Biophysics and Physicobiology

The Biophysical Society of Japan.

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Instructions for Authors

Instructions for authors in PDF format file.

  Biophysics and Physicobiology (BPPB) is the official on-line journal (e-journal) of the Biophysical Society of Japan (BSJ). This journal inherited all the assets of BIOPHYSICS, the former BSJ official journal and expanded its scope to keep abreast of the future direction of the field.

  Biophysics covered a broad range of biological and physical issues and BIOPHYSICS played a role of a research forum for researchers from different backgrounds including physicists, biologists, engineers and so forth. Among the biophysicists, a quantitative consideration for biological issues based on physical and mathematical principles has been the common basis of this forum. Biophysics now spans all scales of biological organization, from the molecular scale to whole organisms and ecosystems, and hence biophysical research demonstrates significant overlaps with biochemistry, physiology, cell biology, nanotechnology, bioengineering, computational biology, systems biology, theoretical biology and so forth, and the field has evidently grown over the first idea in "biophysics." This outgrowth has been realized by the enthusiastic integration of ideas from physicists and biologists on various biological issues. Biophysics and Physicobiology is a forum for the discussion between physicists studying biology and biologists studying physics. By including the term physicobiology in the name of the journal, we intend to widen the scope of the journal to broader range of biologists and further stimulate the exchange of ideas among the biophysicists.

  Based on the ideas above, Biophysics and Physicobiology widely covers the topics of physiology, molecular and cellular biology, genome biology, systems biology, synthetic biology, bioinformatics, mathematical biology, quantitative biology, photobiology, mechanobiology, thermobiology, neuroscience, behavioral biology, developmental biology, quantum biology, radiobiology, and rising fields of biology under the extreme environments, space life science, nanobiology, and other various fields of biology. These fields can be represented by, but not limited to, the following keywords: protein (structure, function, expression, measurement and analysis); nucleic acid (structure, function, expression, measurement and analysis); genome (structure, function, interaction, measurement and analysis); biological and artificial membrane (structure, function, dynamics, synthesis, excitation and channels, transport); molecular motors; electronic state; hydration and electrolyte; chemoreception; neuronal circuit and information processing; vision and photoreception; photosynthesis; signal transduction; origin of life and evolution; nonequilibrium state; biological rhythm and so forth.

  We intend to provide the biophysicists in the Asia-Pacific area the opportunity to publish original research in Biophysics and Physicobiology. Scientists from Australia, China, Hong Kong, India, Korea, Singapore, Taiwan, as well as Japan, have been invited to serve as Associate Editors. To make the Asia-Pacific region a world leading center of biophysics, submission of papers is encouraged not only from the Asia-Pacific region, but also from all over the world.

Categories of Articles

  Articles that Biophysics and Physicobiology publishes are categorized into (1) Regular Articles, (2) Review Articles, (3) Notes, (4) Methods and Protocols, (5) Databases and Computer Programs, (6) Commentary and Perspective, and (7) Editorials.

(1) Regular Articles are the main category of the journal and must be prepared in accordance with the instructions provided below.
(2) Review Articles summarize a particular aspect of biophysical research. Most of the Review Articles are invited, but contributed Review Articles are also welcome (please send inquiries with an outline to the Editor-in-Chief before sending the manuscript).
(3) Notes are short articles that are not necessarily categorized into Regular Articles because of the content, containing important information on new devices and/or new ideas including hypothetical comments that are useful for researchers working in the field of biophysics. The goal of this category is to encourage critical evaluation of the concepts, idiosyncratic viewpoints, and challenges to ideas. However, the manuscript should go through rigorous review, and the ideas should be based on sound data without excessive speculation.
(4) Methods and Protocols cover new methods or significant new advancement of established methods that will be widely applicable to the field of experimental and computational biophysics.
(5) Databases and Computer Programs should be a description of the core data or software that would be useful for biophysics studies. The databases/computer programs should be available via website designated by the authors or via Biophysics and Physicobiology. The review process of this category is based on the functionality of the database/computer program.
(6) Commentary and Perspective introduce hot topics in the field of biophysics and those with global collaborations. Most of the Articles in Commentary and Perspective are invited from the organizers of the annual BSJ meetings or other scientific meetings, but contributed articles are also welcome (please send inquires with an outline to Editor-in-Chief before sending the manuscript). The template for the manuscript is available from HERE.
(7) Editorials are written by Editor-in-Chief, Editorial Board members and Guest Editor-in-Charge for Special Issues, introducing new policies, comments and new editorial board members. The template for the manuscript is available from HERE.

