Peer Review History
| Original SubmissionApril 14, 2026 |
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Dear Dr. Chtita, Thank you for submitting your manuscript to PLOS ONE. After careful consideration, we feel that it has merit but does not fully meet PLOS ONE’s publication criteria as it currently stands. Therefore, we invite you to submit a revised version of the manuscript that addresses the points raised during the review process. Please submit your revised manuscript by Jun 26 2026 11:59PM. If you will need more time than this to complete your revisions, please reply to this message or contact the journal office at plosone@plos.org. When you're ready to submit your revision, log on to https://www.editorialmanager.com/pone/ and select the 'Submissions Needing Revision' folder to locate your manuscript file.
If you would like to make changes to your financial disclosure, please include your updated statement in your cover letter. Guidelines for resubmitting your figure files are available below the reviewer comments at the end of this letter. If applicable, we recommend that you deposit your laboratory protocols in protocols.io to enhance the reproducibility of your results. Protocols.io assigns your protocol its own identifier (DOI) so that it can be cited independently in the future. For instructions see: https://journals.plos.org/plosone/s/submission-guidelines#loc-laboratory-protocols. Additionally, PLOS ONE offers an option for publishing peer-reviewed Lab Protocol articles, which describe protocols hosted on protocols.io. Read more information on sharing protocols at https://plos.org/protocols?utm_medium=editorial-email&utm_source=authorletters&utm_campaign=protocols. As the corresponding author, your ORCID iD is verified in the submission system and will appear in the published article. PLOS supports the use of ORCID, and we encourage all coauthors to register for an ORCID iD and use it as well. Please encourage your coauthors to verify their ORCID iD within the submission system before final acceptance, as unverified ORCID iDs will not appear in the published article. Only the individual author can complete the verification step; PLOS staff cannot verify ORCID iDs on behalf of authors. We look forward to receiving your revised manuscript. Kind regards, Lalit Samant Academic Editor PLOS One Journal Requirements: When submitting your revision, we need you to address these additional requirements. 1. Please ensure that your manuscript meets PLOS ONE's style requirements, including those for file naming. The PLOS ONE style templates can be found at https://journals.plos.org/plosone/s/file?id=wjVg/PLOSOne_formatting_sample_main_body.pdf and https://journals.plos.org/plosone/s/file?id=ba62/PLOSOne_formatting_sample_title_authors_affiliations.pdf 2. Please note that PLOS One has specific guidelines on code sharing for submissions in which author-generated code underpins the findings in the manuscript. In these cases, we expect all author-generated code to be made available without restrictions upon publication of the work. Please review our guidelines at https://journals.plos.org/plosone/s/materials-and-software-sharing#loc-sharing-code and ensure that your code is shared in a way that follows best practice and facilitates reproducibility and reuse. 3. Thank you for stating in your Funding Statement: [This work was supported by the Zayed Bin Sultan Center for Health Sciences and UAEU-University of Sharjah joint Grant (#12R282).]. Please provide an amended statement that declares *all* the funding or sources of support (whether external or internal to your organization) received during this study, as detailed online in our guide for authors at http://journals.plos.org/plosone/s/submit-now. Please also include the statement “There was no additional external funding received for this study.” in your updated Funding Statement. Please include your amended Funding Statement within your cover letter. We will change the online submission form on your behalf. 4. We note that the Graphical Abstract and Figure 1 in your submission contain images which may be copyrighted. All PLOS content is published under the Creative Commons Attribution License (CC BY 4.0), which means that the manuscript, images, and Supporting Information files will be freely available online, and any third party is permitted to access, download, copy, distribute, and use these materials in any way, even commercially, with proper attribution. For more information, see our copyright guidelines: http://journals.plos.org/plosone/s/licenses-and-copyright. We require you to either (1) present written permission from the copyright holder to publish these figures specifically under the CC BY 4.0 license, or (2) remove the figures from your submission: 1. You may seek permission from the original copyright holder of the images in Graphical Abstract and Figure 1 to publish the content specifically under the CC BY 4.0 license. We recommend that you contact the original copyright holder with the Content Permission Form (http://journals.plos.org/plosone/s/file?id=7c09/content-permission-form.pdf) and the following text: “I request permission for the open-access journal PLOS ONE to publish XXX under the Creative Commons Attribution License (CCAL) CC BY 4.0 (http://creativecommons.org/licenses/by/4.0/). Please be aware that this license allows unrestricted use and distribution, even commercially, by third parties. Please reply and provide explicit written permission to publish XXX under a CC BY license and complete the attached form.” Please upload the completed Content Permission Form or other proof of granted permissions as an "Other" file with your submission. In the figure caption of the copyrighted figure, please include the following text: “Reprinted from [ref] under a CC BY license, with permission from [name of publisher], original copyright [original copyright year].” 