Potato (Solanum tuberosum L.) tuber-root modeling method based on physical properties

Ping Zhao; Yue Tian; Yongkui Li; Guofa Xu; Subo Tian; Zichen Huang

doi:10.1371/journal.pone.0239093

Peer Review History

Original SubmissionMay 28, 2020
17 Jul 2020 Decision Letter - Moumita Gangopadhyay, Editor PONE-D-20-16069 Potato (Solanum tuberosum L.) Tuber-Root Modeling method Based on Physical Property PLOS ONE Dear Dr. Subo Tian, 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 Aug 31 2020 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. 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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, Moumita Gangopadhyay Academic Editor PLOS ONE Additional Editor Comments: Dear Professor Subo Tian, Reviewers have now commented on your paper. The paper contains interesting predictive model on potato tuber-root system and very important field of research and here authors have written the paper in an intelligent fashion. However, after reviewing the reviewer’s comments, I make this decision that this paper is not accepted in current form. If the authors are prepared to undertaken the revision required to satisfy all of these following comments, I would be pleased to reconsider my decision: 1. This manuscript needs extensively checking for English language and grammar improvement. It needs your careful reading to be certain that the meaning remained unchanged. 2. Double check all citations against the references list and vice versa with particular attention to matching publication year. 3. In section “3.3.2. Data processing and analysis”, although the method was described clearly, only the result of distributed probability P of initial axial angle APz in the range were given in this paper, others are established with characterization parameter databases. Please do the needful and format your paper according to the template and policy of PLOS. 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 https://journals.plos.org/plosone/s/file?id=ba62/PLOSOne_formatting_sample_title_authors_affiliations.pdf 2. We note that you have indicated that data from this study are available upon request. PLOS only allows data to be available upon request if there are legal or ethical restrictions on sharing data publicly. For more information on unacceptable data access restrictions, please see http://journals.plos.org/plosone/s/data-availability#loc-unacceptable-data-access-restrictions. In your revised cover letter, please address the following prompts: a) If there are ethical or legal restrictions on sharing a de-identified data set, please explain them in detail (e.g., data contain potentially sensitive information, data are owned by a third-party organization, etc.) and who has imposed them (e.g., an ethics committee). Please also provide contact information for a data access committee, ethics committee, or other institutional body to which data requests may be sent. b) If there are no restrictions, please upload the minimal anonymized data set necessary to replicate your study findings as either Supporting Information files or to a stable, public repository and provide us with the relevant URLs, DOIs, or accession numbers. For a list of acceptable repositories, please see http://journals.plos.org/plosone/s/data-availability#loc-recommended-repositories. We will update your Data Availability statement on your behalf to reflect the information you provide. 3. Thank you for stating the following in the Acknowledgments Section of your manuscript: 'The authors gratefully acknowledge the financial support provided by the National Natural Science Foundation of China (NSFC)（51505305）.' We note that you have provided funding information that is not currently declared in your Funding Statement. However, funding information should not appear in the Acknowledgments section or other areas of your manuscript. We will only publish funding information present in the Funding Statement section of the online submission form. a. Please remove any funding-related text from the manuscript and let us know how you would like to update your Funding Statement. Currently, your Funding Statement reads as follows: 'No' b. Please include your amended statements within your cover letter; we will change the online submission form on your behalf. [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 Reviewer #3: Yes ******** 2. Has the statistical analysis been performed appropriately and rigorously? Reviewer #1: Yes Reviewer #2: Yes Reviewer #3: 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: Yes Reviewer #3: 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 Reviewer #3: 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: The paper contains interesting predictive model on potato tuber-root system. The quality of the research work presented in the paper is very good. The paper is scientifically sound. However, In conclusion part explanation of the result obtain in model validation will be much appreciated. Reviewer #2: Tuber root modelling studies are very important field of research and here authors have written the paper in an intelligent fashion. also the data furnished are sufficient.Hence this paper can be accepted. Reviewer #3: This paper mainly studied a method of 3D model construction of the potato tuber root system based on physical properties, which is important and difficult. So, this research is relatively innovative. Experiment results show that the proposed method has good performance. The research work is suggestive and the point of view is worthy of researching. Data and analysis are enough to support conclusions. However, for the benefit of reader, some revisions are needed in this paper, there are given below. First, some sentences contain grammatical and spelling mistakes, such as the title ”........Physical Property”, I think that “Property” should be “Properties”, et al . in addition, the same expression should be consistent, such as “early maturing” in abstract and “early-maturing” in text. Please