Special Issue

  We welcome a proposal of a topic for Special Issue, which is, in principle, composed of more than four articles focusing on a particular biophysical issue, from the members of the Society, the Editorial Board, Associate Editors and Advisory Board. The proposer should contact the Editor-in-Chief directly, and may take on the duty of a Guest Editor-in-Charge. Note that these special issues are not invited, but all the manuscripts are reviewed, and the publication and page charges must be paid. In addition, the proceedings of a scientific meeting can be considered for a special issue publication.

Editorial Board

Initial Submission

Articles are published only on-line, but with no access limitations (BPPB is an Open Access Journal). We welcome contributions from all over the world, from both members and non-members of BSJ. Submitted papers must be based on unpublished original research, not under consideration for publication elsewhere. BPPB supports the idea of posting a preprint to preprint servers, and hence the manuscript posted on the servers, such as arXiv, bioRxiv and ChemRxiv, before the submission to BPPB is not considered as publication. The authors are free to post the manuscript to the preprint servers, but after publication on BPPB, we ask the authors to specify the DOI of the final BPPB version of the manuscript along with the posted manuscript. Submitted papers must conform in style to the instructions outlined below. Authors who are not native speakers of English are strongly encouraged to have their manuscripts checked by scientists whose native language is English. Before acceptance, a manuscript judged to be poorly written may be forwarded to a professional English proofreader upon consulting the corresponding author. Authors must pay for the cost of this service, but it does not diminish the responsibility of authors to pay attention to the linguistic accuracy of the manuscript. If a submitted manuscript does not conform to the journal style, or other inadequacies are found, the Editor-in-Chief reserves the right to reject the manuscript without review. Manuscripts are handled through the peer review process and edited by one of the Associate Editors, the Advisory Board members, the Editorial Board members or the Editor-in-Chief. Manuscripts are sent out for peer review to two or more reviewers.

How to Submit a Manuscript

Manuscripts should be submitted using ScholarOne Manuscripts (S1M) Online Submission System for Biophysics and Physicobiology (

S1M will automatically convert the uploaded files into single PDF and HTML documents so that they can be viewed and printed for peer reviewing. Authors must verify that the PDF file is satisfactory and complete.

BPPB started Manuscript Transfer system (B2J) from bioRxiv to BPPB in November 2020 as a B2J partner of bioRxiv, in order to save authors time by transmitting their manuscript files and metadata directly from bioRxiv to BPPB. The authors do not have to spend time re-loading manuscript files and re-entering author information at the BPPB website. See the web site of bioRxiv ( The authors are requested to input some additional information on the BPPB web site after transmitting their manuscript.

If there is any problem with on-line submission, please contact the editorial office below.

The Editorial office of Biophysics and Physicobiology

c/o Nakanishi Printing Co., Ltd.
Shimodachiuri-Ogawa, Kamigyo-ku, Kyoto 602-8048, JAPAN
TEL: +81-75-441-3155
FAX: +81-75-417-2050

Please note the following points when using the on-line submission system:

  1. Use a conventional web browser to access the on-line submission system. During the submission process, do not use the "Back" button on your browser to return to the previous page.
  2. Do not use the enter key on your keyboard for jumping to the next input field. Instead, use the tab key or click on the field. The enter key is recognized as a jump to the next page.
  3. Do not include spaces and Japanese characters (multi-byte codes) in the file name or file path. Use only alphanumeric characters.