2. If you are unable to obtain permission from the original copyright holder to publish these figures under the CC BY 4.0 license or if the copyright holder’s requirements are incompatible with the CC BY 4.0 license, please either i) remove the figure or ii) supply a replacement figure that complies with the CC BY 4.0 license. Please check copyright information on all replacement figures and update the figure caption with source information. If applicable, please specify in the figure caption text when a figure is similar but not identical to the original image and is therefore for illustrative purposes only. 5. Please include captions for your Supporting Information files at the end of your manuscript, and update any in-text citations to match accordingly. Please see our Supporting Information guidelines for more information: http://journals.plos.org/plosone/s/supporting-information. If the reviewer comments include a recommendation to cite specific previously published works, please review and evaluate these publications to determine whether they are relevant and should be cited. There is no requirement to cite these works unless the editor has indicated otherwise. Please review your reference list to ensure that it is complete and correct. If you have cited papers that have been retracted, please include the rationale for doing so in the manuscript text, or remove these references and replace them with relevant current references. Any changes to the reference list should be mentioned in the rebuttal letter that accompanies your revised manuscript. If you need to cite a retracted article, indicate the article’s retracted status in the References list and also include a citation and full reference for the retraction notice. Additional Editor Comments: Please go through each reviewer comments and address accordingly. [Note: HTML markup is below. Please do not edit.] Reviewers' comments: Reviewer's Responses to Questions Comments to the Author 1. Is the manuscript technically sound, and do the data support the conclusions? Reviewer #1: Partly Reviewer #2: Yes ********** 2. Has the statistical analysis been performed appropriately and rigorously? -->?> Reviewer #1: N/A Reviewer #2: Yes ********** 3. Have the authors made all data underlying the findings in their manuscript fully available??> The PLOS Data policy Reviewer #1: Yes Reviewer #2: Yes ********** 4. Is the manuscript presented in an intelligible fashion and written in standard English??> Reviewer #1: No Reviewer #2: Yes ********** Reviewer #1: The manuscript is fairly written with long sentences using common phrases. The writing lacks originality. Target receptors selected are common and standard proteins for influenza. No clear rationale or justification provided for selecting common receptors over novel ones. This would raise a question regarding the novelty of the work. Simply put, some phytohemicals are used to target already known and well established receptors. With respect to the methods, no clear selection criteria or approach has been mentioned for selecting the ligands. The energy minimization for the receptor proteins is not mentioned. Overall, the manuscript highlights average work and would require more robust and refined approach to highlight the novelty of the work. Also the language would need to be more refined with rewording and rephrasing, especially in the introduction Reviewer #2: Recommendation: Accept with minor revisions General assessment This manuscript presents a well-executed in silico study repositioning antiviral phytoconstituents as potential broad spectrum inhibitors of influenza A neuraminidase (NA) and HMPV fusion protein (F). The work is clearly written, methodologically sound, and builds logically on the authors’ previous investigations of related phytochemical libraries. The docking, ADME/T profiling, and MD simulations are generally appropriate, and the conclusions are supported by the presented data. I believe the manuscript can be accepted after the authors address the minor issues listed below, which mainly concern clarity, completeness of methodological description, and alignment between text, tables, and figures. 1. Graphical abstract The graphical abstract is clear but would benefit from additional quantitative detail. I recommend that the authors indicate the number of compounds at key stages of the workflow (initial library, post docking/ADMET filtering, and final hits) directly in the figure. Adding these counts will improve transparency of the screening process and help readers quickly understand the scale and progression of the study from raw phytochemicals to proposed lead candidates. 