ATRA

Writing and Formatting

File Format

We require you to provide the editable source files for the entire submission, including images, tables, and text graphics. Here are some guiding principles:
Save the file in editable format, using the extension. doc/. docx for Word files and. tex for LaTeX files. PDF is not an acceptable source file.
Arrange text in a single column format.
Use spell checking and grammar checking functions to avoid errors.
We suggest that you read our publication step-by-step guide.

Double Anonymous Peer Review

This journal follows a dual anonymous review process, which means that the author's identity is hidden from the reviewers, and vice versa. In order to facilitate the dual anonymous review process, we require you to provide a title page (including author details) and an anonymous manuscript (excluding author details) separately in the submitted article.
The title page should include:
Article Title
Author's Name
Affiliated Institution
thank
Declaration of Interest
Corresponding author address (complete address required)
Corresponding author email address
Anonymous manuscripts should include the main body of the paper, which includes:
reference resources
character
form
thank
Importantly, your anonymous manuscript does not contain any identifying information, such as the author's name or affiliation.
Read more information about peer review.

Cover

You need to include the following detailed information in the title page information:
Article title. The article title should be concise and clear. Please avoid using abbreviations and formulas as much as possible unless they are established and widely understood, such as DNA.
Author's name. Provide the name and surname of each author. The order of authors should be consistent with the order in the submission system. Carefully check the spelling of all names for accuracy. If necessary, you can add your name in parentheses using your own script after transliterating in English.
Affiliated institutions. Add the address of the affiliated institution below the author's name to indicate the location of the work. Use lowercase superscripts after the author's name and before the corresponding address to indicate affiliated institutions. Ensure to provide the complete postal address of each affiliated institution, including the country name, as well as the email address of each author (if available).
Corresponding author. Clearly indicate who will be responsible for handling the communication of your article at all stages of the review and publication process, as well as after publication. This responsibility includes answering any future questions regarding your results, data, methods, and materials. During the submission and publication process, it is essential to keep the corresponding author's email address and contact information up-to-date.
Current/permanent address. If the author moves after completing the work described in the article, or if the author has visited during this period, the "current address" (or "permanent address") can be indicated in a footnote to the author's name. The address where the author completes the work must be retained as their primary affiliation address. Use superscript Arabic numerals in footnotes.

Abstract

You need to provide a concise and factual summary. The abstract should briefly explain your research objectives, main results, and main conclusions. Here are some guiding principles:
The abstract must be able to exist independently, as it is usually presented separately from the article.
Avoid referencing. If citation is necessary, please make sure to indicate the author and year.
Avoid using non-standard or uncommon abbreviations. If any abbreviations must be included, please ensure that they are defined when first mentioned in the abstract.

Key Word

You need to provide 1 to 7 keywords for indexing. Keywords should be written in English. Please try to avoid using keywords composed of multiple words (such as "and" or "of").
We recommend that you only use abbreviations when they are firmly established in the keyword field.

Emphasize

You need to provide the highlights of the article when submitting.
The key is a brief collection of key points, which should record your new research findings and any new methods used during the research period. The focus will help improve the discoverability of your article on search engines. Here are some guiding principles:
Submit the highlights as a separate editable file to the online submission system, with the file name containing the words' highlights'.
The key points should consist of 3 to 5 key points, with each point having a maximum of 85 characters (including spaces).
We encourage you to review the highlights of the example article and understand the benefits of including them.

Graphic Overview

We encourage you to provide a graphical summary when submitting.
The graphic abstract should summarize the content of the article in a concise graphic form, aiming to attract the attention of a wide range of readers. A graphical summary will help attract more attention to your online article and assist readers in digesting your research. Here are some guiding principles:
Submit your graphic summary as a separate file to the online submission system.
Ensure that the image is at least 531 x 1328 pixels (height x width) or proportionally larger, and can be read at a regular screen resolution of 96 dpi in a size of 5 x 13 centimeters.
Our preferred graphic summary file types are TIFF, EPS, PDF, or MS Office files.
We encourage you to review the example graphic summary and understand the benefits of including it.

