Peer Review History
| Original SubmissionApril 30, 2026 |
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Dear Dr. Shahid, 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:
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[Note: HTML markup is below. Please do not edit.] Reviewers' comments: Reviewer's Responses to Questions Comments to the Author 1. Is the manuscript technically sound, and do the data support the conclusions? Reviewer #1: Yes Reviewer #2: No ********** 2. Has the statistical analysis been performed appropriately and rigorously? -->?> Reviewer #1: N/A Reviewer #2: No ********** 3. Have the authors made all data underlying the findings in their manuscript fully available??> The PLOS Data policy Reviewer #1: Yes Reviewer #2: Yes ********** 4. Is the manuscript presented in an intelligible fashion and written in standard English??> Reviewer #1: Yes Reviewer #2: Yes ********** Reviewer #1: Manuscript Title: Isolation, Antibiogram and Whole Genome Sequence Analysis of Pasteurella multocida Type A from Layer Birds The manuscript presents important findings regarding the isolation, antimicrobial susceptibility, and whole-genome characterization of Pasteurella multocida type A isolated from layer birds in Bangladesh. The integration of phenotypic antimicrobial resistance testing with genomic analysis is valuable and relevant to poultry disease surveillance and antimicrobial resistance monitoring. However, several issues require clarification and revision before the manuscript can be considered for publication. 1. BDT: Please provide the long form in the first mention. 2. Line 94: 80-layer hens; from how many farms? 3. Line 139-145: Is chloramphenicol currently approved to be used in veterinary treatment in Bangladesh? If not, justification for its inclusion should be provided. Why testing three quinolones antibiotic discs? I can agree with cephalosporins because they are from different generations! Can you provide justification of using meropenem and ertapenem simultaneously. It is advised to use either of the guideline, otherwise please, state which guideline for which antibiotic discs. 4. Line 148: I'm very concerned with resistance of this pathogen to carbapenems and colistin while susceptible to Fluoroquinolones! Can you provide more explanation about this? Are carbapenems used in poultry production OR veterinary practices in Bangladesh? 5. Line 250: Better to use one term either antibiotic or antimicrobial and not both interchangeably because they mean different. Should be standardized throughout the manuscript for scientific consistency. 6. Table 2: This table is unnecessary otherwise use it to establish resistant pattern; that is how may isolates were resistant to which antibiotics, and their percentage frequencies, including MDR patterns. Reviewer #2: I do appreciate the authors for the wonderful study where they elucidated the genotypic and phenotypic resistance determinants of P. multocida isolated from Layer chicken in Bangladesh. Given the importance and devastation of Fowl cholera this study is of great importance which will guide developing control strategies. Besides, there are some limitations mentioned below which should be addressed to improve the scientific quality and acceptability of this manuscript. 1. The authors reported 12 type A strains, but WGS was done for only 1 isolate, which limits generalizability o this study. It’s not likely that all the isolates carries all the virulence gene described. For minimum representation, I would suggest performing WGS of at least 3 of the isolates. 2. The authors did WGS of a representative isolates PM58 which based on the Antibiotic resistance profile is resistant to Ampicillin, Cefixime, Ceftriaxone, Chloraphenicol, Colistin, Erythromycin, Ertapenem, Meropenem, Neomycin, Tetracycline. However, no corresponding resistance genes were shown from the ARGs analysis of the WGS. 3. Moreover, CRP is a regulatory protein, tufA is a housekeeping gene, uhpT mutations can contribute to fosfomycin resistance but presence of uphT alone is not proof of resistance. Similarly, parC requires specific mutations for fluoroquinolone resistance. However, no genetic evidence on specific mutation was described in the study. Taken together, phenotypic AST results are not correlating with the genotypic data. 4. No experimental validation of virulence genes. Moreover, describing virulence genes like in Table 4 indicates authors poor knowledge on scientific presentation of genome analysis data. Similarly, Table 2 could be simplified. In current format, none of the Tables worth inclusion in the main text. 5. I don’t understand the importance of Figure 4 in this manuscript. It doesn’t provide any information critical to this manuscript. Better to remove or move to Supplementary Figures. 6. Figure 5 showing distance tree confirmed species of bacteria, where the sequenced isolate is colored in yellow. Although the figure resolution is very poor, I could see the yellow highlighted name as 16S rRNA processing protein RimM [Pasteurella multocida]. I wonder, why? The isolate ID is not mathcing with the isolate ID or name described in the legend. Moreover, the tree is multiphylectic, I would like to know how the author ascertained the position of the isolate in the second monophyletic clade? And, this Figure upon proper justification can be moved to the Supplementary Figures. 7. Figure 6 title is not scientifically connected to this manuscript. P. multocida is widely distributed and genomically connected. How this Title related to this study? Better to modify the title to represent a direct connection with this study. 8. Delete Fig. 7 and 8. Writing those data in text is enough. Rather, the author could perform other genomic analysis such as, mlst analysis, Capsular/LPS genotype confirmation from genome, plasmid analysis, MGEs, prophages, pan-genome comparisons which could provide deeper evolutionary and epidemiological insights. 9. The manuscript reported descriptive results, and no statistical analysis was evident. Overall, the study is novel but sequencing only one isolate, overestimation of the virulence and resistance profiles, the authors knowledge on analyzing and presenting genomic data downgraded the quality. Thus, claims on the virulence and AMR should be toned down, and the suggested modification would help upholding the quality and scientific rigor of this study. ********** 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: Jayedul Hassan ********** [NOTE: If reviewer comments were submitted as an attachment file, they will be attached to this email and accessible via the submission site. Please log into your account, locate the manuscript record, and check for the action link "View Attachments". If this link does not appear, there are no attachment files.] To ensure your figures meet our technical requirements, please review our figure guidelines: https://journals.plos.org/plosone/s/figures You may also use PLOS’s free figure tool, NAAS, to help you prepare publication quality figures: https://journals.plos.org/plosone/s/figures#loc-tools-for-figure-preparation. NAAS will assess whether your figures meet our technical requirements by comparing each figure against our figure specifications. |
