Guide for Authors

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    INTRODUCTION
    • Submission of papers
    • Page charges
    BEFORE YOU BEGIN
    • Ethics in publishing
    • Conflict of interest
    • Submission declaration and verification
    • Changes to authorship
    • Copyright
    • Role of the funding source
    • Funding body agreements and policies
    • Open access
    • Language (usage and editing services)
    • Submission
    PREPARATION
    • Review process
    • Use of word processing software
    • Article structure
    • Essential title page information
    • Abstract
    • Key words
    • Abbreviations
    • Acknowledgements
    • Units
    • Nomenclature, units and conventions
    • Database linking
    • Footnotes
    • Artwork
    • Illustration services
    • Tables
    • References
    • Video data
    • Supplementary data
    • Data at PANGAEA
    • Data deposit and linking
    • Interactive Phylogenetic Trees
    • Submission checklist
    AFTER ACCEPTANCE
    • Use of the Digital Object Identifier
    • Proofs
    • Offprints
    AUTHOR INQUIRIES



    Protist publishes papers that report substantial and novel findings in any area of research on protists. Suitable subject areas include: molecular, cell and developmental biology, biochemistry, systematics and phylogeny, and ecology of autotrophic and heterotrophic protists. The journal will not, in general, publish floristic/faunistic accounts, descriptions or redescriptions of taxa which are not based on new original data, taxonomic work which lacks reproducibility or papers that are preliminary or merely confirmatory. The criteria for acceptance of manuscripts are scientific excellence, significance, and interest for a broad readership.

    Registration of sequences
    Papers published in Protist that deal with nucleotide or amino acid sequences must carry a statement that the data have been deposited with an appropriate data bank (e.g. EMBL, GenBank, DDBJ). The data base accession number must be given in the Methods section of the manuscript. Any accepted manuscript that does not have such numbers by the page proof stage will be held until the numbers are provided.

    Distribution of material
    Publication of a paper in Protist implies that authors will distribute freely to researchers, for non-commercial purposes, all propagative materials such as protist cultures, cell lines, recombinant plasmids, vectors, viruses and monoclonal antibodies that were used to obtain results presented in the article and that are not available from commercial suppliers. Protist requires authors to state in the Methods section that these materials will be available on request. Protist cultures from which taxonomic types have been derived must be deposited in a public culture collection and strain numbers included in the manuscript before publication.

    Submission of papers

    No charge is made for publication, but authors will be required to pay for extensive charges introduced after the manuscript has been set in type. Manuscripts should be submitted as a single file. Graphics should be prepared at publication quality resolution in TIFF or EPS form (see Digital Images). For detailed information please see www.authors.elsevier.com

    Page charges

    This journal has no page charges.

    Ethics in publishing

    For information on Ethics in publishing and Ethical guidelines for journal publication see http://www.elsevier.com/publishingethics and http://www.elsevier.com/journal-authors/ethics.

    Conflict of interest

    All authors are requested to disclose any actual or potential conflict of interest including any financial, personal or other relationships with other people or organizations within three years of beginning the submitted work that could inappropriately influence, or be perceived to influence, their work. See also http://www.elsevier.com/conflictsofinterest. Further information and an example of a Conflict of Interest form can be found at: http://help.elsevier.com/app/answers/detail/a_id/286/p/7923.

    Submission declaration and verification

    Submission of an article implies that the work described has not been published previously (except in the form of an abstract or as part of a published lecture or academic thesis or as an electronic preprint, see http://www.elsevier.com/postingpolicy), that it is not under consideration for publication elsewhere, that its publication is approved by all authors and tacitly or explicitly by the responsible authorities where the work was carried out, and that, if accepted, it will not be published elsewhere in the same form, in English or in any other language, including electronically without the written consent of the copyright-holder. To verify originality, your article may be checked by the originality detection service CrossCheck http://www.elsevier.com/editors/plagdetect.