Form

The form must be submitted in editable text format, not in image format. Here are some guidelines:
Place the table next to the relevant text or on a separate page at the end of the article.
Cite all tables in the main text of the manuscript.
Number the tables consecutively according to their order of appearance in the text.
Please provide the title attached to the table.
Place any desktop annotations under the table.
Avoid using vertical rules and shadows within table cells.
We suggest that you use the table with caution to ensure that any data displayed in the table does not duplicate the results described elsewhere in the article.

Graphics, Images, and Artworks

Charts, images, illustrations, charts, and other graphic media must be provided as separate files with the manuscript. We suggest that you read our detailed illustrations and media instructions. Here are some excerpts:
When submitting a work:
Cite all images in the main text of the manuscript.
Number the images in the order they appear in the article.
Submit each image as a separate file and use the logical naming convention of the file (e.g. Figure1, Figure2, etc.).
Please provide a title along with the artwork.
Text graphics can be embedded in appropriate positions within the text. If you are using LaTeX, text graphics can also be embedded into the file.

Artwork Format

After your work is completed, please "save as" or convert your electronic work to the format listed below, taking into account the given resolution requirements for line drawings, half tones, and line/half tone combinations:
Vector graphics: Save as EPS or PDF files with embedded fonts, or save text as "graphics".
Color or grayscale photos (half tone): Save as TIFF, JPG, or PNG files with a resolution of at least 300 dpi (single column: minimum 1063 pixels, full page width: 2244 pixels).
Bitmap line drawing: Save as a TIFF, JPG, or PNG file with a resolution of at least 1000 dpi (single column: minimum 3543 pixels, full page width: 7480 pixels).
Combination bitmap lines/half tones (color or grayscale): Save as TIFF, JPG, or PNG files with a resolution of at least 500 dpi (single column: minimum 1772 pixels, full page width: 3740 pixels).
Please do not submit:
Files with low resolution (such as GIF, BMP, PICT, or WPG files optimized for screen use).
Compared to font size, images that are too large can result in unreadable text.

Illustration

All images must have a title. The title should consist of a brief title (not displayed on the graphic itself) and a picture caption. We suggest that you keep the amount of text in the image to a minimum, but explain any symbols and abbreviations used.
Provide a title in a separate file.

Colorful Works

If you submit available color charts along with the accepted article, we will ensure that they are displayed in color online.
Please ensure that color images are accessible to everyone, including those with color vision impairments. Learn more about colors and webpage accessibility.
For printed articles, after your accepted article is submitted to the production department, you will receive information regarding the cost of color reproduction for the printed version. At this stage, please indicate whether you would like the online version of the article to only display color, or if the printed version should also display color.

Generative Artificial Intelligence and Graphics, Images, and Artworks

Please read our policy on the use of generative artificial intelligence and AI assisted tools in graphics, images, and artworks, which states:
We do not allow the use of generative artificial intelligence or AI assisted tools to create or modify images in submitted manuscripts.
The only exception is if the use of artificial intelligence or AI assisted tools is part of the research design or methodology (e.g. in the field of biomedical imaging). If this is the case, such usage must be described in a reproducible manner in the methods section, including the name, version, and extension number of the model or tool, as well as the manufacturer.
It is not allowed to use generative artificial intelligence or AI assisted tools to create art pieces such as image summaries. In some cases, if the author has obtained prior permission from the journal editor and publisher, can prove that all necessary rights to use the relevant materials have been obtained, and ensure that the content belongs correctly, it may be allowed to use generative artificial intelligence to create cover art.

Supplementary Materials

We encourage the use of supplementary materials such as applications, images, and sound clips to enhance research. Here are some guiding principles:
Cite all supplementary documents in the main text of the manuscript.
Please also submit supplementary materials when submitting the article. Please note that all supplementary materials provided will be displayed online in the exact same file type as the received file. The production team will not format or typeset these files.
Add concise descriptive titles to each supplementary document to describe its content.
If you wish to make changes to the submitted supplementary materials at any stage of the publishing process, please provide updated documents.
Please do not comment or correct previous versions of supplementary documents.
Turn off the option to track changes in Microsoft Office files. If tracking changes are kept, they will be displayed in the published version.
We suggest that you upload the research data to a suitable professional or general repository. Please read our guide on sharing research data to learn more about storing, sharing, and using research data and other related research materials.

