Peer Review History
| Original SubmissionDecember 1, 2020 |
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PONE-D-20-37778 Slowpoke functions in circadian output cells to regulate rest:activity rhythms PLOS ONE Dear Dr. Cavanaugh, 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. Both reviewers have found this manuscript very interesting and worthy of publication, however, only after addressing a number of issues that the authors should address in full in their revised version. I would in particular advise the authors to focus on the following points: The inclusion of a scheme that could help the non-specialist reader to follow the location and neurotransmitter expression profile of the PI cells under investigation. Clarification of how the cells for the RNAseq analysis were isolated. Improving the statistical analysis of the "power" of the circadian rhythmicity Please submit your revised manuscript by Mar 18 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, Nicholas Simon Foulkes, D.Phil 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 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: 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: I found this to be an interesting and very well written ms, which after the single cell sequencing. was quite disappointing in terms of assigning function to the transcripts identified. here are some comments In the Methods, it would be useful just to state briefly where each of the gal4 drivers is expressed. For example why would the 5 cells labelled by kurs58-GAL4 or C767-GAL4 be of particular interest other than they are in the PI? What exactly is dilp2mCherry? I do not want to trawl through other papers to find out. Could the expression patterns and a description of the lines be added to Table S1? A non-Drosophilist would really struggle with what exactly was done and which cells were labelled. Perhaps a cartoon of PI cells might be helpful indicating where the various subsets of cells expressing the various neuropeptides are located? L239 and l256-7 I seem to recall a paper by Nagy et al from Costa’s group a few years ago that showed that PDF clock cells are also connect to dilp2 cells??? Might this also be relevant here? I appreciate that the authors wish to look at the functional effects of gene knockdown on output so have limited their analysis to the ‘power’ of rhythms. They assume that because the core clock is not affected the free-running periods will be ~24 h. I’m wondering why they did not examine the periods though, because there is a possibility that there is feedback between output cells and the clock – or even off target effects. The period data must be there, why not show it as there could be something interesting. I’m a little concerned about the measure of power too. Chi-2 periodograms are quite crude compared to more recent methods which also generate power values. Even a simple autocorrelation would generate a more robust power value. However, I realise that a lot of studies do use this measure of power so I won’t insist on a different measure. The authors are quite honest about the variability of their results, for which they should be commended. Apart from slo, no clear pattern emerges about the relevance of the other genes at a functional level. This might be perhaps because the authors only focused on power of circadian activity cycles. There could be effects on phase or period changes in activity or on eclosion rhythms, or in sleep – easy to measure but the authors did not explore these other phenotypes. In conclusion, this is an interesting ms that at least shows what mRNAs are expressed in selected PI neurons. The functional tests reveal disappointing results. Nevertheless I think the ms is worth publishing. Reviewer #2: The paper by Ruiz et al describes an interesting work that aims at isolating genes involved in previously defined output neurons of the drosophila brain circadian clock. A single cell RNAseq experiment with 4 cells of the pars intercerebralis generates a series of expressed genes encoding various neurotransmission components. Using targeted RNAi, the authors test the contribution of these components to the locomotor activity rhythms. They reveal that the slowpoke potassium channel plays a role in the PI cells to generate robust activity rhythms in constant conditions. Slowpoke was already known to be involved in the control of the circadian behavior but only clock cells were reported to be a site for slowpoke clock function, and the present study indicates that at least part of the non-clock cell function takes place in the PI. The molecular and behavioral data are clearly presented and provide interesting information about slowpoke role in the clock neuron downstream circuit, which remains poorly understood. My only comment is about the very limited description of the cell isolation procedure. I think that the authors should provide more information on how they isolate single cells for RNAseq analysis. ********** 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 |
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PONE-D-20-37778R1 Slowpoke functions in circadian output cells to regulate rest:activity rhythms PLOS ONE Dear Dr. Cavanaugh, 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 Apr 18 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, Nicholas Simon Foulkes, D.Phil 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. Additional Editor Comments (if provided): The revised version of the manuscript has improved considerably and all the reviewers issues have been addressed convincingly. However, I would still hold the authors to include a simple diagram/cartoon, as originally requested by Reviewer 1, that would help the non-specialist reader follow the Drosophila brain architecture and the experimental approach. [Note: HTML markup is below. Please do not edit.] [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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Slowpoke functions in circadian output cells to regulate rest:activity rhythms PONE-D-20-37778R2 Dear Dr. Cavanaugh, 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, Nicholas Simon Foulkes, D.Phil Academic Editor PLOS ONE Additional Editor Comments (optional): Reviewers' comments: |
| Formally Accepted |
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PONE-D-20-37778R2 Slowpoke functions in circadian output cells to regulate rest:activity rhythms Dear Dr. Cavanaugh: 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. Nicholas Simon Foulkes Academic Editor PLOS ONE |
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