    Changes to authorship

    This policy concerns the addition, deletion, or rearrangement of author names in the authorship of accepted manuscripts:
    Before the accepted manuscript is published in an online issue: Requests to add or remove an author, or to rearrange the author names, must be sent to the Journal Manager from the corresponding author of the accepted manuscript and must include: (a) the reason the name should be added or removed, or the author names rearranged and (b) written confirmation (e-mail, fax, letter) from all authors that they agree with the addition, removal or rearrangement. In the case of addition or removal of authors, this includes confirmation from the author being added or removed. Requests that are not sent by the corresponding author will be forwarded by the Journal Manager to the corresponding author, who must follow the procedure as described above. Note that: (1) Journal Managers will inform the Journal Editors of any such requests and (2) publication of the accepted manuscript in an online issue is suspended until authorship has been agreed.
    After the accepted manuscript is published in an online issue: Any requests to add, delete, or rearrange author names in an article published in an online issue will follow the same policies as noted above and result in a corrigendum.

    Copyright

    This journal offers authors a choice in publishing their research: Open access and Subscription.

    For subscription articles
    Upon acceptance of an article, authors will be asked to complete a 'Journal Publishing Agreement' (for more information on this and copyright, see http://www.elsevier.com/copyright). An e-mail will be sent to the corresponding author confirming receipt of the manuscript together with a 'Journal Publishing Agreement' form or a link to the online version of this agreement.
    Subscribers may reproduce tables of contents or prepare lists of articles including abstracts for internal circulation within their institutions. Permission of the Publisher is required for resale or distribution outside the institution and for all other derivative works, including compilations and translations (please consult http://www.elsevier.com/permissions). If excerpts from other copyrighted works are included, the author(s) must obtain written permission from the copyright owners and credit the source(s) in the article. Elsevier has preprinted forms for use by authors in these cases: please consult http://www.elsevier.com/permissions.

    For open access articles
    Upon acceptance of an article, authors will be asked to complete an 'Exclusive License Agreement' (for more information see http://www.elsevier.com/OAauthoragreement). Permitted reuse of open access articles is determined by the author's choice of user license (see http://www.elsevier.com/openaccesslicenses).

    Retained author rights
    As an author you (or your employer or institution) retain certain rights. For more information on author rights for:
    Subscription articles please see http://www.elsevier.com/journal-authors/author-rights-and-responsibilities.
    Open access articles please see http://www.elsevier.com/OAauthoragreement.

    Role of the funding source

    You are requested to identify who provided financial support for the conduct of the research and/or preparation of the article and to briefly describe the role of the sponsor(s), if any, in study design; in the collection, analysis and interpretation of data; in the writing of the report; and in the decision to submit the article for publication. If the funding source(s) had no such involvement then this should be stated.

    Funding body agreements and policies

    Elsevier has established agreements and developed policies to allow authors whose articles appear in journals published by Elsevier, to comply with potential manuscript archiving requirements as specified as conditions of their grant awards. To learn more about existing agreements and policies please visit http://www.elsevier.com/fundingbodies.

    Open access

    This journal offers authors a choice in publishing their research:

    Open access
    • Articles are freely available to both subscribers and the wider public with permitted reuse
    • An open access publication fee is payable by authors or their research funder
    Subscription
    • Articles are made available to subscribers as well as developing countries and patient groups through our access programs (http://www.elsevier.com/access)
    • No open access publication fee

    All articles published open access will be immediately and permanently free for everyone to read and download. Permitted reuse is defined by your choice of one of the following Creative Commons user licenses:
    Creative Commons Attribution (CC BY): lets others distribute and copy the article, to create extracts, abstracts, and other revised versions, adaptations or derivative works of or from an article (such as a translation), to include in a collective work (such as an anthology), to text or data mine the article, even for commercial purposes, as long as they credit the author(s), do not represent the author as endorsing their adaptation of the article, and do not modify the article in such a way as to damage the author's honor or reputation.
    Creative Commons Attribution-NonCommercial-ShareAlike (CC BY-NC-SA): for non-commercial purposes, lets others distribute and copy the article, to create extracts, abstracts and other revised versions, adaptations or derivative works of or from an article (such as a translation), to include in a collective work (such as an anthology), to text and data mine the article, as long as they credit the author(s), do not represent the author as endorsing their adaptation of the article, do not modify the article in such a way as to damage the author's honor or reputation, and license their new adaptations or creations under identical terms (CC BY-NC-SA).
    Creative Commons Attribution-NonCommercial-NoDerivs (CC BY-NC-ND): for non-commercial purposes, lets others distribute and copy the article, and to include in a collective work (such as an anthology), as long as they credit the author(s) and provided they do not alter or modify the article.