Video

This journal accepts video materials and animated sequences to support and enhance your scientific research. We encourage you to include links to video or animation files in your article. Here are some guiding principles:
When including links to video or animation files in an article, please add comments on the file placement location in the text to reference the video or animation content.
Clearly label the file to ensure that the given file name is directly related to the file content.
Provide a file in one of our recommended file formats. The file size should be within our preferred range, with a maximum file size of 150 MB per file, totaling 1 GB.
Provide 'static images' for each file. These images will be used as standard icons to personalize links to video data. You can select any frame from the video or animation, or create a separate image.
Provide text (electronic and printed) and place it in the section of the article that references video content. This is a necessary text as video and animation files cannot be embedded in the printed version of the journal.
We have released all the video and animation files provided in the electronic version of your article.
For more detailed instructions, we recommend that you read the guidelines on submitting video content for inclusion in the main body of the article.

Research Data

We are committed to supporting the storage, access, and discovery of research data, and our research data policy outlines principles that guide us on how to collaborate with the research community to support more efficient and transparent research processes.
Research data refers to observations or experimental results that validate research findings, and may also include software, code, models, algorithms, protocols, methods, and other useful materials related to the project.
Please read our guide on sharing research data for more information on storing, sharing, and using research data and other related research materials.
For this journal, the following instructions in our research data guidelines apply.

Option C: Save, cite, and link research data

You need:
Your research data is stored in the relevant data repository.
Please cite and link to this dataset in your article.
If not possible, please make a statement explaining why research data cannot be shared.

Data Declaration

To improve transparency, you need to indicate the availability of any data when submitting.
Ensuring data availability may be a requirement of your funding agency or institution. If your data is inaccessible or unsuitable for publication, you can explain the reason during the submission process (for example, if your research data contains sensitive or confidential information, such as patient data). This statement will appear together with your article published on ScienceDirect.
Read more about the importance and benefits of providing data statements.

Data Link

Linking to the foundational data of your work will increase your exposure and may lead to new collaborations. It can also help readers better understand the described research.
If your research data is already available in a data repository, you can link your article directly to the dataset in multiple ways:
When prompted during the online submission process, provide a link to the dataset.
For certain data repositories, repository banners will automatically appear next to the articles you publish on ScienceDirect.
You can also link relevant data or entities in the article text by using identifiers. Use the following format: Database: 12345 (e.g. TAIR: AT1G01020； CCDC：734053； PDB：1XFN）。
Learn more about linking research data and articles in ScienceDirect.

Research Elements

This journal can publish research objects (such as data, methods, protocols, software, and hardware) related to the original research in the journal's research elements.
Research Elements is a peer-reviewed open access journal that allows research subjects to be searched, accessed, and reused. By providing detailed descriptions of the object and its applications, as well as links to the original research article, your research object can be placed in the context of the article.
During the submission period, you will receive notification and have the opportunity to submit to one of the Research Elements journals. Your Research Elements article can be written by yourself or your collaborators.

Article Structure

Introduce

The introduction should clearly state your research objectives. We suggest that you provide sufficient research background, but do not write detailed literature summaries or abstracts of research results.

Materials and Methods

The Materials and Methods section should provide sufficient detailed information about the materials and methods so that independent researchers can replicate your work. Here are some guiding principles:
If the method you are using has already been published, please provide an abstract and cite the originally published method.
If you directly quote a previously published method, please use quotation marks and indicate the source.
Describe any modifications you have made to the existing methods.

Result

The results should be clear and concise. We suggest that you read the sections in this guide regarding providing tables, illustrations, supplementary materials, and sharing research data.

Discuss

The discussion section should explore the significance of the results, but not repeat them. If appropriate, you can merge the results and discussion sections into one section. We suggest that you avoid extensively citing and discussing published literature in the discussion section.