2. Rationale for target selection (NA and F) In the Introduction, the rationale for selecting neuraminidase (NA) and HMPV fusion protein (F) as targets—particularly in the context of the authors’ prior work on hemagglutinin (HA) and SARS CoV 2 Mpro—is not fully articulated. The authors should expand the relevant paragraph to: (i) explain how targeting NA and F complements or extends the previous HA/Mpro findings, (ii) justify these proteins as logical choices for a broad spectrum antiviral strategy, and (iii) clarify how they address distinct, non redundant steps in the viral life cycle (entry/fusion vs. release). This will strengthen the conceptual framework of the study. 3. Ligand preparation: optimization details The Methods state that “for the ligands, the MMFF94 force field and the gradient descent algorithm implemented in Avogadro were applied.” To enhance reproducibility, the authors should specify the convergence criteria used for ligand geometry optimization (e.g., energy or gradient threshold, maximum number of steps, and any stopping conditions). These details are important for others wishing to replicate the ligand preparation workflow. 4. ADMET: definition of “optimal water solubility” In the ADMET section, the phrase “all the compounds studied… have optimal water solubility” is vague. The term “optimal” should be replaced or explicitly mapped to the solubility categories used in Table 4 (e.g., soluble, moderately soluble, poorly/partially soluble). I suggest that the authors (i) state how many compounds fall into each category and (ii) clearly describe the exceptions (C11, E59, M22) using the same terminology as in Table 4, to ensure consistency between text and table. 5. Justification for retaining C11, C5, and M274 The conclusion that “compounds C11, C5, and M274 are generally considered acceptable… justifying their inclusion in the list of candidates for further exploration” is reasonable but should be made more explicit. I recommend that the authors: • Restate the specific toxicity issues for each compound (C11 and C5: only LD50 < 1000 mg/kg; M274: only a carcinogenicity flag, with other endpoints inactive). • Clearly indicate that these are in silico leads for further investigation, not ready drug candidates, given the presence of these safety flags. • Optionally note that their overall ADME/T profiles are more favorable than some discarded molecules and at least one reference drug, which supports their retention as exploratory leads. These clarifications will make the selection criteria more transparent. 6. ProTox-II outputs: “active/inactive” and probability In Table 5, ProTox-II results are reported only as “active” or “inactive” for each toxicity endpoint (neurotoxicity, cytotoxicity, carcinogenicity, mutagenicity, hepatotoxicity), without explanation. The authors should: • Clarify in the Methods or a table footnote that “active” denotes a positive toxicity prediction for that endpoint and “inactive” denotes a negative prediction. • Include the ProTox-II prediction probabilities (or accuracy/confidence scores) for these calls, at least for key candidate compounds, and specify the probability threshold considered meaningful (e.g., >0.70). Reporting and interpreting these probabilities will help readers assess the robustness of the toxicity predictions. 7. Figure 3a: missing legends In Figure 3a (RMSD of 7sej complexes), some curves appear to lack corresponding entries in the legend, which makes it difficult to identify each protein–ligand trajectory. The authors should ensure that every RMSD curve is clearly assigned to a ligand in the legend (or directly annotated) and that the legend matches the ligands discussed in the Results. Overall recommendation: The manuscript addresses an interesting and relevant topic, the data are solid, and the required changes are mainly clarifications and minor presentation improvements. Provided the authors satisfactorily address the above points, I recommend acceptance after minor revision. ********** what does this mean?). If published, this will include your full peer review and any attached files. If you choose “no”, your identity will remain anonymous but your review may still be made public. Do you want your identity to be public for this peer review? For information about this choice, including consent withdrawal, please see our Privacy Policy Reviewer #1: No Reviewer #2: No ********** [NOTE: If reviewer comments were submitted as an attachment file, they will be attached to this email and accessible via the submission site. Please log into your account, locate the manuscript record, and check for the action link "View Attachments". If this link does not appear, there are no attachment files.] To ensure your figures meet our technical requirements, please review our figure guidelines: https://journals.plos.org/plosone/s/figures You may also use PLOS’s free figure tool, NAAS, to help you prepare publication quality figures: https://journals.plos.org/plosone/s/figures#loc-tools-for-figure-preparation. NAAS will assess whether your figures meet our technical requirements by comparing each figure against our figure specifications.
