Peer Review History
| Original SubmissionFebruary 28, 2023 |
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PONE-D-23-05941Space-environment relationship in the identification of potential areas of expansion of Trypanosoma cruzi infection in Didelphis aurita in the Atlantic RainforestPLOS ONE Dear Dr. Xavier, 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 May 20 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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Thank you for stating the following in the Acknowledgments Section of your manuscript: "We would like to thank Bruno Alves Silva, Allison de Araújo Fabri, Vitor Antônio Louzada de Araújo (Laboratório de Biologia de Tripanosomatı́deos IOC/Fiocruz), Camila Lucio, Fernando de Oliveira Santos, and Sócrates Fraga da Costa Neto for the participation on the fieldwork expeditions, Dr. Paulo Sérgio D’Andrea and Bernardo Rodrigues Teixeira (Laboratório de Biologia e Parasitologia de Mamı́feros Silvestres Reservatórios, IOC/Fiocruz); to Carlos Ardé and Marcos Antônio dos Santos Limas (Laboratório de Biologia de Tripanosomatı́deos IOC/Fiocruz) for technical support in the hemocultures; we would like to thank the Núcleo de Entomologia e Malacologia from Espírito Santo state health department for providing the triatomine specimens and location information. We also thank Dr Gustavo Rocha Leite from Universidade Federal do Espírito Santo, who provided the Geobase coordinate database and a special thanks to Dr. Vera Bongertz for the English review." 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. 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: "Funding: this study was funded by Fundação Oswaldo Cruz (Fiocruz), Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq), Fundação Carlos Chagas Filho de Amparo à Pesquisa do Estado do Rio de Janeiro (FAPERJ), Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES). AR is financially supported by CNPq/Universal (425293/2018-1) and Jovem Cientistas do Nosso Estado/Faperj (E-26/202.794/2019). AJ is financially supported by CNPq (Bolsista de Produtividade, nı́vel 1A). SX has received financial support from CNPq (MCTIC/CNPq No. 28/2018 - Universal, process number 422489/2018-2), and JCNE/FAPERJ (E-26/201.314/2021), AR and SX Faperj (Apoio a Grupos Emergentes de Pesquisa no estado do Rio de Janeiro, process number E-26/010.002276/2019)." 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: Partly 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: No 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: No 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: Thank you for submitting your study to "Plos ONE". - page 5, line 196-198: I suggest using to obtain the best components among the variables. Please see the references: 1. (Triatomine and Trypanosoma cruzi discrete typing units distribution in a semi-arid area of northeastern Brazil: https://doi.org/10.1016/j.actatropica.2021.105950) and 2. (Co-occurrence or dependence? Using spatial analyses to explore the interaction between palms and Rhodnius triatomines - https://doi.org/10.1186/s13071-020-04088-0) - page 5, line 213-215: I suggest using the variables from Ambdata (http://www.dpi.inpe.br/Ambdata/English/index.php) and MapBiomas (https://mapbiomas.org/). - page 5, line 201: Put the script used in Google Earth Engine. - page 6, line 216-220: Which MODIS product was used? Was a general average calculated for the period studied, or was it calculated by year or by month? If you have used it per year or per month, I suggest using the PCA. - page 6, line 239: Describe modeling M1, M2, M3, M4 and M5 or put a reference (table S2). - page 18, line 423-442: I suggest using Principal Components Analysis (PCA) to obtain the best components among the variables. - page 23, line 573: What are these restrictions? - page 23, line 584-585: Example to use data from mapbiomas. - page 24, line 608-609: Example to use the NDVI PCAs. Figure and Table - Put the caption of Figures 4 and 6 on the same scale (0 - 1). - I recommend placing the caption inside figure 9, as it was done in figure 10. This improves the quality of the images/figures. - Tables S3, S4, S5 and S6 could be grouped into a single table identifying the relative columns for each variable/group of variables. - Put the classes in Tables S7 and S8 in English. I also missed the elevation variable (derived from the SRTM), as the altitude effect in the Atlantic Rainforest can represent an obstacle to the existence of opossums/vectors/parasites. My suggestion is that this treatment (PCA) be done before making the models. Reviewer #2: This is a modelling study about the ecological niches of multiple species involved in the transmission of T. cruzi in the Brazilian Atlantic forest biome. The methods are carefully thought and well described, with some specific exceptions that I detail below. The results are original and relevant, but their presentation and discussion can be significantly improved by a major revision of the text. As a reader, I found the text hard to read, which hinders the communication of the main results. My main concern about the methods is the Ecoland approach. I do not think that its results add much to the whole interpretation of the study, at least not in the current version of the manuscript. The maps on