Conclusion

The conclusion section should introduce the main findings of the study. You can have a separate conclusion section, or you can include the conclusion in a sub section of the discussion or results and discussion section.

Glossary

Please provide definitions of specific domain terms used in the article in a separate list.

Abbreviation

Abbreviations that are not standard in this field should be defined in the footnote on the first page of the article.
The abbreviations that must be included in the abstract should be defined when first mentioned in the abstract and in the footnote on the first page of the article.
Before submitting, we suggest that you check the use of abbreviations throughout the entire article to ensure consistency.

Footnote

We suggest that you use footnotes with caution. If you add footnotes to the article, please ensure that the footnotes are numbered consecutively.
You can use the system function to automatically embed footnotes into the text. Alternatively, you can indicate the position of the footnote in the text and display it in a separate section at the end of the article.

Thank

List any individuals who have provided assistance during the research process (such as language, writing, or proofreading) in the acknowledgements section. Due to the dual anonymous peer review process followed by this journal, acknowledgements are only listed on the title page. Please do not add it as a footnote to the title.

Author contribution: CRediT

Corresponding authors need to use CRediT (Contributor Role Classification) roles to acknowledge the contributions of co authors:
conceptualization
data management
Formal analysis
Funding acquisition
investigation
method
project management
resources
Software
supervise
verification
visualization
Writing - Original Draft
Writing - Review and Editing
Not all CRediT roles are applicable to every manuscript, and some authors may contribute through multiple roles.
We suggest that you read more information about CRediT and see examples of CRediT author statements.

Source of Funds

The author must disclose any funding sources that provide financial support for conducting research and/or writing articles. The role of sponsors in research design, data collection, analysis and interpretation, report writing, and submission of article publication decisions should be explained (if any). If the funding source is not involved, it should be stated in the submitted article.
List funding sources in this standard manner to facilitate compliance with funder requirements:
Funding: This work was supported by the National Institutes of Health [grant number xxxx, yyyy], the Bill and Melinda Gates Foundation in Seattle, Washington [grant number zzzz], and the United States Institute of Peace [grant number aaaa].
No need to provide a detailed description of the project or the types of grants, scholarships, and awards. When funding comes from a lump sum grant or other resource from a university, college, or other research institution, please submit the name of the institution or organization providing the funding.
If the research does not receive funding support, it is recommended to add the following sentence:
This study did not receive any specific funding from public, commercial, or non-profit funding agencies.
 

Appendix

We require you to use the following format as an appendix:
Use the following format to identify each appendix in the article: A, B, etc.
The formulas and equations in the appendix should be numbered separately in the format of Eq. (A.1), Eq. (A.2), etc. Subsequent formulas and equations in the appendix should be numbered separately in the format of Eq. (B.1), Eq. (B.2), etc. Similarly, tables and graphics should be numbered separately in the format of Table A.1, Figure A.1, etc.

Reference Resources

Reference Format

Some guiding principles:
If applicable, it must include the author's name, journal or book title, chapter or article title, publication year, volume number, article number or page number.
Suggest using DOI.
After your paper is accepted, we will use our journal reference format for the stage at school. If necessary, we will request you to correct or provide any missing reference data at this stage.
Quoted in the text
Any references cited in the article should also appear in the reference list, and vice versa. Here are some guiding principles:
The references cited in the abstract must be provided in their entirety.
We suggest that you do not include unpublished results and personal communications in the reference list, although you can mention them in the body of the article.
Any unpublished results and personal communications included in the reference list must follow the journal's standard reference format. Add 'unpublished results' or' personal communication 'after the publication date.
The reference 'in printing' indicates that the work has been accepted for publication.
Linking to cited sources will increase the discoverability of your research.
Before submission, please check if all data provided in the reference list is correct, including any copied references. Providing accurate reference data enables us to link to summary and indexing services such as Scopus, Crossref, and PubMed. Any incorrect surname, journal or book name, publication year, or page number in the references may result in the inability to create links.
We encourage the use of digital object identifiers (DOIs) as reference links, as they provide permanent links to the referenced electronic articles. Please refer to the example below, but please note that the format of such citations should be adapted to the style of other references in the paper.
DOI link example (for unpublished articles):
VanDecar JC, Russo RM, James DE, Ambeh WB, Franke M. (2003). The earthquake resistance of the Lesser Antilles plate beneath northeastern Venezuela continues. Journal of Geophysical Research, https://doi.org/10.1029/2001JB000884 .