    To provide open access, this journal has a publication fee which needs to be met by the authors or their research funders for each article published open access.
    Your publication choice will have no effect on the peer review process or acceptance of submitted articles.

    The publication fee for this journal is 2500, excluding taxes. Learn more about Elsevier's pricing policy: http://www.elsevier.com/openaccesspricing.

    Language (usage and editing services)

    Please write your text in good English (American or British usage is accepted, but not a mixture of these). Authors who feel their English language manuscript may require editing to eliminate possible grammatical or spelling errors and to conform to correct scientific English may wish to use the English Language Editing service available from Elsevier's WebShop (http://webshop.elsevier.com/languageediting/) or visit our customer support site (http://support.elsevier.com) for more information.

    Submission

    Submission to this journal proceeds totally online and you will be guided stepwise through the creation and uploading of your files. The system automatically converts source files to a single PDF file of the article, which is used in the peer-review process. Please note that even though manuscript source files are converted to PDF files at submission for the review process, these source files are needed for further processing after acceptance. All correspondence, including notification of the Editor's decision and requests for revision, takes place by e-mail removing the need for a paper trail.

    Submit your article
    Please submit your article via http://ees.elsevier.com/protis.

    Review process

    Papers submitted to Protist will be reviewed by members of the editorial board and expert ad-hoc reviewers. Decisions will be made as rapidly as possible (in general within six weeks after submission). When a manuscript is returned to authors for revision, the revised version must be submitted within three months of the authors’ receipt of the referee reports. A manuscript received later will be treated as a new submission.

    Use of word processing software

    It is important that the file be saved in the native format of the word processor used. The text should be in single-column format. Keep the layout of the text as simple as possible. Most formatting codes will be removed and replaced on processing the article. In particular, do not use the word processor's options to justify text or to hyphenate words. However, do use bold face, italics, subscripts, superscripts etc. When preparing tables, if you are using a table grid, use only one grid for each individual table and not a grid for each row. If no grid is used, use tabs, not spaces, to align columns. The electronic text should be prepared in a way very similar to that of conventional manuscripts (see also the Guide to Publishing with Elsevier: http://www.elsevier.com/guidepublication). Note that source files of figures, tables and text graphics will be required whether or not you embed your figures in the text. See also the section on Electronic artwork.
    To avoid unnecessary errors you are strongly advised to use the 'spell-check' and 'grammar-check' functions of your word processor.

    Article structure

    Manuscripts should be written in concise, logical, and grammatically correct English, and all pages and all lines of a page should be numbered. The manuscript should be organized in the following order: Title Page, Abstract, Key words, Introduction, Results, Discussion, Methods, Acknowledgements, References, Tables and Figure Legends. Divide your article into clearly defined subsections. Each subsection is given a brief heading. Each heading should appear on its own separate line. Subsections should be used as much as possible when cross-referencing text: refer to the subsection by heading as opposed to simply 'the text'. It is recommended that authors consult a current issue of Protist for guidance on format, organization, and preparation of figures, legends, tables, and references.

    Introduction
    State the objectives of the work and provide an adequate background, avoiding a detailed literature survey or a summary of the results.

    Methods
    Provide sufficient detail to allow the work to be reproduced. Methods already published should be indicated by a reference: only relevant modifications should be described.

    Results
    Results should be clear and concise.

    Discussion
    This should explore the significance of the results of the work, not repeat them. A combined Results and Discussion section may be used, if appropriate. Avoid extensive citations and discussion of published literature.

    Conclusions
    The main conclusions of the study may be presented in a short Conclusions section, which may stand alone or form a subsection of a Discussion or Results and Discussion section.