check and correct carefully at revision, and pay more attention to English grammar and sentence structure. Second, in section “3.3.2. Data processing and analysis” , although the method was described clearly, only the result of distributed probability P of initial axial angle APz in the range were given in this paper, others are established with characterization parameter databases. But the characterization parameter databases weren’t provide as appendix table, Add or not, please according to the editor's request. I think the data are full and perfect, because you(the authors ) said “The data used to support the findings of this study are available from the corresponding author upon request” when you submit the manuscript. Finally, There are errors in writing, such as , in row 235th and 236th, A (x1, y1, z1) should be A(x1, y1, z1), B (x1, y1 + l, z1) should be B(x1, y1+l, z1), et al. Please check and correct carefully at revision. Format your paper according to the template and policy of PLOS. ****** 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:** Arpita Das Reviewer #2: No Reviewer #3: 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. https://doi.org/10.1371/journal.pone.0239093.r001
Revision 1
14 Aug 2020 Author Response Dear editor and reviewers: Thank you for your comments concerning our manuscript entitled “Potato (Solanum tuberosum L.) tuber-root modeling method based on physical properties”. (ID: PONE-D-20-16069). Those comments are all valuable and extremely helpful for revising and improving our paper. We studied the comments carefully, and made corrections and improvement which we hope meet with approval. The main changes are in the manuscript and the responses to the reviewers’ comments are as follows. Additional Editor Comments: 1. This manuscript needs extensively checking for English language and grammar improvement. It needs your careful reading to be certain that the meaning remained unchanged. Response1:We extensively checking for English language and grammar improvement with the help of Editage (www.editage.cn), and meaning remained unchanged. 2.Double check all citations against the references list and vice versa with particular attention to matching publication year. Response2:We modified the reference using Zotero, and checked citations with the format on webpage (https://journals.plos.org/plosone/s/submission-guidelines). 3. In section “3.3.2. Data processing and analysis”, although the method was described clearly, only the result of distributed probability P of initial axial angle APz in the range were given in this paper, others are established with characterization parameter databases. Please do the needful and format your paper according to the template and policy of PLOS. Response3:We provided the other characterization parameters in Supporting Information file. Journal requirements: 1.Please ensure that your manuscript meets PLOS ONE's style requirements, including those for file naming. Response1:We revised the manuscript’s style according to the PLOS ONE style templates. 2.We note that you have indicated that data from this study are available upon request. PLOS only allows data to be available upon request if there are legal or ethical restrictions on sharing data publicly. For more information on unacceptable data access restrictions, please see http://journals.plos.org/plosone/s/data-availability#loc-unacceptable-data-access-restrictions. In your revised cover letter, please address the following prompts: a) If there are ethical or legal restrictions on sharing a de-identified data set, please explain them in detail (e.g., data contain potentially sensitive information, data are owned by a third-party organization, etc.) and who has imposed them (e.g., an ethics committee). Please also provide contact information for a data access committee, ethics committee, or other institutional body to which data requests may be sent. b) If there are no restrictions, please upload the minimal anonymized data set necessary to replicate your study findings as either Supporting Information files or to a stable, public repository and provide us with the relevant URLs, DOIs, or accession numbers. For a list of acceptable repositories, please see http://journals.plos.org/plosone/s/data-availability#loc-recommended-repositories. We will update your Data Availability statement on your behalf to reflect the information you provide. Response2:We are very sorry for our wrong input (“No-some restirictions will apply”) when we submitted the manuscript. The reason is that we didn’t understanding the explanations well. We should input as follow: Yes - all data are fully available without restriction. As well as we provide the supporting data according to the requirement of the “Additional Editor Comments” as Supporting information file. Please you decide Whether the data is published in the manuscript as an appendix. 3.Thank you for stating the following in the Acknowledgments Section of your manuscript: 'The authors gratefully acknowledge the financial support provided by the National Natural Science Foundation of China (NSFC)（51505305）.' We note that you have provided funding information that is not currently declared in your Funding Statement. However, funding information should not appear in the Acknowledgments section or other areas of your manuscript. We will only publish funding information present in the Funding Statement section of the online submission form. a. Please remove any funding-related text from the manuscript and let us know how you would like to update your Funding Statement. Currently, your Funding Statement reads as follows: 'No' b. Please include your amended statements within your cover letter; we will change the online submission form on your behalf. Response3:We removed the funding-related text from the manuscript. We would like to update our funding statement on the webpage. Our Funding Statement should be “Yes”. Please help us to change the online submission as follow. 