The following materials in electronic forms are required for initial submission:

  1. The text, tables, figures and supplementary materials (if any) in separate electronic files are required for initial submission. The text file should include the title, abstract, text, references and figure legends.
  2. Figures in resolution high enough for printing. Electronic files of photographs and illustrations in 300 dpi resolution in gray scale or color at the size being printed, and similarly in 1,200 dpi in black and white for line drawings. We accept figure files only in TIFF, EPS or JPEG format.
  3. The size of each file such as text, tables, figures, Significance Statement and each supplementary material (if any), should be no more than 20 MB.
  4. Supplementary materials (such as movie files).
    1. Image files should be in TIFF, EPS, JPEG, PNG or PDF format, and movie files in MPEG or AVI format.
    2. The filename extension should be one of the following as appropriate; jpg, jpeg, tif, tiff, eps, png, pdf, mpeg or avi.
    3. Do not include spaces and Japanese characters (multi-byte codes) in the file name or file path; use alphanumeric characters only.
    4. Title of the material should be, for example, "Supplementary Text S1",
      “Supplementary Table S1", and "Supplementary Figure S1".

Manuscript Style

  1. Manuscripts should be double-spaced throughout, formatted for A4 (297 x 210 mm portrait) size paper, and using approximately 25 mm (one inch) margins on all sides. Page 1 should contain the article title, author name(s), affiliation(s), address(es), and suggested running title (not exceeding 50 characters including spaces). The complete postal address and E-mail address of the corresponding author should be indicated. Page 2 should contain a short abstract of no more than 250 words. The abstract must not include references. A list of up to five keywords (not used in the title) should be provided below the abstract. From Page 3 onwards, Introduction, Materials and Methods (or Methods), Results, Discussion (or Results and Discussion), Conclusion, Acknowledgement, References, Figure Legends, and Tables should be arranged in this order.
  2. Use only 1-byte and/or ASCII-code fonts for alphanumeric characters. Use Symbol fonts for Greek letters and special characters. Do not use 2-byte/multi-byte or country-specific codes such as ■ and ○.
  3. Text footnotes are not allowed.
  4. Tables: All tables must be cited in the text. Number the tables consecutively with Arabic numerals (for example "Table 3"), in the order of appearance in the text. Supply a short explanatory title above the body of the table, and table footnotes lettered a, b, c, and so forth, below the body of the table. Do not use vertical lines.
  5. Figures: All figures must be cited in the text. Number the figures consecutively with Arabic numerals (for example "Figure 3"), in the order of appearance in the text. The dimensions of each illustration, photograph, or composite imagery should be no larger than the size of the manuscript page. Figure legends should not be included on the same page.
  6. Significance: Biophysics and Physicobiology requires a short statement of less than 100 words about the significance of the new paper. This Significance statement will be published on the web-site of the Society. The Significance statement must be entered through the online submission system.
  7. Electronic supplementary materials (such as videos) are permitted. Acceptable file formats are those listed in How to Submit a Manuscript.
  8. References: References are numbered sequentially as they appear in the text, tables and figure legends. When cited in the text, reference numbers are put in brackets in the form [1,3,5-8] before 'period' or 'comma'. References to "unpublished data" and "personal communications" should not appear in the reference list, but appear parenthetically in the text following the name(s) of the source of information, as in (Yamada, T., personal communication), (Suzuki, M. and Yoshida, M., unpublished data). Be sure to verify the wording of any personal communication with the person who supplied the information and obtain his/her approval for the use of his/her name in connection with the quoted information. All references should be listed in numerical order, starting on a new page, under the heading "References". When the Reference has the Digital Object Identifier (DOI), it should be added. The DOI for each Reference can be searched, for example, by “free DOI lookup site” provided by Crossref: .
    Please follow the bibliographic style as the next examples.
    1. For a journal article, list the first six authors followed by et al.:
      [1] Harada, Y., Funatsu, T., Murakami, K., Nonoyama, Y., Ishihama, A. & Yanagida, T. Single-molecule imaging of RNA polymerase-DNA interactions in real time. Biophys. J. 76, 709-715 (1999). DOI: 10.1016/S0006-3495(99)77237-1
      More than six authors:
      [2] Komatsu, H., Hayashi, F., Sasa, M., Shikata, K., Yamaguchi, S., Namba, K., et al. Genetic analysis of revertants isolated from the rod-fragile fliF mutant of Salmonella. Biophys. Physicobiol. 13, 13-25 (2016). DOI: 10.2142/biophysico.13.0_13
    2. For a chapter in an edited book:
      [3] Go, M. Protein structures and split genes. in Adv. Biophys. (Kotani, M. ed.) vol. 19, pp. 91-131 (Japan Sci. Soc. Press and Elsevier Sci. Pub., Tokyo and Limerick, 1985).
    3. For a book by one or more authors:
      [4] Oosawa, F. & Asakura, S. Thermodynamics of the Polymerization of Proteins (Academic Press, New York, 1975).
    4. For an article in a preprint server by one or more authors:
      [5] Ichimura, T., Kakizuka, T., Horikawa, K., Seiriki, K., Kasai, A., Hashimoto, H., et al. Trans-scale-scope to find rare cellular activity in sub-million cells. bioRxiv (2020). DOI: 10.1101/2020.06.29.179044
    If an article has been accepted for publication by a journal but has not yet appeared in print, the reference should be styled as follows:
    [6] Itoh, H., Takahashi, A., Adachi, K., Noji, H., Yasuda, R., Yoshida, M., et al. Mechanically driven ATP synthesis by F1-ATPase. Nature (in press).DOI: 10.1038/nature02212
    The use of "in preparation" and "submitted for publication" is not allowed in the reference list.
    The above bibliographic style in the References list is described by the Citation Style Language (CSL) as “biophysics-and-physicobiology.csl” at the GitHub site, , and it is also available from the Zotero site, . The CSL can be used by Mendeley Desktop and Zotero tools for managing references.
    The output style for EndNote, “Biophysics_and_Physicobiology.ens” has been prepared by courtesy of USACO Corporation, , and its usage is described at .
    The “DOI Citation Formatter”, provides the bibliographic style for the BPPB when the corresponding DOI is known.
    The above tools or web sites for the bibliographic style do not always provide the correct citation style, which the BPPB requests. The authors are required to confirm the citation style before submitting their article.
  9. When the macromolecular structures are referred, please describe [PDB ID: <PDB ID>] (<PDB ID>/pdb) in the text, where <PDB ID> stands for the familiar four-character PDB accession code (e.g., 6qw9).
  10. Graphical Abstract: One figure in color that depicts the content of the manuscript may be attached. The figure is used for the graphical abstract. The figure should not infringe the copyright of any publication. The figure may be the same as the one in the manuscript. The format of the figure should be either GIF, JPEG or PNG.