    Appendices
    If there is more than one appendix, they should be identified as A, B, etc. Formulae and equations in appendices should be given separate numbering: Eq. (A.1), Eq. (A.2), etc.; in a subsequent appendix, Eq. (B.1) and so on. Similarly for tables and figures: Table A.1; Fig. A.1, etc.

    Essential title page information

    Title. Concise and informative. Titles are often used in information-retrieval systems. Avoid abbreviations and formulae where possible.
    Author names and affiliations. Where the family name may be ambiguous (e.g., a double name), please indicate this clearly. Present the authors' affiliation addresses (where the actual work was done) below the names. Indicate all affiliations with a lower-case superscript letter immediately after the author's name and in front of the appropriate address. Provide the full postal address of each affiliation, including the country name and, if available, the e-mail address of each author.
    Corresponding author. Clearly indicate who will handle correspondence at all stages of refereeing and publication, also post-publication. Ensure that phone numbers (with country and area code) are provided in addition to the fax number and e-mail address and the complete postal address. Contact details must be kept up to date by the corresponding author. Corresponding authors should be identified in the list of authors by a superscript Arabic numeral and contact details of the Corresponding author provided in a footnote on the Title page.
    Present/permanent address. If an author has moved since the work described in the article was done, or was visiting at the time, a 'Present address' (or 'Permanent address') may be indicated as a footnote to that author's name. The address at which the author actually did the work must be retained as the main, affiliation address. Superscript Arabic numerals are used for such footnotes.
    • A 'Running title' of less than 40 characters (including spaces) should be included on the Title page.

    Abstract

    A concise and factual abstract is required. The abstract should state briefly the purpose of the research, the principal results and major conclusions. An abstract is often presented separately from the article, so it must be able to stand alone. For this reason, References should be avoided, but if essential, then cite the author(s), year(s), journal (abbreviated), volume, and page numbers, but not the title of the reference. Also, non-standard or uncommon abbreviations should be avoided, but if essential they must be defined at their first mention in the abstract itself. The Abstract should be a single paragraph not exceeding 200 words.

    Key words

    Immediately after the abstract, provide a maximum of 6 key words, using American spelling and avoiding general and plural terms and multiple concepts (avoid, for example, 'and', 'of'). Be sparing with abbreviations: only abbreviations firmly established in the field may be eligible. These key words will be used for indexing purposes.

    Abbreviations

    Define abbreviations that are not standard in this field in a footnote to be placed on the first page of the article. Such abbreviations that are unavoidable in the abstract must be defined at their first mention there, as well as in the footnote. Ensure consistency of abbreviations throughout the article.

    Acknowledgements

    Collate acknowledgements in a separate section at the end of the article before the references and do not, therefore, include them on the title page, as a footnote to the title or otherwise. List here those individuals who provided help during the research (e.g., providing language help, writing assistance or proof reading the article, etc.).

    Units

    Follow internationally accepted rules and conventions: use the international system of units (SI). If other units are mentioned, please give their equivalent in SI.

    Nomenclature, units and conventions

    In general, this journal follows the conventions of the CBE Style Manual (Council of Biology Editors, Inc., 9650 Rockville Pike, Bethesda, MD 20-841, 1983, 5th edn). Authors and editors are, by general agreement, obliged to accept the rules governing biological nomenclature, as laid down in the International Code of Botanical Nomenclature, the International Code of Nomenclature of Bacteria, and the International Code of Zoological Nomenclature. The first mention of the scientific names of the species used in the work - in title or text - should be accompanied by the taxonomic authority unless they can all be referred to a general work in which the authorities are given. Scientific names of species referred to in other studies need no authority. Generic names should only be abbreviated when immediately preceded in the text by the mention of the same species. For chemical nomenclature, the conventions of the International Union of Pure and Applied Chemistry and the official recommendations of the IUPAC-IUB Combined Commission on Biochemical Nomenclature should be followed. Genetic loci as well as scientific names of organisms (genus and species name) should be italicized; protein products of the loci are not italicized, nor are journal names or foreign phrases. Nonstandard abbreviations should be spelled out on first mention, followed by the abbreviated form in brackets. A footnote of nonstandard abbreviations used in the paper, in alphabetical order, followed by its spelled-out version should be supplied. Use the international system of units (SI). If other units are mentioned, please give their equivalent in SI.