4.Financial Disclosure. Enter a financial disclosure statement that describes the sources of funding for the work included in this submission. Review the submission guidelines for detailed requirements. View published research articles from PLOS ONE for specific examples. This statement is required for submission and will appear in the published article if the submission is accepted. Please make sure it is accurate. Response4:The present work is financially supported the National Natural Science Foundationof China(NSFC) of Zhao Ping, and the grant mumber is 51505305. Zhao Ping had an important role in the study design, data collection and analysis, decision to publish, and preparation of the manuscript. Reviewer #1: 1.The paper contains interesting predictive model on potato tuber-root system.The quality of the research work presented in the paper is very good. The paper is scientifically sound. Response1:We appreciate the reviewer’s view of the article. 2.However, In conclusion part explanation of the result obtain in model validation will be much appreciated. Response2:We supplemented some explanation of the result in section “Conclusion”, and marked in red in the file named “Revised Manuscript with Track Changes”. Reviewer #2: 1.Tuber root modelling studies are very important field of research and here authors have written the paper in an intelligent fashion. also the data furnished are sufficient. Hence this paper can be accepted. Response1:We appreciate the reviewer’s view of the article. Reviewer #3: 1.This paper mainly studied a method of 3D model construction of the potato tuber root system based on physical properties, which is important and difficult. So, this research is relatively innovative. Experiment results show that the proposed method has good performance. The research work is suggestive and the point of view is worthy of researching. Data and analysis are enough to support conclusions. However, for the benefit of reader, some revisions are needed in this paper, there are given below. Response1:We appreciate the reviewer’s view of the article. 2.First, some sentences contain grammatical and spelling mistakes, such as the title ”........Physical Property”, I think that “Property” should be “Properties”, et al . in addition, the same expression should be consistent, such as “early maturing” in abstract and “early-maturing” in text. Please check and correct carefully at revision, and pay more attention to English grammar and sentence structure. Response2:We replaced “Property” with “Properties”,and replaced “early-maturing” with “early maturing”. in addition, we extensively checked English language and grammar and revised them. 3.Second, in section “3.3.2. Data processing and analysis” , although the method was described clearly, only the result of distributed probability P of initial axial angle APz in the range were given in this paper, others are established with characterization parameter databases. But the characterization parameter databases weren’t provide as appendix table, Add or not, please according to the editor's request. I think the data are full and perfect, because you(the authors ) said “The data used to support the findings of this study are available from the corresponding author upon request” when you submit the manuscript. Response3:We provided all the characterization parameter data as a supporting information file. We obey the editor's arrangement, data are fully available without any restriction, and we would like to make the data public. 4.Finally, There are errors in writing, such as , in row 235th and 236th, A (x1, y1, z1) should be A(x1, y1, z1), B (x1, y1 + l, z1) should be B(x1, y1+l, z1), et al. Please check and correct carefully at revision. Response4:We modified as “Supposing that the starting node of a root is A(x1, y1, z1), and the original growth trajectory is to grow a unit length l along the Y axis to the point of B(x1, y1 + l, z1)…” and checked carefully all the text and corrected the errors in writing. 5.Format your paper according to the template and policy of PLOS. Response5:We already format our paper according to the given template and policy of PLOS. We tried our best to improve the manuscript and made some changes in the manuscript. These changes will not influence the content and framework of the paper. And here we did not list the changes but marked in red in revised paper. We appreciate for Editors/Reviewers’ warm work earnestly, and hope that the correction will meet with approval. Once again, thank you very much for your comments and suggestions. Thank you and best regards. Yours sincerely, Professor Subo Tian tiansubo@syau.edu.cn College of Engineering, Shenyang Agricultural University Attachments Attachment Submitted filename: Response to Reviewers(PONE-D-20-16069).docx https://doi.org/10.1371/journal.pone.0239093.r002
31 Aug 2020 Decision Letter - Moumita Gangopadhyay, Editor Potato (Solanum tuberosum L.) tuber-root modeling method based on physical properties PONE-D-20-16069R1 Dear Dr. Tian, 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, Moumita Gangopadhyay Academic Editor PLOS ONE Additional Editor Comments (optional): Thank you very much for answering all the comments made by the reviewers. The necessary modifications of the manuscript now seem appropriate in terms of scientific means and also English language corrections. Therefore, I am happy to inform you that this paper can be accepted in the current form for publications. Thank you again for choosing this journal for your valuable manuscripts. Reviewers' comments: https://doi.org/10.1371/journal.pone.0239093.r003
Formally Accepted
8 Sep 2020 Acceptance Letter - Moumita Gangopadhyay, Editor PONE-D-20-16069R1 Potato (Solanum tuberosum L.) tuber-root modeling method based on physical properties Dear Dr. Tian: 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. Moumita Gangopadhyay Academic Editor PLOS ONE https://doi.org/10.1371/journal.pone.0239093.r004

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