Peer Review History

Original SubmissionJuly 31, 2020

Attachments
Attachment
Submitted filename: Reviews answer.docx
Decision Letter - Remco PH Peters, Editor

PONE-D-20-23955

TST conversions and an increase in systemic interferon-gamma after MTX introduction in psoriasis patients: An interventional study associated with a cohort.

PLOS ONE

Dear Dr. Medeiros,

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 Oct 30 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:

  • A rebuttal letter that responds to each point raised by the academic editor and reviewer(s). You should upload this letter as a separate file labeled 'Response to Reviewers'.
  • A marked-up copy of your manuscript that highlights changes made to the original version. You should upload this as a separate file labeled 'Revised Manuscript with Track Changes'.
  • An unmarked version of your revised paper without tracked changes. You should upload this as a separate file labeled '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,

Remco PH Peters, MD, PhD, DLSHTM

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. Thank you for submitting your clinical trial to PLOS ONE and for providing the name of the registry and the registration number. The information in the registry entry suggests that your trial was registered after patient recruitment began. PLOS ONE strongly encourages authors to register all trials before recruiting the first participant in a study.

As per the journal’s editorial policy, please include in the Methods section of your paper:

i) your reasons for your delay in registering this study (after enrolment of participants started);

ii) confirmation that all related trials are registered by stating: “The authors confirm that all ongoing and related trials for this drug/intervention are registered”.

Please also ensure you report the date at which the ethics committee approved the study as well as the complete date range for patient recruitment and follow-up in the Methods section of your manuscript.

3.  Thank you for including your ethics statement: 'This study was a prospective, quasi-experimental, single-arm, self-controlled study associated with a cohort approved by the ethics committee, with trial number 42859015.0.0000.5208-CAAE on 01/04/2015. The authors confirm that all ongoing and related trials for this drug/intervention are registered at http://www.ensaiosclinicos.gov.br/rg/RBR-2mt78b/ by the number RBR-2mt78b. Forty-five patients were referred to initiate follow-up during the study period and signed the consent form.'

a. Please amend your current ethics statement to include the full name of the ethics committee/institutional review board(s) that approved your specific study.

b. Once you have amended this/these statement(s) in the Methods section of the manuscript, please add the same text to the “Ethics Statement” field of the submission form (via “Edit Submission”).

For additional information about PLOS ONE ethical requirements for human subjects research, please refer to http://journals.plos.org/plosone/s/submission-guidelines#loc-human-subjects-research

4. Your ethics statement should only appear in the Methods section of your manuscript. If your ethics statement is written in any section besides the Methods, please delete it from any other section.

[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: Partly

**********

2. Has the statistical analysis been performed appropriately and rigorously?

Reviewer #1: I Don't Know

Reviewer #2: I Don't Know

**********

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: Immunosuppression is an important cause of the reactivation of LTBI. Although there are no highly specific diagnostic tests for the diagnosis of LTBI, the use of TST and IGRA are surrogate markers. This study provides prospective data to interpret TST/IGRA conversion in patients with psoriasis who are taking MTX. However, the small sample size makes the data difficult to interpret. Given that participants were BCG vaccinated, the significance of TST changes, while IGRA remains unchanged is hard to interpret. Perhaps the results are a result of boosting (although the repeat test is at 90 days)? I appreciate that the authors have acknowledged several of the limitations of the TST however the sample size is very small, making it difficult to interpret further. I can see that there is a sample size calculation, perhaps a bio-statistician is better placed to comment if conclusions can be made based on the calculation and sample size (not sure if this has already been completed?). It does however, seem the authors have addressed some of the concerns of the previous reviewers.

Although reassuring that no one developed TB in the three-month period, it is a very short follow up period.

- Mix of past and present tense e.g. line 172 (there were no exclusions…), line 241, 317

- Line 206 change to “they were advised to attend the consultation….”

- Line 212 remove “they presented”

- Line 234: should missing data be considered zero or not applicable, as this may artificially increase the number of negative test results (or where these tests not considered negative)?

- Line 276: can this be worded more clearly?

- Line 312: ?”report a discordance between…”

- Line 360/1 – sentence structure needs to be changed

- Sometimes the discussion is a little difficult to follow, one final proofread with a focus on structure may help.

Reviewer #2: In the "Discussion" session, the authors did not mention the possibility of "Boosting effect" occurrence. Even though the TST repetition was performed 12 weeks after the first exam, "Boosting effect" could had happened.

