Peer Review History
| Original SubmissionAugust 25, 2020 |
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PONE-D-20-26099 An outbreak of pulmonary tuberculosis and follow-up of latent tuberculosis infection in a high school: China, 2016-2019 PLOS ONE Dear Dr. Pei, 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 address all comments of the reviewers regarding study design, methodology and interpretation of your results. Also please note that English language should be corrected by a native speaker, and all typos should be corrected. Please submit your revised manuscript by Nov 15 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, Igor Mokrousov, Ph.D., D.Sc. 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. You indicated that ethical approval was not necessary for your study. We understand that the framework for ethical oversight requirements for studies of this type may differ depending on the setting and we would appreciate some further clarification regarding your research. Could you please provide further details on why your study is exempt from the need for approval and confirmation from your institutional review board or research ethics committee (e.g., in the form of a letter or email correspondence) that ethics review was not necessary for this study? Please include a copy of the correspondence as an "Other" file. 3. Please include additional information regarding the survey or questionnaire used in the study and ensure that you have provided sufficient details that others could replicate the analyses. For instance, if you developed a questionnaire as part of this study and it is not under a copyright more restrictive than CC-BY, please include a copy, in both the original language and English, as 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: Yes Reviewer #2: Yes Reviewer #3: Partly Reviewer #4: Yes ********** 2. Has the statistical analysis been performed appropriately and rigorously? Reviewer #1: Yes Reviewer #2: I Don't Know Reviewer #3: Yes Reviewer #4: 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 Reviewer #3: Yes Reviewer #4: 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: No Reviewer #3: No Reviewer #4: 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: This well-designed epidemiological study presenting the results of an investigation of a school-based tuberculosis outbreak confirms previous findings in similar settings provided by other authors. An appropriate set of statistics tools well controlled the statistical reliability of epidemiologically correct conclusions, which are strengthened by an important follow-up section of the study. The paper is clearly written. I support publishing this paper. Specific questions/comments. 1. Low quality of Fig 2 – please, change the format. 2. Please, clarify in the text the total number of cultures and the total number of culture-confirmed patients (only 4?) in your study. 3. Please mention DST methods and at least phenotypic drug-susceptibility profiles of Mt isolates clustered by MIRU-VNTR. 4. MIRU-VNTR clustered digital profiles should be assigned according to international databases: http://www.pasteur-guadeloupe.fr:8081/SITVIT2/query (http://www.pasteur-guadeloupe.fr:8081/SITVIT2/submit.jsp) and https://www.miru-vntrplus.org/MIRU/index.faces 5. To my mind, the term Homology analysis of isolates does not imply MIRU-VNTR data but rather implies some other tools to compare nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches (https://www.ncbi.nlm.nih.gov/guide/homology/) https://molbiol-tools.ca/Homology.htm Maybe ‘MIRU-VNTR-typing’ will be more relevant? 6. Line 305 …family, which is the most prominent MTB lineage in East Asia[27], This reference [27] refers to D. van Zoolingen et al. paper of 1995 and definitely should be preserved in the list. However, there is a significant number of quiet recent publications on Beijing strains circulating in China to be referred to additionally. For example: Merker M., Blin C., Mona S. et al. Evolutionary history and global spread of the Mycobacterium tuberculosis Beijing lineage. Nat Genet. 2015;47(3):242-9. https://doi.org/10.1038/ng.3195 7. Small corrections: Remove a string of two hyphen-minus characters (--) in VNTR 48--ETRB (column Y in Table, Supporting information). Reviewer #2: I could not find any difference between this report and the author's previous report (Outbreak of pulmonary tuberculosis in a Chinese high school, 2009-2010. J Epidemiol 2013;23:307-12), ref. 2 in the bibliography. The settings, findings, and conclusions are identical in both reports. The take-home message of both articles is the same, that is, the importance of early identification of active Tuberculosis cases and the need to treat latent tuberculosis among close contacts of active tuberculosis patients. The article needs a comprehensive language editing and a more comprehensible data presentation. Several issues need the author's attention such as: 1. Why did the authors defined TST>15 as positive rather than TST>5mm, which is the standard definition of TST positivity among recent contacts of infectious tuberculosis cases. The authors should also elaborate regarding the screening procedure (and TST results (>5mm, >10mm, >15mm) distribution, particularly because the citation they provide in this regard is written in Chinese (ref 13), which is not accessible to many "PLOS ONE" readers. 2. The number of active cases in table 2 does not match (13 and 12 out of 14). 3. "Tuberculosis" case definition should include having a positive culture result, and "probable tuberculosis" definition should include a clinical improvement and resolution of chest X-ray findings following treatment. 5. The article Title is misleading ":China, 2016-2019" Reviewer #3: Review The manuscript " An outbreak of pulmonary tuberculosis and follow-up of latent tuberculosis infection in a high school: China, 2016-2019” by Yingxin Pei describes outbreak investigation and evaluate a possible nature of this outbreak, along with the source, and transmission route. This paper describes interesting follow-up study. Authors brought some additional evidence for the importance of post-exposure TB prophylaxis and highlighted possible transmission of M. tuberculosis in school settings. However, to my opinion, there are few issues that should be addressed. 1. Several studies on the outbreak investigations in schools in China have been published recently such as Pan et al., 2018; Xu et al., 2019; You et al., 2019; Hou et al., 2020; Bao et al., 2019. Authors should clearly emphasize the importance/novelty of the current study and findings. 2. English editing English should be corrected by a native speaker, and all typos should be corrected. Just few examples: Line 122: please change to “night sweats”. Also: “Teacher” should be in plural? Line 131: Here and elsewhere. Mycobacterium tuberculosis in italics. Line 130 Please change to “variable numbers of tandem repeats” Lines 133-137: please correct punctuation and the usage of “-“ and “—“ Line 138: please correct “typing method was” or “typing methods were” . Methods. 