    Database linking

    Elsevier encourages authors to connect articles with external databases, giving their readers one-click access to relevant databases that help to build a better understanding of the described research. Please refer to relevant database identifiers using the following format in your article: Database: xxxx (e.g., TAIR: AT1G01020; CCDC: 734053; PDB: 1XFN). See http://www.elsevier.com/databaselinking for more information and a full list of supported databases.

    Footnotes

    Footnotes should be used sparingly. Number them consecutively throughout the article, using superscript Arabic numbers. Many wordprocessors build footnotes into the text, and this feature may be used. Should this not be the case, indicate the position of footnotes in the text and present the footnotes themselves separately at the end of the article. Do not include footnotes in the Reference list.
    Table footnotes
    Indicate each footnote in a table with a superscript lowercase letter.

    Artwork

    Electronic artwork
    General points
    • Make sure you use uniform lettering and sizing of your original artwork.
    • Embed the used fonts if the application provides that option.
    • Aim to use the following fonts in your illustrations: Arial, Courier, Times New Roman, Symbol, or use fonts that look similar.
    • Number the illustrations according to their sequence in the text. Arabic numerals should be used for figures and upper case letters for multiple parts of a single figure. Multiple halftones should be mounted with spaces separating the prints. Illustrations must be labeled to a professional standard. Magnification bars should be given on electron and light micrographs.
    • Use a logical naming convention for your artwork files.
    • Provide captions to illustrations separately.
    • Size the illustrations close to the desired dimensions of the printed version.
    • Submit each illustration as a separate file.
    A detailed guide on electronic artwork is available on our website:
    http://www.elsevier.com/artworkinstructions
    You are urged to visit this site; some excerpts from the detailed information are given here.
    Formats
    Regardless of the application used for creating your artwork, when your electronic artwork is finalized, please 'Save as' or convert the images to one of the following formats (note the resolution requirements for line drawings, halftones, and line/halftone combinations given below):
    EPS (or PDF): Vector drawings, embed all used fonts.
    TIFF: Color or grayscale photographs (halftones), keep to a minimum of 600 dpi.
    TIFF: Bitmapped (pure black & white pixels) line drawings, keep to a minimum of 1000 dpi.
    TIFF: Combinations bitmapped line/half-tone (color or grayscale), keep to a minimum of 600 dpi.
    Please do not:
    • Supply files that are optimized for screen use (e.g., GIF, BMP, PICT, WPG); these typically have a low number of pixels and limited set of colors;
    • Supply files that are too low in resolution;
    • Submit graphics that are disproportionately large for the content.

    Color artwork
    Please make sure that artwork files are in an acceptable format (TIFF, EPS or PDF) and with the correct resolution. If, together with your accepted article, you submit usable color figures then Elsevier will ensure, at no additional charge, that these figures will appear in color on the Web (e.g., ScienceDirect and other sites) regardless of whether or not these illustrations are reproduced in color in the printed version. For color reproduction in print, you will receive information regarding the costs from Elsevier after receipt of your accepted article. Please indicate your preference for color: in print or on the Web only. For further information on the preparation of electronic artwork, please see http://www.elsevier.com/artworkinstructions.
    Please note: Because of technical complications which can arise by converting color figures to 'gray scale' (for the printed version should you not opt for color in print) please submit in addition usable black and white versions of all the color illustrations.

    Illustration services

    Elsevier's WebShop (http://webshop.elsevier.com/illustrationservices) offers Illustration Services to authors preparing to submit a manuscript but concerned about the quality of the images accompanying their article. Elsevier's expert illustrators can produce scientific, technical and medical-style images, as well as a full range of charts, tables and graphs. Image 'polishing' is also available, where our illustrators take your image(s) and improve them to a professional standard. Please visit the website to find out more.