Reference Style

Please format the references according to the following example:
Use numbers within square brackets in the text to indicate references. You can cite the author's name in the text, but you must always provide a reference number, for example, "as shown in [3,6]. Barnaby and Jones [8] obtained different results...".
Number the references in the order they appear in the article.
example:

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Reference journal publications:

[1] J. van der Geer、T. Handgraaf、RA Lupton， The Art of Writing Scientific Articles, 《J. Sci. Commun.》163 (2020) 51 – 59。 https ://doi.org/10.1016/j.sc.2020.00372。

Reference journal publication and its article number:

[2] J. van der Geer、T. Handgraaf、RA Lupton， In 2022. The Art of Writing Scientific Articles. Heliyon。 19， e00205。 https ://doi.org/10.1016/j.heliyon.2022.e00205。

Refer to a book:

[3] W. Strunk Jr.、EB White， Elements of Style, Fourth Edition, Longman, New York, 2000.

Quoted chapters from the book:

[4] GR Mettam、LB Adams， How to Prepare an Electronic Version of an Article ", published in BS Jones and RZ Smith (eds.)," Introduction to the Electronic Age ", E-Publishing Inc.， New York, 2020, pages 281-304.

Refer to a website:

[5] Cancer Research UK, Cancer Statistics Report UK. http ://www.cancerresearchuk.org/aboutcancer/statistics/cancerstatsreport/， 2023 (visited on March 13, 2023).

Quoting a dataset:

[6] M. Oguro, S. Imahiro, S. Saito, T. Nakashizuka,  The mortality data of Japanese oak wilt disease and its surrounding forest components [dataset], Mendeley Data, v1,  In 2015. https ://doi.org/10.1234/abc12nb39r.1。

Reference software:

[7] E. Coon、M. Berndt、A. Jan、D. Svyatsky、A. Atchley、E. Kikinzon、D. Harp、G. Manzini、E. Shelef、K. Lipnikov、R. Garimella、C. Xu、D. Moulton、S. Karra、S. Painter、E. Jafarov、S. Molins， Advanced Land Simulator (ATS) v0.88 (version 0.88) [software], Zenodo， March 25th, 2020. https://doi.org/10.1234/zenodo.3727209 .

Journal abbreviation 

We require you to abbreviate the journal name based on the List of Abbreviations for Title Words (LTWA).

Network reference

When listing online references, at least the complete URL and the date of the last visit to the reference should be provided. If known, additional information should be provided (such as DOI, author name, date, or citation to the source publication).
You can list the online references separately under the new title after the reference list, or include them in the reference list.

Data reference

We encourage you to cite basic or relevant datasets in your article text and list data references in the reference list.
When referencing data, it should include:
Author's Name
Dataset Title
Data repository
Version (if any)
year
Global persistent identifier
Add [dataset] immediately before referencing. This will help us correctly identify the dataset. [Dataset] The identifier will not appear in your published articles.

Preprint References

We require you to clearly label the preprint. You should include the term 'preprint' or the name of the preprint server in the references and provide the preprint DOI.
If the preprint is subsequently published as a peer-reviewed publication, please use the official publication as a reference.
If there are preprints that are crucial to your work or cover key developments on the topic, but have not yet been officially published, you can refer to preprints.

Reference Management Software

Most journal reference templates are provided in popular reference management software products. These products include those that support Citation Style Language (CSL), such as Mendeley Reference Manager.
If you use the citation plugins of these products, please select the relevant journal template, and all your citations and references will be automatically formatted according to the journal format. We suggest that you delete all field codes before submitting the manuscript to any reference management software product.
If the journal does not provide a template, please follow the format provided in the example in the reference style section of this author's guide.

