Peer Review History
| Original SubmissionApril 15, 2020 |
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PONE-D-20-10846 Pulmonary function analysis in cotton rats after respiratory syncytial virus infection PLOS ONE Dear Dr. Martinez, 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. Both reviewers raised important questions that need to be addressed concerning the choice of viral strains and the timing of the measurements for some of the lung function parameters. In addition, several clarifications were requested regarding the experimental design and the description of the methods. Please respond to each of the criticisms raised by the reviewers. In some cases it may be necessary to perform additional experiments in order to fully address a reviewer concern. Please submit your revised manuscript by Jul 18 2020 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. Please include the following items when submitting your revised manuscript:
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: http://journals.plos.org/plosone/s/submission-guidelines#loc-laboratory-protocols We look forward to receiving your revised manuscript. Kind regards, Steven M. Varga, Ph.D. 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 2. We note that you have stated that you will provide repository information for your data at acceptance. Should your manuscript be accepted for publication, we will hold it until you provide the relevant accession numbers or DOIs necessary to access your data. If you wish to make changes to your Data Availability statement, please describe these changes in your cover letter and we will update your Data Availability statement to reflect the information you provide. 3. Thank you for stating the following in the Financial Disclosure section: 'M.E.M. was funded through the Genetech Fellowship under grant number GRT00044407 from Genentech (https://www.gene.com/). O.E.H. and S.N. were funded through grant number P01AI112524 from the National Institute of Health National Institute of Allergy and Infectious Diseases (https://www.niaid.nih.gov/). L.E.R., L. J. and I.C.D. were funded through grant number HL137090 from National Institutes of Health/National Heart Lung & Blood Institute (https://www.nhlbi.nih.gov/). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.' We note that you received funding from a commercial source: Genentech a. Please provide an amended Competing Interests Statement that explicitly states this commercial funder, along with any other relevant declarations relating to employment, consultancy, patents, products in development, marketed products, etc. Within this Competing Interests Statement, please confirm that this does not alter your adherence to all PLOS ONE policies on sharing data and materials by including the following statement: "This does not alter our adherence to PLOS ONE policies on sharing data and materials.” (as detailed online in our guide for authors http://journals.plos.org/plosone/s/competing-interests). If there are restrictions on sharing of data and/or materials, please state these. Please note that we cannot proceed with consideration of your article until this information has been declared. b. Please include your amended Competing Interests Statement within your cover letter. We will change the online submission form on your behalf. Please know it is PLOS ONE policy for corresponding authors to declare, on behalf of all authors, all potential competing interests for the purposes of transparency. PLOS defines a competing interest as anything that interferes with, or could reasonably be perceived as interfering with, the full and objective presentation, peer review, editorial decision-making, or publication of research or non-research articles submitted to one of the journals. Competing interests can be financial or non-financial, professional, or personal. Competing interests can arise in relationship to an organization or another person. Please follow this link to our website for more details on competing interests: http://journals.plos.org/plosone/s/competing-interests 4. We note that you have included the phrase “data not shown” in your manuscript. Unfortunately, this does not meet our data sharing requirements. PLOS does not permit references to inaccessible data. We require that authors provide all relevant data within the paper, Supporting Information files, or in an acceptable, public repository. Please add a citation to support this phrase or upload the data that corresponds with these findings to a stable repository (such as Figshare or Dryad) and provide and URLs, DOIs, or accession numbers that may be used to access these data. Or, if the data are not a core part of the research being presented in your study, we ask that you remove the phrase that refers to these data. 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 [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? The manuscript must describe a technically sound piece of scientific research with data that supports the conclusions. Experiments must have been conducted rigorously, with appropriate controls, replication, and sample sizes. The conclusions must be drawn appropriately based on the data presented. Reviewer #1: Partly Reviewer #2: Yes ********** 2. Has the statistical analysis been performed appropriately and rigorously? Reviewer #1: Yes Reviewer #2: Yes ********** 3. Have the authors made all data underlying the findings in their manuscript fully available? The PLOS Data policy requires authors to make all data underlying the findings described in their manuscript fully available without restriction, with rare exception (please refer to the Data Availability Statement in the manuscript PDF file). The data should be provided as part of the manuscript or its supporting information, or deposited to a public repository. For example, in addition to summary statistics, the data points behind means, medians and variance measures should be available. If there are restrictions on publicly sharing data—e.g. participant privacy or use of data from a third party—those must be specified. Reviewer #1: Yes Reviewer #2: Yes ********** 4. Is the manuscript presented in an intelligible fashion and written in standard English? PLOS ONE does not copyedit accepted manuscripts, so the language in