3. What software was used to compute the minimal spanning tree? 4. More detailed information about M. tuberculosis isolates obtained in year 2007 should be provided. 5. Line 145. What do you mean by “epidemic strains”? 6. Some additional data on the population settings of this study should be provided such as persons per room and students per class. Results 7. Please provide P value for the results, as defined in Materials and Methods. 8. Lines 250-252. Please rephrase for clarity. 9. Lines 252-255. Did you used any of online resources such as reference databases/analysis tools for the analysis of MIRU-VNTR results such as MIRU-VNTRplus? 10. Figure 2 is of insufficient quality (impossible to read) and insufficiently described. How many isolates were used to construct the tree? What genotypes were included? What is the meaning of green color? 11. The authors stayed (lines 77-81) that China is one of 30 high TB burden countries, and TB outbreaks often occur in institutional settings. Genotyping results are available only for 4 cases. Thus, there is a possibility that all other identified probable, confirmed and LTBI cases did not originated from the index case and/or belonged to this outbreak. 12. Line 265. How the ventilation in the classroom and dormitory was assessed? As no evidence of the poor ventilation is provided in the manuscript, this statement is groundless. Please remove or rephrase. 13. Line 300-301. This information is quite outdated and not fully correct. First, at present, whole-genome sequencing (WGS) is widely used to determine Mycobacterium tuberculosis relatedness and is known to deliver greater specificity. Second, the finding in study by David et al., 2018 (Reference 25) showed that, in the setting studied, MIRU-VNTR typing and epidemiological risk factors were poorly predictive of close genomic relatedness, assessed by single nucleotide variants. Also, MIRU-VNTR performance varies markedly by lineage. Please rewrite. 14. Line 304-307. In my opinion, the fact that Beijing family is the most prominent MTB lineage in East Asia, also indicates the possibility that students/teachers could have acquired the infection elsewhere. This could be a study limitation. Also, the reference provided is 25 years old, (i.e. Van Soolingen et al., 1995) and mainly based on IS6110 analysis. Could you please add a newer one reporting the genetic diversity of M. tuberculosis in China? 15. Reference list should be corrected. Reviewer #4: 1.For case definition part, this manuscript selected TST≥15 mm as cut-off point of “latent TB infection”. However, China national standard for latent TB infection was TST≥15 mm. The author need explain the evidence for this cut-off point. Otherwise it could be a classifications. Moreover, for a probable case of TB was defined as chest radiography indicative of TB, plus productive cough or haemoptysis for ≥ 2 weeks. Actually it was also not suitable because coughing more than 2 weeks was too long to detect new TB case for a TB outbreak. This definition also need a very good explanation. 2.For results part, the index case had some TB symptoms in her junior school. Is there any data about her junior school? She also could cause the other outbreak in her junior school. These data also had very high value to help us understand this outbreak. 3.In this investigation, the Shaoxing CDC launched TST screening among classmates and teachers. How about roommates? 4.Of the 6 teachers who had latent TB in October 2016, none accepted prophylactic treatment, and none had developed into active TB. This should be discussed and explored potential reasons. In conclusion, is the prophylactic treatment also necessary for the teachers when future outbreaks occur. 5.“The opportunity of exposure varied among the teachers and the students maybe resulted in the LTBI rate was lower among students than among teachers being more frequently exposed to the index case than the majority of the students in the different classrooms having rare interaction with the index case-student. ” However, those teachers as adults also could have more higher latent infection rate due to natural higher background infection rate because China is one of high TB burden country. This manuscript explanation was not reasonable unless additional data could be provided. 6.Usually the prophylactic treatment will continue 3 or 6 months. How about those students treatment? Each student finish whole prophylactic treatment? ********** 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: No Reviewer #3: No Reviewer #4: 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.] 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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PONE-D-20-26099R1 An outbreak of pulmonary tuberculosis and a follow-up investigation of latent tuberculosis in a high school in an eastern city in China, 2016-2019 PLOS ONE Dear Dr. Pei, 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 make clarification with regard to the additional comment made by the reviewer: There still is a problem about the definition on latent TB infection. Based on guideline, latent TB infection is that TSTs is over 10 mm. For preventive therapy, the cut-off point is recommended as TSTs 15 mm for students. The author should clarify it. Please submit your revised manuscript by Feb 27 2021 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, Igor Mokrousov, Ph.D., D.Sc. Academic Editor PLOS ONE [Note: HTML markup is below. Please do not edit.] 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 #4: (No Response) ********** 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 #4: Yes ********** 3. Has the statistical analysis been performed appropriately and rigorously? Reviewer #4: 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 #4: 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 #4: 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 #4: There still is a problem about the definition on latent TB infection. Based on guideline, latent TB infection is that TSTs is over 10 mm. For preventive therapy, the cut-off point is recommended as TSTs 15 mm for students. The author should clarify it. ********** 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 #4: 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.] 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 2 |
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An outbreak of pulmonary tuberculosis and a follow-up investigation of latent tuberculosis in a high school in an eastern city in China, 2016-2019 PONE-D-20-26099R2 Dear Dr. Pei, 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, Igor Mokrousov, Ph.D., D.Sc. Academic Editor PLOS ONE Additional Editor Comments (optional): Reviewers' comments: |
| Formally Accepted |
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PONE-D-20-26099R2 An outbreak of pulmonary tuberculosis and a follow-up investigation of latent tuberculosis in a high school in an eastern city in China, 2016-2019 Dear Dr. Pei: 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 Igor Mokrousov Academic Editor PLOS ONE |
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