Peer Review History
Original SubmissionNovember 19, 2022 |
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PONE-D-22-31700Detection of specific uncultured bacteriophages by fluorescence in situ hybridisation in pig microbiomePLOS ONE Dear Dr. Otani, 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 carefully consider all comments provided by the expert reviewer. Please submit your revised manuscript by Feb 26 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:
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Any typographical or grammatical errors should be corrected at revision, so please highlight any specific errors that need correcting in the box below. 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: General comments: Ostenfeld et al presented certain novelty in the visualization of jumbophages from metagenome assembled genome, and made certain degree of improvements on the original FISH protocol for the special sample type. However, the whole structure is distractive by some unnecessary information, and the lay out also could be improved by moderate revision: 1. The phage plaque assay (from line 112 - 134) on E. coli cannot significantly contribute to the theme, also kinds of misleading as readers might be confused with the jumbophage’s host is E. coli. I would thus suggest remove this part to avoid the confusion. 2. The sequenced phage contigs (Table S1) didn’t give much information here, only the contig length, is there any host-prediction work was done? According to the contig size, more details should be obtained by additional annotation. Besides, when phage contigs were assembled from 2 different samples, then based on which information that these two contigs were considered to be one? And when designing primers, which contig were used for each phage? 3. In Fig 3, the phage-host relation’s part is less convincing, as the phage clouds around bacteria, but no signal could be observed directly inside a bacterial cell, which is quite abnormal in other FISH publications. Some figure in supplementary material shows better results, may be worth to consider switch the position. Detailed suggestions: Also, some small points that could be improved: 1. Line 153: what software used for primer design? Based on what parameters? 2. No signal could be observed for all the nonEUB338-Cy5 probe, in Fig 1 or Fig S4. As I could understand, this is a negative control probe, target on nothing. So, the description in line 189 about the overlapping signal with background is confusing, adding some arrows might be helpful. ********** 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. 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Revision 1 |
Detection of specific uncultured bacteriophages by fluorescence in situ hybridisation in pig microbiome PONE-D-22-31700R1 Dear Dr. Otani, 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, Ulrich Nübel Academic Editor PLOS ONE Additional Editor Comments (optional): Reviewers' comments: |
Formally Accepted |
PONE-D-22-31700R1 Detection of specific uncultured bacteriophages by fluorescence in situ hybridisation in pig microbiome Dear Dr. Otani: 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. Ulrich Nübel Academic Editor PLOS ONE |
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