| Revision 1 |
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Isolation, Antibiogram and Whole Genome Sequence Analysis of Pasteurella multocida Type A from Layer Birds PONE-D-26-21400R1 Dear Dr. Shahid, We’re pleased to inform you that your manuscript has been judged scientifically suitable for publication and will be formally accepted for publication once it meets all outstanding technical requirements. Within one week, you’ll receive an e-mail detailing the required amendments. When these have been addressed, you’ll receive a formal acceptance letter and your manuscript will be scheduled for publication. An invoice will be generated when your article is formally accepted. Please note, if your institution has a publishing partnership with PLOS and your article meets the relevant criteria, all or part of your publication costs will be covered. Please make sure your user information is up-to-date by logging into Editorial Manager at Editorial Manager® and clicking the ‘Update My Information' link at the top of the page. For questions related to billing, please contact billing support. If your institution or institutions have a press office, please notify them about your upcoming paper to help maximize its impact. If they’ll be preparing press materials, please inform our press team as soon as possible -- no later than 48 hours after receiving the formal acceptance. Your manuscript will remain under strict press embargo until 2 pm Eastern Time on the date of publication. For more information, please contact onepress@plos.org. Kind regards, Faham Khamesipour, Ph.D. Academic Editor PLOS One Additional Editor Comments (optional): Reviewers' comments: Reviewer's Responses to Questions Comments to the Author Reviewer #1: All comments have been addressed Reviewer #3: All comments have been addressed ********** 2. Is the manuscript technically sound, and do the data support the conclusions??> Reviewer #1: Yes Reviewer #3: Yes ********** 3. Has the statistical analysis been performed appropriately and rigorously? -->?> Reviewer #1: N/A Reviewer #3: N/A ********** 4. Have the authors made all data underlying the findings in their manuscript fully available??> The PLOS Data policy Reviewer #1: Yes Reviewer #3: Yes ********** 5. Is the manuscript presented in an intelligible fashion and written in standard English??> Reviewer #1: Yes Reviewer #3: Yes ********** Reviewer #1: Next time do not lump several antimicrobials from one class, it is wastage of resources. Selection of antimicrobials should be based on class representation of the bacterium and epidemiological information of the study area. It is important to mention what proportion of isolates that were MDR. If it 100% as it is seen in the profile, say it in the text. Remember to define what MDR mean in your context. Reviewer #3: Thankyou for taking the time to revise the manuscript. It is clear that alot of work has gone into improving this version of the manuscript. The limitations are clearly outlined and the evidence provided to support each of the sections, even more than I might regularly see in manuscripts, so thankyou. In the future though, please ensure to include the rationale and calculation underpinning the sample size (number of birds) collected so that calculations of prevalence are more robust. ********** 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: Alexanda Mzula Reviewer #3: No ********** |
| Formally Accepted |
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PONE-D-26-21400R1 PLOS One Dear Dr. Shahid, I'm pleased to inform you that your manuscript has been deemed suitable for publication in PLOS One. Congratulations! Your manuscript is now being handed over to our production team. At this stage, our production department will prepare your paper for publication. This includes ensuring the following: * All references, tables, and figures are properly cited * All relevant supporting information is included in the manuscript submission, * There are no issues that prevent the paper from being properly typeset You will receive further instructions from the production team, including instructions on how to review your proof when it is ready. Please keep in mind that we are working through a large volume of accepted articles, so please give us a few days to review your paper and let you know the next and final steps. Lastly, if your institution or institutions have a press office, please let them know about your upcoming paper now to help maximize its impact. If they'll be preparing press materials, please inform our press team within the next 48 hours. Your manuscript will remain under strict press embargo until 2 pm Eastern Time on the date of publication. For more information, please contact onepress@plos.org. You will receive an invoice from PLOS for your publication fee after your manuscript has reached the completed accept phase. If you receive an email requesting payment before acceptance or for any other service, this may be a phishing scheme. Learn how to identify phishing emails and protect your accounts at https://explore.plos.org/phishing. If we can help with anything else, please email us at customercare@plos.org. Thank you for submitting your work to PLOS One and supporting open access. Kind regards, PLOS ONE Editorial Office Staff on behalf of Dr. Faham Khamesipour Academic Editor PLOS One |
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