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| Revision 1 |
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Dear Dr. Chtita, Thank you for submitting your manuscript to PLOS ONE. After careful consideration, we feel that it has merit but does not fully meet PLOS ONE’s publication criteria as it currently stands. Therefore, we invite you to submit a revised version of the manuscript that addresses the points raised during the review process. Please submit your revised manuscript by Aug 15 2026 11:59PM. If you will need more time than this to complete your revisions, please reply to this message or contact the journal office at plosone@plos.org. When you're ready to submit your revision, log on to https://www.editorialmanager.com/pone/ and select the 'Submissions Needing Revision' folder to locate your manuscript file.
If you would like to make changes to your financial disclosure, please include your updated statement in your cover letter. Guidelines for resubmitting your figure files are available below the reviewer comments at the end of this letter. If applicable, we recommend that you deposit your laboratory protocols in protocols.io to enhance the reproducibility of your results. Protocols.io assigns your protocol its own identifier (DOI) so that it can be cited independently in the future. For instructions see: https://journals.plos.org/plosone/s/submission-guidelines#loc-laboratory-protocols. Additionally, PLOS ONE offers an option for publishing peer-reviewed Lab Protocol articles, which describe protocols hosted on protocols.io. Read more information on sharing protocols at https://plos.org/protocols?utm_medium=editorial-email&utm_source=authorletters&utm_campaign=protocols. As the corresponding author, your ORCID iD is verified in the submission system and will appear in the published article. PLOS supports the use of ORCID, and we encourage all coauthors to register for an ORCID iD and use it as well. Please encourage your coauthors to verify their ORCID iD within the submission system before final acceptance, as unverified ORCID iDs will not appear in the published article. Only the individual author can complete the verification step; PLOS staff cannot verify ORCID iDs on behalf of authors. We look forward to receiving your revised manuscript. Kind regards, Lalit Samant Academic Editor PLOS One Journal Requirements: If the reviewer comments include a recommendation to cite specific previously published works, please review and evaluate these publications to determine whether they are relevant and should be cited. There is no requirement to cite these works unless the editor has indicated otherwise. Please review your reference list to ensure that it is complete and correct. If you have cited papers that have been retracted, please include the rationale for doing so in the manuscript text, or remove these references and replace them with relevant current references. Any changes to the reference list should be mentioned in the rebuttal letter that accompanies your revised manuscript. If you need to cite a retracted article, indicate the article’s retracted status in the References list and also include a citation and full reference for the retraction notice. Additional Editor Comments: Please check the suggestions mentioned and do the needful. [Note: HTML markup is below. Please do not edit.] Reviewers' comments: Reviewer's Responses to Questions Comments to the Author Reviewer #1: All comments have been addressed Reviewer #3: All comments have been addressed ********** 2. Is the manuscript technically sound, and do the data support the conclusions??> Reviewer #1: Yes Reviewer #3: Yes ********** 3. Has the statistical analysis been performed appropriately and rigorously? -->?> Reviewer #1: Yes Reviewer #3: No ********** 4. Have the authors made all data underlying the findings in their manuscript fully available??> The PLOS Data policy Reviewer #1: Yes Reviewer #3: Yes ********** 5. Is the manuscript presented in an intelligible fashion and written in standard English??