergens such as Expansin B type plant proteins are also alleregenic in nature. In silico epitope-based vaccine design for plant protein Zea m 1 has been already discussed in my earilar work -
Basu A. Immunoinformatics Based Study of T Cell Epitopes in Zea m 1 Pollen Allergen. Medicina 2019, 55, 236; doi:10.3390/medicina55060236
Here, the fungal expansin protein is the protein of interest for my present study.
- In method section author mentioned Figure S2 but that figure is not available.
Response
Figure S1 and S2 are inserted in supplementay file 1 and mentioned in the corrected manuscript in the line no. 83
2. Line 143-144, why B cells epitope no. is in superscript but not T-cells?
Response
Corrected, both are in superscript
3. Figure1. author should showed protein sequence as well as bar diagram with color code for all (Here, helix, random coil, extended strand and beta turn are blue, magenta, red and green respectively). For example
Response
Bar diagram of Figure 1 is added in the corrected manuscript in the line no. 197
4. Move the text: The Grand Average Index of Hydropathicity (GRAVY) is used to depict the peptide hydrophobicity score, which measures the total of all amino acid hydropathy values divided by the length of the sequence to the line 168 before the amino acids Ala (A), Ser (S) and Thr (T).
Response
The suggested text has been moved in the line no. 176-177 in the main manuscript
5. line 194 Figure ?
Resonse
Figure no 1. is inserted in the line no. 205
6. Please provide the high resolution of Rama plot.
Response
The high-resolution Ramachandran plots from RAMPAGE and PROCHECK web servers are shown in Figure S3 and S4 in supplementary file 1 and mentioned in line no. 220-222 in the main manuscript
7. Figure 3 and 4. show the plot for 3D/1D vs average score for both model 1 and 2, along with existing figures.
Response
The plot for 3D/1D vs average score for both model 1 and model 2 are shown in Figure S5 and S6 in the supplementary file 1 and mentioned in the main manuscript from line no. 249-250
Reviewer 2 Report
This manuscript “In-silico epitope-based vaccine prediction against fungal infection aspergillosis” is a good review, which is the need of time. Several important kinds of literature are collected in the paper and a clear depiction of current research progress is done. Though, I found several points which can be improved to make the paper accepted for publication.
1. The abstract is good however some major findings must be included. This will allow the readers to easily follow the paper’s contents.
2. Generally, all the figures are of good quality. However, the figure quality needs to be improved as it looks strange.
3. I found several grammatical errors. I will advise the authors to thoroughly revise the English language of the manuscript or send it to a native English speaker to improve the language.
Author Response
Thank you for your important suggestions. Corrections are made accordingly
1. The abstract is good however some major findings must be included. This will allow the readers to easily follow the paper’s contents.
Response
The abstract has been edited
2. Generally, all the figures are of good quality. However, the figure quality needs to be improved as it looks strange.
Response
The good quality figures for Figure 2(b) and (c) are inserted in supplementary file 1 as Figure S3 and S4
3. I found several grammatical errors. I will advise the authors to thoroughly revise the English language of the manuscript or send it to a native English speaker to improve the language.
Response
The English language of the manuscript has been throughly revised
Round 2
Reviewer 1 Report
I asked to author this Figure1. author should showed protein sequence as well as bar diagram with color code for all (Here, helix, random coil, extended strand and beta turn are blue, magenta, red and green respectively).
But author provided only bar not the sequence, it should be provided.
Author Response
Thank for your valuable suggestion.
The protein sequence of fungal protein has been incorporated in the corrected manuscript from line no. 168-178