submitted articles must be clear, correct, and unambiguous. Any typographical or grammatical errors should be corrected at revision, so please note any specific errors here. Reviewer #1: Yes Reviewer #2: Yes ********** 5. Review Comments to the Author Please use the space provided to explain your answers to the questions above. You may also include additional comments for the author, including concerns about dual publication, research ethics, or publication ethics. (Please upload your review as an attachment if it exceeds 20,000 characters) Reviewer #1: The manuscript by Martinez et al describes an interesting work on forced oscillation technique in cotton rats infected with RSV or sensitized with HDM. This work is important, as application of this technique to cotton rats is novel and multiple parameters need to be established for the model. The use of HDM sensitization to achieve this task is justified and appeared to be highly successful. The application of technique in RSV-infected cotton rats, however, yielded some conflicting results. It was reported by one study that RSV infection in female cotton rats led to increased airway reactivity on day 4 pi (Fig.4a), while the data apparently could not be reproduced by another study (Fig.5a). Since this observation could be one of the most important conclusions of this work, a question arises as to whether suboptimal conditions were chosen for RSV infection. RSV infectious dose of 105 TCID50 per animal was chosen, yet this dose is associated with minimal inflammation in the cotton rat lungs, as was confirmed by data shown in Fig. 1 of this manuscript. Increasing RSV challenge 5- to 10-fold from the amount chosen by the authors of this manuscript is known to significantly increase pulmonary inflammation in cotton rats, and could be a more appropriate model for assessing airway reactivity in the model. Additional, it is not clear why RSV-line 19F was chosen for some studies along with the RSV A2 (e.g., mucus production), but not other studies where RSV A2 strain was used alone (e.g., edema, airway hyperreacticity). It appears that inclusion of both strains in all types of assessment, and using both viruses at a higher challenge dose could have increased informative potential of this work as it applies to RSV infection. Additionally, the selection of some other aspects of methodology is also not clear. For example, mucus production was assessed on d8 post-infection, with the date selection based on previous murine studies, as indicated by the authors. Yet, dynamics of RSV infection in cotton rats and mice is different, therefore d8 assessment could be suboptimal for mucus production assessment in RSV-infected cotton rats. Moreover, the sex differences were addressed in some studies (e.g., airway hyperreactivity), and not others (e.g., mucus production, edema), with justification for this choice not being clear. Overall, this work addresses an important issue and shows application of a new technique in cotton rats, demonstrating difference as they apply to HDM sensitization. The conditions for RSV infection, however, may need to be expanded to more accurately assess pulmonary function in the model. Misc. comments: -Fig.1 legend: description does not appear to accurately correspond to specific panels. -There is no description of horizontal bars -BAL WBS count is shown, but no method is described in the Materials and Methods. -Inflation of the entire cotton rat lung (for the animal of indicated age) with 1 ml 4% paraformaldehyde can result in under inflation. Please check the amount used and reported (p.5, line 103). -Table on p.6-8 may be redundant considering the reference cited and could be removed. -It is not clear if all of the experiments were repeated and if so, how reproducible the results have been. Reviewer #2: In this manuscript, the authors measured lung inflammation/mucus, arterial blood gas, and lung physiology in the cotton rat model of respiratory syncytial virus infection. They found that RSV did not elicit substantial lung/airway inflammation at days 4/5 after infection, did not significantly change arterial blood gas, and only caused airways responsiveness to methacholine challenge in female mice. In contrast, cotton rats that had been sensitized and challenged to house dust mite had significant increases in airway inflammation, mucus and airways responsiveness. The manuscript is well written, and the results presented are clear and convincing. Given that this is the first report of lung mechanics in the cotton rat in the setting RSV-induced disease, the results are useful in regard to vaccine and other approaches to treatment in future studies. It would have also been interesting to see if RSV infection during the course of allergic airway inflammation, such as in the dust mite model the authors use, would have caused exacerbated airways responsiveness as is seen in humans with asthma or in the mouse model of combined allergic and RSV disease. Major points Line 217 - There are concerns with the timing of the measurements of endpoints. For instance, as the authors point out, RSV line 19 elicited airway mucus and methacholine-induced airway responsiveness in mice, yet this occurred at day 8 after infection, after the appearance of the adaptive immune response and the activation of ILC2. Therefore, the absence of these findings in this report may have been related to measurements at times when IL-13 was not present, rather than the cotton rat not having either mucus or airways responsiveness. The lack of an extended time course of measurement of endpoints at the time of the peak of the adaptive immune response should be noted in the discussion. Of course, it is certainly possible that RSV line 19 or other strains that cause airway mucus expression and airways responsiveness in mice might not cause such findings in the cotton rat, but it is curious why the authors performed the measurements at the times that they did. Line 219 - It is unclear why the authors assessed BAL cell counts on day 4/5 before the adaptive immune response has had time to develop. This likely reflects the low level of airway inflammation that they see at this time point. Openshaw published that innate cells such as NK cells and neutrophils are present within the first 4 days after infection, but