Peer Review History
Original SubmissionApril 3, 2023 |
---|
PONE-D-23-08723Epidemiological, clinical and laboratory profile of patients presenting with severe acute respiratory syndrome (SARS-CoV-2) in Ethiopia: Comparative cross-sectional studyPLOS ONE Dear Dr. Gize, 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 Jul 17 2023 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: 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. We look forward to receiving your revised manuscript. Kind regards, Enoch Aninagyei, PhD 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. Please note that funding information should not appear in any section or other areas of your manuscript. We will only publish funding information present in the Funding Statement section of the online submission form. Please remove any funding-related text from the manuscript. "This research was funded by the St. Paul’s Hospital Millennium Medical College. The funder had no role of the in designing of the study, collection, analysis, and interpretation of data." 3. We note that the grant information you provided in the ‘Funding Information’ and ‘Financial Disclosure’ sections do not match. When you resubmit, please ensure that you provide the correct grant numbers for the awards you received for your study in the ‘Funding Information’ section. 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 move it to the Methods section and delete it from any other section. Please ensure that your ethics statement is included in your manuscript, as the ethics statement entered into the online submission form will not be published alongside your manuscript. 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: No ********** 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: No 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: Good attempt to review and report on COVID-19 cases that were seen in your facility. However, take note of the following observations: 1. The entire manuscript needs grammatical correction. I recommend they consult an editor to review the manuscript and correct the writings before submission. Results 1. The authors indicated a sample of 413 respondents, however, on Table 2, all variables reported had different sample size or denominator. How is this possible for haematological parameters run at the same time? 2. The authors mentioned co-morbidities that is hypertension and diabetes. These two diseases may not cause the elevation of the haematological parameters like the Neutrophils and enzymematic markers such as ALP, however, other disease conditions like liver disease and other chronic inflammatory conditions may present with similar elevations. Therefore, the authors must indicate which specific chronic conditions or metabolic diseases that were ruled out in the study apart the hypertension and diabetes. Discussion 1. The discussion is not cogent, there are contradictory statements and unfounded assumptions. 2. On paragraph 2, the assumption made on the presence of comorbidity and ARI increases the positivity of COVID-19 should be further explain since the assumption does not clearly indicate specifically true positivity reaction or false positivity reaction. Conclusion The conclusion is not precise and concise, rather a repetition of the results and aspects of the discussion. Consider rewording the paragraph 2 as the conclusion of the study. However, the clinical diagnostics symptoms reported is a general knowledge that has been reported by several studies. Given your findings, are you recommending that will diagnosis and treatment of COVID-19 patients could be done based on symptoms rather than PCR test? Reviewer #2: This article aimed to compare epidemiological, clinical, and laboratory profiles of patients presenting with acute respiratory syndrome illness in Addis Ababa Ethiopia. The specific research question is whether the epidemiological, clinical, and laboratory profile data of COVID-19 patients managed in low-resource settings might be quite different from findings from developed countries. The study reports the results of N=413 patients who had acute respiratory illnesses and were suspected of having COVID-19 disease. A total of 250 (60.5%) patients tested positive for COVID-19 disease. COVID-19 patients were less likely to use an alcohol-based method of hand washing, and a higher proportion of headaches, sore throat, and loss of sense of taste. The study further found that Neutrophil, creatinine, and alkaline phosphatase were significantly higher in COVID-19 patients. The strength of the study was that a lot of variables were collected, and a well-written manuscript. In addition, the study aims at comparing epidemiological, clinical, and laboratory profiles of patients presenting with acute respiratory syndrome illnesses. This research team is in a unique position to address this question. The results are thus of potentially great interest, but there are some issues with the manuscript that need to be addressed. Major Comments Line 282-283: Authors should run a logistic regression to test for association. Minor Comments Abstract Line 33: delete ‘was’ (the study aimed to compare). Line 34: Add ‘of’ (clinical and laboratory profiles of patients). Line 38: Add ‘a’ (Using a structured questionnaire) Line 41: Replace (to see their laboratory profiles) with ‘for laboratory profile analysis’. Line 45: delete ‘were’ (participants tested positive) Methods Line 111: what about those who are 18 years and below? Line 113: A suspected case is based on meeting one or more of either clinical or epidemiological link criteria. It is not clear why, according to the authors, patients were tested irrespective of whether they met the criteria or not. Line 117: The sentence should be paraphrased. Line 134: Per the calculation, the minimum sample size must be 423. Line 142: delete ‘an.’ Line 149: This statement contradicts that of line 113. The authors must clarify this. Line 156: Provide a reference for the protocol or the standard operating procedure. Line 182: With the biochemical and enzymatic tests, the blood was collected into which tube since an inappropriate tube can lead to wrong results. E.g., sodium fluoride (NaF) tubes and serum separation tubes (SST) Line 192-193: Authors should state exactly what was done to prevent or minimize pre-analytical, analytical, and post-analytical errors. Specimen collection, handling, storage including temp, Assays used, quality control testing, and reliability of assays. Results Line 211: Indicate the figure. Line 216: Authors should re-categorize the groups i.e., Occupation. I think some health professionals, as well as drivers, are Government employees. -Education: The word illiterate is too offensive. Replace with no formal education. College and above: replace with tertiary. Line 231: Authors must be consistent in reporting. Just use the percentages Line 260: Use a ‘differential blood count.’ Discussion Line 294-295: It is not clear which respiratory tract infections apart from Covid-19, that, the authors compare the clinical, laboratory, and other variables with. Line 296-297: the study site is a referral and treatment center. Most patients are likely to test positive for Covid-19. Moreover, some might be severely ill and have received some form of treatment before being referred to the facility. This can lead to bias in the study. ********** 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: Yes: Comfort Dede Tetteh 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 |
PONE-D-23-08723R1Epidemiological, clinical and laboratory profile of patients presenting with severe acute respiratory syndrome (SARS-CoV-2) in Ethiopia: Comparative cross-sectional studyPLOS ONE Dear Dr. Gize, 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. ACADEMIC EDITOR: Title: Since you did not recruit participants without SARS-CoV-2, delete Comparative cross sectional study from the title Line 41: specify the laboratory profiles you analyzed Line 42: Revise …p. value less than 0.05 were to p-values less than 0.05… or p-values < 0.05 Line 44: SARS-CoV-2 and not SARS- CoV-2 Line 49: neutrophil and not Neutrophil Line 50: Show mean and SD values instead of %. Also indicate the p-values so confirm significance Line 54: do not capitalize Creatinine, Alkaline. Are trying to conclude that elevation of these markers confirms COVID-19? Please revise this statement Lines 60/70: Define all abbreviations (COVID-19, CDC) on first mention Lines 68/69: Try expressing these huge number in millions and billions for ease of appreciation Lines 82-84: Were these parameters elevated or reduced? Lines 131/132: Because we had no previous proportion of positivity during the study period, we took the positivity rate of RT-PCR COVID-19 to be 50%...refer readers to previous publication where this assumption was used Lines 129-36: indicate the formula used to determine the sample size Line 159: indicate the source of the Da’an Gene Corporation. Does the kit isolate NA or RNA? Specify Lines 169/170: indicate the rtqPCR equipment used Line 176: vacutainer Lines 175/182: Indicate the volume of blood samples collected into each tube Line 185: The instrument was fully automated and can do up to 60 assays like hemoglobin A1C (HBA1C), Alanine Aminotransferase (GPT), etc…statement not necessary Line 191: indicate the Westgard rule used to assess the validity of the biochemistry values Line 193/99: sentence too long. Revise Line 211: include ethics approval reference number Line 226: More than half of them were males.. add number (%) Line 237: change figure 1 to (figure 1) same as line 241 Lines 243/44: what do you mean by higher, lower and normal values? Indicate actual mean values and p-values to show sig differences Table 2: I am not sure the table is well presented. Which population does the normal values you indicated refer to? Of the 413 cases, 250 and 163 were positive and negative respectively. Compare the mean blood parameters between the positive and negative cases. In its current form, it doesn’t bring out a good outcome of the intended analysis. Line 258: You use college in the test and tertiary school in table 3, please be consistent Lines 258-60: patients with a positive COVID-19 test 259 were less likely to use the only alcohol-based method of hand washing (12.5% vs 87.5%, P<0.05),… how did you determine the less likelihood? Table 3, under occupation, why is the frequency for government in parenthesis? Table 3, why did you use fisher test for ‘Daily rubbing hands’ when all the frequencies were more than 5 Table 3: was Method of hand washing analyzed with chi or fisher exact? Lines 265-68: better to write p=0.001 instead of P=0.001. Revise here and elsewhere Table 5: T-test is more appropriate to analyze Table 5 Line 301: Obviously these changes will affect the discussion. Please revise the discussion after effecting these changes. Please submit your revised manuscript by Sep 16 2023 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 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. We look forward to receiving your revised manuscript. Kind regards, Enoch Aninagyei, PhD Academic Editor PLOS ONE Journal Requirements: 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.] 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 ********** 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 ********** 3. Has the statistical analysis been performed appropriately and rigorously? Reviewer #1: 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 ********** 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 ********** 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: Thank you for considering the comments suggested and addressing them accordingly to improve on the manuscript. ********** 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: Yes: Comfort Dede Tetteh ********** [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 |
Epidemiological, clinical and laboratory profile of patients presenting with severe acute respiratory syndrome (SARS-CoV-2) in Ethiopia PONE-D-23-08723R2 Dear Dr. Gize, 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, Enoch Aninagyei, PhD Academic Editor PLOS ONE Additional Editor Comments (optional): Reviewers' comments: |
Formally Accepted |
PONE-D-23-08723R2 Epidemiological, clinical and laboratory profile of patients presenting with severe acute respiratory syndrome (SARS-CoV-2) in Ethiopia Dear Dr. Gize: 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 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 Enoch Aninagyei 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 .