Reference: Cauthen GM, Snider DE Jr, Onorato IM. Boosting of tuberculin sensitivity among Southeast Asian refugees. Am J Respir Crit Care Med. 1994;149(6):1597-1600. doi:10.1164/ajrccm.149.6.8004319

**********

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

[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

Response to Reviewers

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

Answer: I corrected the topics according to the Plos one formatting

2. Thank you for submitting your clinical trial to PLOS ONE and for providing the name of the registry and the registration number. The information in the registry entry suggests that your trial was registered after patient recruitment began. PLOS ONE strongly encourages authors to register all trials before recruiting the first participant in a study.

As per the journal’s editorial policy, please include in the Methods section of your paper:

i) your reasons for your delay in registering this study (after enrolment of participants started);

ii) confirmation that all related trials are registered by stating: “The authors confirm that all ongoing and related trials for this drug/intervention are registered”.

Please also ensure you report the date at which the ethics committee approved the study as well as the complete date range for patient recruitment and follow-up in the Methods section of your manuscript.

Answer:

i) I added the justification in the text

ii) I confirmed that all related trials are registered

3. Thank you for including your ethics statement: 'This study was a prospective, quasi-experimental, single-arm, self-controlled study associated with a cohort approved by the ethics committee, with trial number 42859015.0.0000.5208-CAAE on 01/04/2015. The authors confirm that all ongoing and related trials for this drug/intervention are registered at http://www.ensaiosclinicos.gov.br/rg/RBR-2mt78b/ by the number RBR-2mt78b. Forty-five patients were referred to initiate follow-up during the study period and signed the consent form.'

a. Please amend your current ethics statement to include the full name of the ethics committee/institutional review board(s) that approved your specific study.

b. Once you have amended this/these statement(s) in the Methods section of the manuscript, please add the same text to the “Ethics Statement” field of the submission form (via “Edit Submission”).

Answer:

a) I added the name of the ethical committee

b) The ethic statement was added to the field of the submission

4. Your ethics statement should only appear in the Methods section of your manuscript. If your ethics statement is written in any section besides the Methods, please delete it from any other section.

Answer: All the ethics were included in a separate part of “Ethical statements” and were removed from the text.

Responses to Questions

Reviewer #1: Immunosuppression is an important cause of the reactivation of LTBI. Although there are no highly specific diagnostic tests for the diagnosis of LTBI, the use of TST and IGRA are surrogate markers. This study provides prospective data to interpret TST/IGRA conversion in patients with psoriasis who are taking MTX. However, the small sample size makes the data difficult to interpret. Given that participants were BCG vaccinated, the significance of TST changes, while IGRA remains unchanged is hard to interpret. Perhaps the results are a result of boosting (although the repeat test is at 90 days)? I appreciate that the authors have acknowledged several of the limitations of the TST however the sample size is very small, making it difficult to interpret further. I can see that there is a sample size calculation, perhaps a bio-statistician is better placed to comment if conclusions can be made based on the calculation and sample size (not sure if this has already been completed?). It does, however, seem the authors have addressed some of the concerns of the previous reviewers.

Although reassuring that no one developed TB in the three months, it is a very short follow up period.

Answer :

1) The sample was above the minimum required. Studies with paired variables require a smaller sample. At the end of the text, it is written that it is necessary to repeat the research to verify the reproducibility of the results, preferably in larger samples.

2) The follow-up was 18 months for each participant. This is in the methods section line 118-119.

3) Thank you for your consideration. When I wrote false-positive tests, I included the booster effect. The increase in TST size in MTX psoriasis patients was found in other studies in countries with less environmental exposition to Mycobacterium tuberculosis. Psoriasis patients who undergoing re-testing in one month, have 5% conversions (1); Course the booster effect can occur in three months, but it does not explain everything. There would be three possibilities, the classic booster for the repetition of the TST, the increase of the identification for the increase of the INF gamma and TNF-alfa, and some cases of possible true conversions. IGRA would try to identify these true conversions. The best way to evaluate the booster effect was a control group without treatment. It is placed as a limitation. The text was not very clear about this. I make the text more clear and cited the booster effect.

(1) Ribera M, Zulaica A, Pujol C, et al. Estimation of the prevalence of latent tuberculosis infection in patients with moderate to severe plaque psoriasis in Spain: The Latent study. Actas Dermosifiliogr. 2015;106(10):823-829. DOI:10.1016/j.ad.2015.08.001

- Mix of past and present tense e.g. line 172 (there were no exclusions…), line 241, 317

Thank you for the warning, CORRECTED. English was again revised by experts.

- Line 206 change to “they were advised to attend the consultation….” - CHANGED

- Line 212 remove “they presented” - REMOVED

- Line 234: should missing data be considered zero or not applicable, as this may artificially increase the number of negative test results (or where these tests not considered negative)?