> Reviewer #1: Yes Reviewer #3: Yes ********** Reviewer #1: There is significant improvement in the revised manuscript. However, there still remains some stylistic and consistency issues that need to be addressed. Reviewer #3: Major Comments: 1. The novelty of the study is not clearly established. The work primarily involves selecting a subset of phytoconstituents from an existing database followed by molecular docking, which does not sufficiently demonstrate innovation. Experimental validation through in vitro antiviral assays is necessary to support the proposed therapeutic potential of the identified compounds. 2. The claim that several phytochemicals outperform oseltamivir and ribavirin is based primarily on docking scores. Since docking energy alone does not reliably predict biological potency, additional binding free-energy calculations or experimental validation are needed. 3. The rationale for selecting the final lead compounds (M294 and C11) should be presented more systematically by integrating docking, ADMET, toxicity, and molecular dynamics results into a clear ranking or scoring framework. 4. The molecular dynamics analysis mainly reports RMSD, RMSF, and interaction profiles, but lacks complementary analyses such as MM-PBSA/MM-GBSA binding free-energy calculations. 5. The manuscript does not adequately discuss the limitations of using predicted ADMET and toxicity data, which should be interpreted cautiously. 6. Although two viral proteins were investigated, the manuscript provides limited discussion on the conservation of the selected binding sites across different influenza A and HMPV strains. Minor Comments: 1. The manuscript contains several grammatical errors and awkward sentence constructions that require careful English language editing to improve readability. 2. The Introduction is longer than necessary and includes repeated discussion of previous studies, which could be condensed to improve focus on the objectives of the current work. 3. The docking interaction figures would benefit from clearer labeling of interacting residues and improved annotation of key hydrogen bonds, hydrophobic contacts, and electrostatic interactions. ********** what does this mean?). If published, this will include your full peer review and any attached files. If you choose “no”, your identity will remain anonymous but your review may still be made public. Do you want your identity to be public for this peer review? For information about this choice, including consent withdrawal, please see our Privacy Policy Reviewer #1: No Reviewer #3: No ********** [NOTE: If reviewer comments were submitted as an attachment file, they will be attached to this email and accessible via the submission site. Please log into your account, locate the manuscript record, and check for the action link "View Attachments". If this link does not appear, there are no attachment files.] To ensure your figures meet our technical requirements, please review our figure guidelines: https://journals.plos.org/plosone/s/figures You may also use PLOS’s free figure tool, NAAS, to help you prepare publication quality figures: https://journals.plos.org/plosone/s/figures#loc-tools-for-figure-preparation. NAAS will assess whether your figures meet our technical requirements by comparing each figure against our figure specifications.
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| Revision 2 |
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Dear Dr. Chtita, Thank you for submitting your manuscript to PLOS ONE. After careful consideration, we feel that it has merit but does not fully meet PLOS ONE’s publication criteria as it currently stands. Therefore, we invite you to submit a revised version of the manuscript that addresses the points raised during the review process. Please submit your revised manuscript by Sep 17 2026 11:59PM. If you will need more time than this to complete your revisions, please reply to this message or contact the journal office at plosone@plos.org. When you're ready to submit your revision, log on to https://www.editorialmanager.com/pone/ and select the 'Submissions Needing Revision' folder to locate your manuscript file.