    Figure captions
    Ensure that each illustration has a caption. Supply captions separately, not attached to the figure. A caption should comprise a brief title (not on the figure itself) and a description of the illustration. Keep text in the illustrations themselves to a minimum but explain all symbols and abbreviations used.

    Tables

    Number tables consecutively in accordance with their appearance in the text using Arabic numerals. Place footnotes to tables below the table body and indicate them with superscript lowercase letters. Avoid vertical rules. Be sparing in the use of tables and ensure that the data presented in tables do not duplicate results described elsewhere in the article.

    References

    Citation in text
    Please ensure that every reference cited in the text is also present in the reference list (and vice versa). Any references cited in the abstract must be given in full. References should be cited in the text by name and date of publication and not by number (e.g. Cohen and Beisson 1988). Joint authors should be referred to by et al. if there are more than two, e.g. Wilson et al. (1996). More than one paper from the same, cited author(s) in the same year must be identifified by the letters a, b, c, etc., placed after the year of publication. Listing of several references in the text should be alphabetical (Falkowski 1995; Simpson and Maslov 1994).

    Reference links
    Increased discoverability of research and high quality peer review are ensured by online links to the sources cited. In order to allow us to create links to abstracting and indexing services, such as Scopus, CrossRef and PubMed, please ensure that data provided in the references are correct.

    Web references
    As a minimum, the full URL should be given and the date when the reference was last accessed. Any further information, if known (DOI, author names, dates, reference to a source publication, etc.), should also be given. Web references can be listed separately (e.g., after the reference list) under a different heading if desired, or can be included in the reference list.

    Reference style
    References should be in alphabetical order and should contain complete titles and inclusive page numbers. Unpublished results, including personal communications and submitted manuscripts should be cited in the text only, not in the reference list. Personal communications must be accompanied by permission letters unless they are from the authors’ laboratories. Unpublished work must not be cited in the Methods section. Citation of abstracts in the reference list is not permitted. 'In press' citations must have been accepted for publication and the name of the journal or publisher included. In the reference list the following style should be used:

    Wilson RJM, Denny PW, Preiser PR, Rangachari K, Roberts K, Roy A, Whyte A, Strath M, Moore DJ, Moore PW, Williamson DH (1996) Complete gene map of the plastid-like DNA of the malaria parasite Plasmodium falciparum. J Mol Biol 261:155–172

    Cohen J, Beisson J (1988) The Cytoskeleton. In Görtz HD (ed) Paramecium. Springer-Verlag, Berlin, pp 363–392

    Margulis L, Corliss JO, Melkonian M, Chapman DJ, eds (1990) Handbook of Protoctista. Jones and Bartlett Publ, Boston, 914 p

    Journal abbreviations source
    Journal names should be abbreviated according to the List of Title Word Abbreviations: http://www.issn.org/services/online-services/access-to-the-ltwa/.

    Video data

    Elsevier accepts video material and animation sequences to support and enhance your scientific research. Authors who have video or animation files that they wish to submit with their article are strongly encouraged to include links to these within the body of the article. This can be done in the same way as a figure or table by referring to the video or animation content and noting in the body text where it should be placed. All submitted files should be properly labeled so that they directly relate to the video file's content. In order to ensure that your video or animation material is directly usable, please provide the files in one of our recommended file formats with a preferred maximum size of 50 MB. Video and animation files supplied will be published online in the electronic version of your article in Elsevier Web products, including ScienceDirect: http://www.sciencedirect.com. Please supply 'stills' with your files: you can choose any frame from the video or animation or make a separate image. These will be used instead of standard icons and will personalize the link to your video data. For more detailed instructions please visit our video instruction pages at http://www.elsevier.com/artworkinstructions. Note: since video and animation cannot be embedded in the print version of the journal, please provide text for both the electronic and the print version for the portions of the article that refer to this content.