General Policy for Ethics of the Journal

Authors must declare the following information before the Reference section.

1. Conflicts of Interest

Biophysics and Physicobiology policy requires that all authors should reveal any financial interests or connections, direct or indirect, or other situations that might raise the question of bias in the reported work. The following is an example of the statement;

A. B., C. D. and E. F. declare that they have no conflict of interest.
A. B. declares that she has no conflict of interest. C.D has received research grants from Drug Company X.

2. Ethics Standard

Submitted manuscript should be the authors' own original work, which has not been previously published elsewhere. The editors assume that the submitted manuscript should include proper credit for the meaningful contributions of co-authors and co-researchers, and should be appropriately placed in the history of the research. Plagiarism in all its forms constitutes unethical publishing behavior and is unacceptable. The editors reserve the right to check plagiarism once doubt arises.
Titles and abstracts of manuscripts may not contain the positive words: “New”, “Novel”, “First”, “Unprecedented”, or other similar descriptive words, and their adjectives. In addition, claims of “for the first time” should be used carefully in the manuscript.
Authors may be asked to provide the raw data in connection with the manuscript, and should be prepared to provide access to such data for a reasonable time after publication. Sequence and structural information of biological materials should be submitted to the public databases and Identification code should be obtained before submitting the manuscript. The identification code should be given in the manuscript.
For original research manuscripts reporting experiments on live vertebrates and/or higher invertebrates, authors must include, in the methods section, a brief statement identifying the institutional and/or licensing committee approving the experiments. For experiments involving human subjects, authors must identify the committee approving the experiments, and include with their submission a statement confirming that informed consent was obtained from all subjects. All experiments must have been conducted according to the principles expressed in the Declaration of Helsinki and Method section must include the required ethics statements. See, for example, the NIH ethical guidelines.

3. Informed Consent

If the subjects are human, authors are required to ensure that the following guidelines are followed, as recommended by the International Committee of Medical Journal Editors. See, for example, "Uniform requirements for manuscripts submitted to biomedical journals" (1997), Pathology, Vol. 29, No. 4, Pages 441-447, (doi:10.1080/00313029700169515). When informed consent has been obtained, it should be indicated in the submitted article. Identifying information, including subjects' names, initials, or hospital numbers, should not be published in written descriptions, photographs, and pedigrees unless the information is essential for scientific purposes and the patient (or parent or guardian) gives written informed consent for publication.

