Peer Review History
| Original SubmissionApril 11, 2023 |
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PONE-D-23-08794The promotive role of lncRNA MIR205HG in proliferation, invasion, and migration of melanoma cells via the JMJD2C/ALKBH5 axisPLOS ONE Dear Dr. Lu Yan 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: The comments from peer reviewers have been forwarded to you as listed below. Please submit your revised manuscript by July 18. 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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PLOS requires an ORCID iD for the corresponding author in Editorial Manager on papers submitted after December 6th, 2016. Please ensure that you have an ORCID iD and that it is validated in Editorial Manager. To do this, go to ‘Update my Information’ (in the upper left-hand corner of the main menu), and click on the Fetch/Validate link next to the ORCID field. This will take you to the ORCID site and allow you to create a new iD or authenticate a pre-existing iD in Editorial Manager. Please see the following video for instructions on linking an ORCID iD to your Editorial Manager account: https://www.youtube.com/watch?v=_xcclfuvtxQ 6. 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 If you have cited papers that have been retracted, please include the rationale for doing so in the manuscript text, or remove these references and replace them with relevant current references.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 If you need to cite a retracted article, indicate the article’s retracted status in the References list and also include a citation and full reference for the retraction notice.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): Re: The promotive role of lncRNA MIR205HG in proliferation, invasion, and migration of melanoma cells via the JMJD2C/ALKBH5 axis by Lu Yan et al. Dear Dr Lu Yan, Your above-referenced maunscript submitted to PlosOne has been received and reviewed by two external peer reviewers. Now that required number of reviews has been received, the referees' opinions are forwarded to you. Please revise your paper according to the comments and return its revised version to the editor at due time for further reviews. Best, Xiangning Zhang, M.D., Ph.D. Academic Editor. [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: Yes Reviewer #2: Yes ********** 2. Has the statistical analysis been performed appropriately and rigorously? Reviewer #1: Yes Reviewer #2: Yes ********** 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: No ********** 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: In this manuscript, Liu et al present compelling evidence in support of their mechanism of MIR205HG effect on melanoma growth and progression. They show that this lncRNA acts via binding to JMJD2C and HuR, leading to upregulation of ALKBH5 and induction of pro-cancer phenotype. Overall, the manuscript is well-organized, and the data and conclusions presented with logical flow. Descriptions of statistical analyses are excellent. The manuscript does require some revision for clarity, both in terms of English word use and descriptions of the studies. The data presented in Figures 4 and 6 may benefit from inclusion of additional control data if available. Otherwise, specific minor queries and suggestions are given below: Abstract: -Line 26 – Change “(JMJD2C)/ALKB…” to “(JMJD2C) and ALKB…” As written, it implies these two proteins are the same. -Line 31 – Please define HuR when first introduced. Introduction: -Line 46 – “Trendy” should be changed to “trending”. -Line 57 – Reference #7 does not appear to cover all of the processes in this sentence; consider adding additional references. Materials and Methods: -Line 94 – Please describe transfection reagent and protocol used, including size of vessel and cell number. -Line 109 – How long after transfection were colony assays seeded? -Colony/transwell assays – Were cells counted manually or by software? How many visual fields? -Line 117 – Please describe volume and composition of Matrigel mix added. -Line 126 – Was RNA purification part of the kit? If not, how was this done? -Line 134 – “Chromatins were” should read “Chromatin was.” -Line 136-138 – How was DNA extracted? Also, the authors state it was extracted “to determine the number of specific proteins”. It would be more accurate to say the objective was to identify binding sites. -Line 139 – Please verify the ALKBH5 promoter forward primer sequence. BLAST only identifies a partial match on Chromosome 17. -Line 148 – “were free to food and water” should read “were given free access to food and water.” Also, please provide cell number and lentiviral dosage. -Line 156 – “formular” should read “formula.” -Line 171 – Please provide antibody dilutions for IHC. -Line 193 – How were ECL signals captured? Film or imager? Results: -On line graphs such as Figure 1C, different conditions are difficult to tell apart. Authors may wish to enlarge the symbols