ANSWER: Plos requests to be declared how the missing values were handled. Statistically, the missing data can be filled with values close to mean, estimated values (regression imputation), last observation made found, maximum probability, filled with zero / negative and others possibilitys (1) . Considering them equal to zero reduced our associations. However, there were no missing data for IGRA or TST. We only had for TNF-α and ESR for lack of material in the laboratory in the second test (Line 299). This was probably the reason why TNF-α increased without significance. This may be the reason for the loss of association between IGRA and ESR in the second test, but this discussion would be very hypothetical.

(1) Kang H. The prevention and handling of the missing data. Korean J Anesthesiol. 2013;64(5):402-406. doi:10.4097/kjae.2013.64.5.402

- Line 276: can this be worded more clearly? ANSWER: I tried to make it clear

- Line 312: ?” report a discordance between…” CHANGED

- Line 360/1 – sentence structure needs to be changed - CHANGED

- Sometimes the discussion is a little difficult to follow, one final proofread with a focus on the structure may help.

ANSWER

1) The sequence is: IGRA/TST discordance � epidemiological/ clinical factors � Inflammatory process of psoriasis � Influence of immunosuppression � increase in INF-gamma and TNF-alfa/ cytotoxicity as a partial explanation for changes in TST� discussion about being false ou true positives according to IGRA agreement

2) I changed the words always using “disagreement” to mark the concept in this the discussion as you suggested above

3) I made a change in the structure of the paragraph about the cytotoxic effect of MTX to improve text fluency

4) I added the discussion about the booster effect.

Reviewer #2: In the "Discussion" session, the authors did not mention the possibility of "Boosting effect" occurrence. Even though the TST repetition was performed 12 weeks after the first exam, the "Boosting effect" could have happened.

Reference: Cauthen GM, Snider DE Jr, Onorato IM. Boosting of tuberculin sensitivity among Southeast Asian refugees. Am J Respir Crit Care Med. 1994;149(6):1597-1600. DOI:10.1164/ajrccm.149.6.8004319

ANSWER: Thank you for your consideration. When I speak about false positives I include the booster effect. The increase in TST size in MTX psoriasis patients was found in other studies in countries with less environmental exposition to Mycobacterium tuberculosis. Psoriasis patients who undergoing re-testing in one month, have 5% conversions (1); Course the booster effect can occur in three months, but it does not explain everything. There would be three possibilities, the classic booster for the repetition of the TST, the increase of the identification for the increase of the INF gamma and TNF-alfa, and some cases of possible true conversions. IGRA would try to identify these true conversions. The best way to evaluate the booster effect was a control group without treatment. I tried to improve the text.

(1) Ribera M, Zulaica A, Pujol C, et al. Estimation of the prevalence of latent tuberculosis infection in patients with moderate to severe plaque psoriasis in Spain: The Latent study. Actas Dermosifiliogr. 2015;106(10):823-829. DOI:10.1016/j.ad.2015.08.001

Attachments
Attachment
Submitted filename: Response to Reviewers.docx
Decision Letter - Remco PH Peters, Editor

TST  conversions and systemic interferon-gamma increase after methotrexate introduction in psoriasis patients

PONE-D-20-23955R1

Dear Dr. Medeiros,

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,

Remco PH Peters, MD, PhD, DLSHTM

Academic Editor

PLOS ONE

Additional Editor Comments (optional):

Please respond to Reviewer 3's suggestions:

Reviewer 3:

A single arm, self-controlled study was conducted to determine if the results of the tuberculin skin test (TST) or interferon-gamma release assay in psoriasis patients change after 12 weeks of methotrexate treatment. Clinical and inflammatory markers were also investigated. The proportion of positive TST cases significantly increased at post-treatment. Additionally, serum IFN-γ increased at post-treatment.

Minor revisions:

1-  Line 132: Indicate the statistical testing method which achieves 80% power.

2-  Line 212: Indicate the specific type of Wilcoxon test, as there are at least two.

3- Indicate if any adverse events were observed during the course of the study.

Reviewers' comments:

Formally Accepted
Acceptance Letter - Remco PH Peters, Editor

PONE-D-20-23955R1

TST conversions and systemic interferon-gamma increase after methotrexate introduction in psoriasis patients

Dear Dr. de Medeiros:

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

Prof Remco PH Peters

Academic Editor

PLOS ONE

Open letter on the publication of peer review reports

PLOS recognizes the benefits of transparency in the peer review process. Therefore, we enable the publication of all of the content of peer review and author responses alongside final, published articles. Reviewers remain anonymous, unless they choose to reveal their names.

We encourage other journals to join us in this initiative. We hope that our action inspires the community, including researchers, research funders, and research institutions, to recognize the benefits of published peer review reports for all parts of the research system.

Learn more at ASAPbio .