If you would like to make changes to your financial disclosure, please include your updated statement in your cover letter. Guidelines for resubmitting your figure files are available below the reviewer comments at the end of this letter. If applicable, we recommend that you deposit your laboratory protocols in protocols.io to enhance the reproducibility of your results. Protocols.io assigns your protocol its own identifier (DOI) so that it can be cited independently in the future. For instructions see: https://journals.plos.org/plosone/s/submission-guidelines#loc-laboratory-protocols. Additionally, PLOS ONE offers an option for publishing peer-reviewed Lab Protocol articles, which describe protocols hosted on protocols.io. Read more information on sharing protocols at https://plos.org/protocols?utm_medium=editorial-email&utm_source=authorletters&utm_campaign=protocols. As the corresponding author, your ORCID iD is verified in the submission system and will appear in the published article. PLOS supports the use of ORCID, and we encourage all coauthors to register for an ORCID iD and use it as well. Please encourage your coauthors to verify their ORCID iD within the submission system before final acceptance, as unverified ORCID iDs will not appear in the published article. Only the individual author can complete the verification step; PLOS staff cannot verify ORCID iDs on behalf of authors. We look forward to receiving your revised manuscript. Kind regards, Lalit Samant Academic Editor PLOS One Journal Requirements: If the reviewer comments include a recommendation to cite specific previously published works, please review and evaluate these publications to determine whether they are relevant and should be cited. There is no requirement to cite these works unless the editor has indicated otherwise. Please review your reference list to ensure that it is complete and correct. If you have cited papers that have been retracted, please include the rationale for doing so in the manuscript text, or remove these references and replace them with relevant current references. Any changes to the reference list should be mentioned in the rebuttal letter that accompanies your revised manuscript. If you need to cite a retracted article, indicate the article’s retracted status in the References list and also include a citation and full reference for the retraction notice. [Note: HTML markup is below. Please do not edit.] [NOTE: If reviewer comments were submitted as an attachment file, they will be attached to this email and accessible via the submission site. Please log into your account, locate the manuscript record, and check for the action link "View Attachments". If this link does not appear, there are no attachment files.] To ensure your figures meet our technical requirements, please review our figure guidelines: https://journals.plos.org/plosone/s/figures You may also use PLOS’s free figure tool, NAAS, to help you prepare publication quality figures: https://journals.plos.org/plosone/s/figures#loc-tools-for-figure-preparation. NAAS will assess whether your figures meet our technical requirements by comparing each figure against our figure specifications.
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| Revision 3 |
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Repositioning antiviral phytoconstituents as broad-spectrum inhibitors of influenza A neuraminidase and human metapneumovirus fusion protein PONE-D-26-18338R3 Dear Dr. Chtita, We’re pleased to inform you that your manuscript has been judged scientifically suitable for publication and will be formally accepted for publication once it meets all outstanding technical requirements. Within one week, you’ll receive an e-mail detailing the required amendments. When these have been addressed, you’ll receive a formal acceptance letter and your manuscript will be scheduled for publication. An invoice will be generated when your article is formally accepted. Please note, if your institution has a publishing partnership with PLOS and your article meets the relevant criteria, all or part of your publication costs will be covered. Please make sure your user information is up-to-date by logging into Editorial Manager at Editorial Manager® and clicking the ‘Update My Information' link at the top of the page. For questions related to billing, please contact billing support. If your institution or institutions have a press office, please notify them about your upcoming paper to help maximize its impact. If they’ll be preparing press materials, please inform our press team as soon as possible -- no later than 48 hours after receiving the formal acceptance. Your manuscript will remain under strict press embargo until 2 pm Eastern Time on the date of publication. For more information, please contact onepress@plos.org. Kind regards, Lalit Samant Academic Editor PLOS One Additional Editor Comments (optional): Reviewers' comments: |
| Formally Accepted |
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PONE-D-26-18338R3 PLOS One Dear Dr. Chtita, I'm pleased to inform you that your manuscript has been deemed suitable for publication in PLOS One. Congratulations! Your manuscript is now being handed over to our production team. At this stage, our production department will prepare your paper for publication. This includes ensuring the following: * All references, tables, and figures are properly cited * All relevant supporting information is included in the manuscript submission, * There are no issues that prevent the paper from being properly typeset You will receive further instructions from the production team, including instructions on how to review your proof when it is ready. Please keep in mind that we are working through a large volume of accepted articles, so please give us a few days to review your paper and let you know the next and final steps. Lastly, if your institution or institutions have a press office, please let them know about your upcoming paper now to help maximize its impact. If they'll be preparing press materials, please inform our press team within the next 48 hours. Your manuscript will remain under strict press embargo until 2 pm Eastern Time on the date of publication. For more information, please contact onepress@plos.org. You will receive an invoice from PLOS for your publication fee after your manuscript has reached the completed accept phase. If you receive an email requesting payment before acceptance or for any other service, this may be a phishing scheme. Learn how to identify phishing emails and protect your accounts at https://explore.plos.org/phishing. If we can help with anything else, please email us at customercare@plos.org. Thank you for submitting your work to PLOS One and supporting open access. Kind regards, PLOS ONE Editorial Office Staff on behalf of Dr. Lalit Samant Academic Editor PLOS One |
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