4. Author Contribution

All persons designated as authors should qualify for authorship. To qualify for authorship, one should contribute to (1) Conception and design of the work, acquisition of data, or analysis and interpretation of data, (2) Drafting the article or revising important aspects of the intellectual content, and (3) Final approval of the version to be published. The contribution of all the authors should be listed in a separate section at the end of the manuscript. For example,

A.B., C.D., and E.F. directed the entire project and co-wrote the manuscript. I.J. synthesized and characterized materials. K.L. carried out diffractometry analyses. M.N. performed NMR measurements. O.P.Q. and R.S. carried out ab initio calculations.

Limit of Revision Period

Authors who have been requested to revise their manuscript should send the revised version to the handling editor within 90 days from receiving the editorial decision. Otherwise the submitted manuscript will be regarded as withdrawn.


Proofs are sent as PDF files to the corresponding author by E-mail. The proofs should be corrected and returned to the office within three business days. Copy-editing adjustments will be made to the accepted manuscripts. During proof-reading, the corresponding author is required to check for any undesired changes that may have inadvertently occurred during copy-editing. Extensive correction in the proof-reading process is subject to the evaluation of the editor and reviewers and delays the publication.


Publication charge: 30,000 JPY for members of the Society / 35,000 JPY for non-member authors per accepted manuscript.

Page charge: 8,000 JPY per printed page.

The Editor-in-Chief may agree to reduce publication charges if the corresponding author submits a written request outlining the reasons. Authors may be charged for any costs incurred by use of a professional English proofreader to correct unclear text, or for redrawing figures of low quality before acceptance of the manuscript. There are also charges for excessive changes in proof after the acceptance of the manuscript.


Reprints may be ordered at cost by returning the order form provided with the proofs. Costs for color pages will be charged to the author.


Papers published in Biophysics and Physicobiology become the permanent property of the BSJ. Authors retain the right to use their original photographs and figures in their own review articles. Authors also retain the right to use their article for the scientific career by including the published article in, for instance, their dissertation and their postdoctoral qualification, provided acknowledgement is given to the original source of the publication.

All articles of this journal, published after Dec 2017, are licensed under a Creative Commons BY-NC-SA license.

Correction and Retraction Policy

Corrections are published if the publication record is seriously affected. Amendments are published as an "Erratum", "Corrigendum", "Addendum" or "Retraction". Biophysics and Physicobiology reserves the right to remove articles. This will only occur where the article is clearly defamatory, or infringes others' legal rights, or where the article is, or there is good reason to expect it will be, the subject of a court order, or where the article, if acted upon, might pose a serious health risk.


Errata concern the amendment of mistakes introduced by the journal in editing or production, including errors of omission such as failure to make factual proof corrections requested by authors within the deadline provided by the journal and within journal policy. Errata are generally not published for simple, obvious typing errors, but are published when an apparently simple error is significant (for example, a Greek mu for an 'm' in a unit, or a typing error in the corresponding author's email address).

2. Corrigenda

Corrigenda submitted by the original authors are published if the scientific accuracy or reproducibility of the original paper is compromised. All authors must sign corrigenda submitted for publication.

3. Addenda

Addenda are judged on the significance of the addition to the interpretation of the original publication. Addenda do not contradict the original publication, but if the authors inadvertently omitted significant information available to them at the time, this material will be published as an addendum after peer review.

4. Retractions

Retractions are judged according to whether the main conclusion of the paper is seriously undermined as a result. Infringements of professional ethical codes, such as multiple submission, bogus claims of authorship, plagiarism, fraudulent use of data, or the like, will also result in an article being retracted. All co-authors will be asked to agree to a retraction. In cases where some co-authors decline to sign a retraction, the Editor-in-Chief reserves the right to publish the retraction with the dissenting author(s) identified.

5. Expression of Concern

Biophysics and Physicobiology may publish an "Expression of Concern", with a brief response from the original authors, when complaints, disagreements over interpretation and other matters arising are addressed to the Editor-in-Chief, which do not lead to retraction of the original article.

Revised 19th June, 2021.

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