and/or use color. -Figure 3A – Please provide more info on the meaning of this panel, or else remove it. It may be sufficient to state in the text that these binding interactions are found in StarBase. -Figure 3D – The color in the legend seems off. Please verify labeling of conditions or consider use of color. -In Figures 4 and 6, it would be nice to compare the rescue by JMJD2C or ALKBH5 addback to control or si-NC treated cells. If these data are available, the authors may wish to include them. If not, they may wish to refer in the text to the degree of rescue and refer back to other figures where controls are present. -Figure 5A and 5B – The order of the legend and the bars on the plot differ. Given how hard the greys are to tell apart, please remedy this. -Why were JMJD2C overexpression studies not done in A2058 cells and added to Fig 5D? -Line 238 – The authors state that H3K9me3 is enriched at the ALKBH5 promoter, but their argument is that this mark is being removed. Is this simply residual and it was previously higher? This is confusing. -Lines 253 and 507– The phrase “stable low expression” is confusing. Consider “MIR205HG knockdown”. -Figure 7D going over two lines is awkward. Authors may wish to consider splitting it into three individual panels D-F and relabeling 5E as 5G. Discussion: -Lines 264 and 316 – Please break up these sentences into smaller parts. Excellent use of Fig. 8 however. -Line 293 – Similar to the note above re Line 238, the statement that H3K9me3 is enriched is confusing and seemingly contradicted in the next sentence. Please clarify. -Line 307 – Why was ALKBH5 protein level not analyzed? If possible/practical, including these data would add to the evidence already described. Figure Legends: -Line 459 – What is shown is not transfection efficiency but knockdown efficiency. -Are CCK-8 assays done with both biological and technical replicates? -Figure 4 and 6 titles – “by silencing MIR205HG” at the end of the sentence is misleading. Please revise. -Line 513 – the name of the statistical analysis used was omitted. Please revise. Reviewer #2: The study is generally interesting and performed in a logical thought. However, it could be further improved from the following aspects. 1. In many places such as Line 243-244 (JMJD2C reduced H3K9me3 enrichment in the ALKBH5 promoter 244 region and promoted ALKBH5 transcription.), the tone should be softer since the conclusion was just based on the correlation analysis and literature. The direct effect and relationship among JMJD2C, H3K9me3 and ALKBH5 were not proved by the experiments. 2. The language needs to be polished by some native speaker. 3. More original data such as CHIP, RIP should be provided as supplementary materials in the manuscript. ********** 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: Cai M. Roberts 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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The promotive role of lncRNA MIR205HG in proliferation, invasion, and migration of melanoma cells via the JMJD2C/ALKBH5 axis PONE-D-23-08794R1 Dear Dr. Yan, 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, Xiangning Zhang, M.D., Ph.D. Academic Editor PLOS ONE Additional Editor Comments (optional): Re.: The promotive role of lncRNA MIR205HG in proliferation, invasion, and migration of melanoma cells via the JMJD2C/ALKBH5 axis, by Lu Yan et al., Dear Dr. Yan, Thank you for submitting us your above-referenced manuscript for publication consideration. After two rounds of review, the questions raised during the peer reviews have been adequately responded, and the quality of it has attained to the level of publication. Currently, required number of reviews on the revision has arrived. After rexamining according to the criteria of publication proposed by Plos, a recommendation of acceptance is therefore advised to the editorial team. Should you have any question regarding your manuscript, please feel free in contacting me. Best, Xiangning Zhang, M.D., Ph.D. Academic Editor. 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 Reviewer #2: 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 Reviewer #2: Yes ********** 3. Has the statistical analysis been performed appropriately and rigorously? Reviewer #1: Yes Reviewer #2: 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 Reviewer #2: 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 Reviewer #2: 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: (No Response) Reviewer #2: (No Response) ********** 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: Cai M. Roberts Reviewer #2: No ********** |
| Formally Accepted |
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PONE-D-23-08794R1 The promotive role of lncRNA MIR205HG in proliferation, invasion, and migration of melanoma cells via the JMJD2C/ALKBH5 axis Dear Dr. Yan: 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. Xiangning Zhang Academic Editor PLOS ONE |
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