Submit Your Manuscript

Submit List

Before submitting the manuscript, we suggest that you read our submission checklist:
An author has been designated as the corresponding author and provided their complete contact information (email address, full postal address, and phone number).
All files have been uploaded, including keywords, graphic titles, and tables (including titles, descriptions, and footnotes).
Spelling and grammar checks have been performed.
All references in the main text of the article are cited in the reference list, and vice versa.
I have obtained permission to use any copyrighted materials from other sources, including the internet.
For golden open access articles, all authors understand that if the manuscript is accepted, they are responsible for paying the article publication fee (APC). The cost of APC may be borne by the corresponding author's institution or research sponsor.

Online Submission

Our online submission system will guide you through the steps of entering manuscript details and uploading files. The system will convert your article file into a single PDF file used during the peer review process.
We need editable files (such as Word, LaTeX) to format your article for final publication. All communications, including editorial decision notifications and revision requests, are sent via email.
Please click on this link to submit your paper.(https://www.atraweb.org/go-to-submissions)

After Receiving The Final Decision

Article Transmission Service

If your manuscript is more suitable for other journals, you may receive an email requesting that you consider transferring your manuscript through a journal article transfer service.
This suggestion can come from journal editors, specialized internal science editors, tool assisted suggestions, or a combination of the above three.
If you agree with this suggestion, your manuscript will be forwarded to a new journal and independently reviewed by the editors of the new journal. You will have the opportunity to make necessary revisions before submitting to the target journal.

Publication Agreement

After the paper is accepted, the author will be required to fill out the publication agreement. The corresponding author will receive a link to the online protocol via email. We suggest that you read the copyright related policies of the publication to learn more about our copyright policies and the additional rights you and your employer/organization have to subscribe to and access articles through open access to gold.

License Options

The author will be granted an open access user license option, which will determine how you and third parties reuse your golden open access articles. We suggest that you review these options and any funding agency licensing requirements before selecting licensing options.

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Copyright Works License

If your article contains excerpts from other copyrighted works, you must obtain written permission from the copyright owner and use the publication's permission request and permission form (Word) to indicate the source in your article.

Proofreading

To ensure a fast publishing process, we will require you to provide proofreading within two days.
The corresponding author will receive an email containing a link to our online proofreading system, allowing for online annotation and correction of proofs. The environment is similar to Word. You can edit text, comment on charts, and answer questions raised by our text editors. Our web-based proofreading service ensures faster and less error prone processes.
If necessary, you can choose to annotate and upload your edits on the PDF version of the article. We will provide you with proofreading instructions and available alternative proofreading methods via email.
The purpose of proofreading is to check the formatting, editing, completeness, and correctness of the text, tables, and images in an article. Significant revisions to the article during the proofreading stage will only be considered with the approval of the journal editor.

Share Link

The customized shared link will be sent to the corresponding author via email, providing 50 days of free access to the final published version of your article on ScienceDirect. Shared links can be used to share your article on any communication channel, such as via email or social media.
After paying an additional fee, you can choose to order a paper booklet. When your article is accepted for publication, we will send the link to the single volume order form via email.
If your article is published in open access format, no sharing link will be provided. The final published version of your gold open access article will be publicly available on ScienceDirect and can be shared through the article DOI link.

Responsible Sharing

We encourage you to share and promote your articles to increase the visibility of your work, so that your paper can promote scientific progress and facilitate scientific exchange in your field. Read more about how to responsibly share and promote your articles.

Author Resources

Journal Researcher Academy

If you need help to improve your submission or understand the publishing process, you can obtain support through the publication Researcher Academy.
The Journal Research Institute provides free e-learning modules, webinars, downloadable guides, and resources for research writing and peer review processes.

Get help and support

Author Support

If you have any questions about the editing process or need technical support, we recommend that you visit our journal article publishing support center. Some common answers to common questions:
How can I track the status of my submitted articles?
When can my article be published?

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