figures 9 and 10 have too many different categories and colours, making it hard to summarise any clear message out of them. The main objective of the study (as stated in the abstract) is achieved by the other results and is properly covered in most of the Discussion, whilst the Ecoland approach is only mentioned in the very last sentences of the section. I suggest rewriting a stronger justification to maintain its results. Aggregating the model outputs by municipality can be extremely relevant to decision-makers, but given the high number of municipalities, it is hard to summarise it in a single map. I suggest keeping them only as supplementary files, as they already are in S7 and S8 tables. Specific suggestions (line numbers from the pdf version): 14-15: This sentence implies that the authors modelled the niche of the parasite, which does not seem to be the objective of the study. 72: Jansen et al. (missing ref) 91: Be careful with the concept of model extrapolation (here and throughout the text). The general ENM approach aims at prediction within the ranges of the variables in the training set. Whether or not strict extrapolation occurs, it depends on the choice of algorithm and the whole modelling approach. See Qiao et al. 2018 (https://doi.org/10.1111/ecog.03986) for clarification. 182: Please describe the criteria for establishing the radii for each species. 199: Please describe the method to assess the Pearson's correlation? (by using the full set or a sub-selection of pixel values) 225-233: Consider rewriting this paragraph for a better description of the method. Were the occurrences artificially selected if they were associated with NDVI values above 0.2? 239: There is no mention of these acronyms elsewhere in the text. Explain what those models are. 239-241: Give more information about the variance partition procedure. Was this done over the final ensemble models? How to assess variable contribution in the ensemble models, after the predictions were averaged? 550 and 565: Review missing symbol font 552-553: If model extrapolation was not specifically assessed, this could be the correct prediction from the models. 559: Same as before, maybe change “extrapolated” to “predicted” 598-600: This sentence would be better suited in the Results section. 702-710: Rewrite for clarity. * Overall Discussion section: I recommend adding references to figures when a specific result is being discussed. Fig 1: "DB" is mentioned in the legend, but it is not in the figure. Fig 5: What does the vertical red line represents? Please describe it in the legend. Fig 8: This figure is hard to interpret, given the lack of details about the partition of variance method. What does the values in the intersection between variables mean? What is the difference between an empty intersection and the 0.00 value? Figs 9 and 10: Too many categories/colours make it hard to summarise or extract any spatial trends from these figures Supplementary files: Consider adding titles and legends to all tables inside the files. S2 Table: Did the climatic models (M2) include NDVI and the environmental distances? This would be contradictory with S1 Fig and some parts of the text. Reviewer #3: This is an interesting and well written manuscript. This work is well addressed and the subject is clearly relevant to the journal. The data collected represent a very impressive and interesting dataset, the models are compelling and the results are original and clearly. The outcomes could contribute to a better understanding of T. cruzi transmission in disturbed environments, where generalist reservoirs such as D. aurita are abundant (see attachment for comments). ********** 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 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. 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| Revision 1 |
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Space-environment relationship in the identification of potential areas of expansion of Trypanosoma cruzi infection in Didelphis aurita in the Atlantic Rainforest PONE-D-23-05941R1 Dear Dr. Xavier, 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, Everton Falcão de Oliveira, Ph.D Academic Editor PLOS ONE Additional Editor Comments (optional): 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 ********** 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 ********** 3. Has the statistical analysis been performed appropriately and rigorously? Reviewer #1: 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 ********** 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 ********** 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: Thank you for submitting your study to "Plos ONE". All comments have been addressed. The only one that wasn't realized was a suggestion (about PCA). ********** 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: No ********** |
| Formally Accepted |
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PONE-D-23-05941R1 Space-environment relationship in the identification of potential areas of expansion of Trypanosoma cruzi infection in Didelphis aurita in the Atlantic Rainforest Dear Dr. Xavier: 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. Everton Falcão de Oliveira Academic Editor PLOS ONE |
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