then CD8+ and CD4+ cells are more abundant at days 7 through 9 after infection (Clin Mircobiol Rev 18:541-555, 2005) Minor point Line 141 - The authors state that the cotton rats were anesthetized for FlexiVent measurements and that the blood was obtained from carotid artery for measurement of arterial blood gas. The timing of the blood sampling relative to the pulmonary function measurements is not stated and is very important. If the methacholine challenge was performed prior to ABG measurement, then the bronchoconstriction from that procedure may have lowered the ABG measurement as methacholine causes airway obstruction. If on the other hand, the ABG was performed first, then the blood loss may have confounded the methacholine challenge measurement. I am not recommending that the experiments be performed again but want to make sure it is clear when the ABG measurement was made relative to the methacholine challenge. Also, the possibility of confounding the measurements based on the timing should be mentioned in the discussion. ********** 6. PLOS authors have the option to publish the peer review history of their article (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: Yes: Stokes Peebles [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.] While revising your submission, please upload your figure files to the Preflight Analysis and Conversion Engine (PACE) digital diagnostic tool, https://pacev2.apexcovantage.com/. PACE helps ensure that figures meet PLOS requirements. To use PACE, you must first register as a user. Registration is free. Then, login and navigate to the UPLOAD tab, where you will find detailed instructions on how to use the tool. If you encounter any issues or have any questions when using PACE, please email PLOS at figures@plos.org. Please note that Supporting Information files do not need this step. |
| Revision 1 |
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Pulmonary function analysis in cotton rats after respiratory syncytial virus infection PONE-D-20-10846R1 Dear Dr. Martinez, 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 for payment will follow shortly after the formal acceptance. To ensure an efficient process, please log into Editorial Manager at http://www.editorialmanager.com/pone/, click the 'Update My Information' link at the top of the page, and double check that your user information is up-to-date. If you have any billing related questions, please contact our Author Billing department directly at authorbilling@plos.org. 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, Steven M. Varga, Ph.D. Academic Editor PLOS ONE Additional Editor Comments (optional): Reviewers' comments: Reviewer's Responses to Questions Comments to the Author 1. If the authors have adequately addressed your comments raised in a previous round of review and you feel that this manuscript is now acceptable for publication, you may indicate that here to bypass the “Comments to the Author” section, enter your conflict of interest statement in the “Confidential to Editor” section, and submit your "Accept" recommendation. Reviewer #1: All comments have been addressed Reviewer #2: All comments have been addressed ********** 2. Is the manuscript technically sound, and do the data support the conclusions? The manuscript must describe a technically sound piece of scientific research with data that supports the conclusions. Experiments must have been conducted rigorously, with appropriate controls, replication, and sample sizes. The conclusions must be drawn appropriately based on the data presented. Reviewer #1: Yes Reviewer #2: Yes ********** 3. Has the statistical analysis been performed appropriately and rigorously? Reviewer #1: Yes Reviewer #2: Yes ********** 4. Have the authors made all data underlying the findings in their manuscript fully available? The PLOS Data policy requires authors to make all data underlying the findings described in their manuscript fully available without restriction, with rare exception (please refer to the Data Availability Statement in the manuscript PDF file). The data should be provided as part of the manuscript or its supporting information, or deposited to a public repository. For example, in addition to summary statistics, the data points behind means, medians and variance measures should be available. If there are restrictions on publicly sharing data—e.g. participant privacy or use of data from a third party—those must be specified. Reviewer #1: Yes Reviewer #2: Yes ********** 5. Is the manuscript presented in an intelligible fashion and written in standard English? PLOS ONE does not copyedit accepted manuscripts, so the language in submitted articles must be clear, correct, and unambiguous. Any typographical or grammatical errors should be corrected at revision, so please note any specific errors here. Reviewer #1: Yes Reviewer #2: Yes ********** 6. Review Comments to the Author Please use the space provided to explain your answers to the questions above. You may also include additional comments for the author, including concerns about dual publication, research ethics, or publication ethics. (Please upload your review as an attachment if it exceeds 20,000 characters) Reviewer #1: All comments have been adequately addressed. No additional comments/concerns are raised. The manuscript is recommended for acceptance for publication. Reviewer #2: The authors have appropriately responded to my critiques and I believe that the manuscript is now ready for publication in PLoS One. ********** 7. PLOS authors have the option to publish the peer review history of their article (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 |
| Formally Accepted |
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PONE-D-20-10846R1 Pulmonary function analysis in cotton rats after respiratory syncytial virus infection Dear Dr. Martinez: I'm pleased to inform you that your manuscript has been deemed suitable for publication in PLOS ONE. Congratulations! Your manuscript is now with our production department. 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. If we can help with anything else, please email us at plosone@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. Steven M. Varga Academic Editor PLOS ONE |
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