    Supplementary data

    Elsevier accepts electronic supplementary material to support and enhance your scientific research. Supplementary files offer the author additional possibilities to publish supporting applications, high-resolution images, background datasets, sound clips and more. Supplementary files supplied will be published online alongside the electronic version of your article in Elsevier Web products, including ScienceDirect: http://www.sciencedirect.com. In order to ensure that your submitted material is directly usable, please provide the data in one of our recommended file formats. Authors should submit the material in electronic format together with the article and supply a concise and descriptive caption for each file. For more detailed instructions please visit our artwork instruction pages at http://www.elsevier.com/artworkinstructions.

    Data at PANGAEA

    Electronic archiving of supplementary data enables readers to replicate, verify and build upon the conclusions published in your paper. We recommend that data should be deposited in the data library PANGAEA (http://www.pangaea.de). Data are quality controlled and archived by an editor in standard machine-readable formats and are available via Open Access. After processing, the author receives an identifier (DOI) linking to the supplements for checking. As your data sets will be citable you might want to refer to them in your article. In any case, data supplements and the article will be automatically linked as in the following example: doi:10.1016/0016-7037(95)00105-9. Please use PANGAEA's web interface to submit your data (http://www.pangaea.de/submit/).

    Data deposit and linking

    Elsevier encourages authors to deposit raw data sets underpinning their research publication in data repositories, and to enable interlinking of articles and data. Please visit http://www.elsevier.com/databaselinking for more information on depositing and linking your data with a supported data repository.

    Interactive Phylogenetic Trees

    You can enrich your online articles by providing phylogenetic tree data files (optional) in Newick or NeXML format, which will be visualized using the interactive tree viewer embedded within the online article. Using the viewer it will be possible to zoom into certain tree areas, change the tree layout, search within the tree, and collapse/expand tree nodes and branches. Submitted tree files will also be available for downloading from your online article on ScienceDirect. Each tree must be contained in an individual data file before being uploaded separately to the online submission system, via the 'phylogenetic tree data' submission category. Newick files must have the extension .new or .nwk (note that a semicolon is needed to end the tree). Please do not enclose comments in Newick files and also delete any artificial line breaks within the tree data because these will stop the tree from showing. For NeXML, the file extension should be .xml. Please do not enclose comments in the file. Tree data submitted with other file extensions will not be processed. Please make sure that you validate your Newick/NeXML files prior to submission. For more information please see http://www.elsevier.com/phylogenetictrees.

    Submission checklist

    The following list will be useful during the final checking of an article prior to sending it to the journal for review. Please consult this Guide for Authors for further details of any item.
    Ensure that the following items are present:
    One author has been designated as the corresponding author with contact details:
    • E-mail address
    • Full postal address
    • Phone numbers
    All necessary files have been uploaded, and contain:
    • Key words
    • All figure captions
    • All tables (including title, description, footnotes)
    Further considerations
    • Manuscript has been 'spell-checked' and 'grammar-checked'
    • References are in the correct format for this journal
    • All references mentioned in the Reference list are cited in the text, and vice versa
    • Permission has been obtained for use of copyrighted material from other sources (including the Web)
    • Color figures are clearly marked as being intended for color reproduction on the Web (free of charge) and in print, or to be reproduced in color on the Web (free of charge) and in black-and-white in print
    • If only color on the Web is required, black-and-white versions of the figures are also supplied for printing purposes
    For any further information please visit our customer support site at http://support.elsevier.com.

    Use of the Digital Object Identifier

    The Digital Object Identifier (DOI) may be used to cite and link to electronic documents. The DOI consists of a unique alpha-numeric character string which is assigned to a document by the publisher upon the initial electronic publication. The assigned DOI never changes. Therefore, it is an ideal medium for citing a document, particularly 'Articles in press' because they have not yet received their full bibliographic information. Example of a correctly given DOI (in URL format; here an article in the journal Physics Letters B):
    http://dx.doi.org/10.1016/j.physletb.2010.09.059
    When you use a DOI to create links to documents on the web, the DOIs are guaranteed never to change.

    Proofs

    One set of page proofs (as PDF files) will be sent by e-mail to the corresponding author (if we do not have an e-mail address then paper proofs will be sent by post) or, a link will be provided in the e-mail so that authors can download the files themselves. Elsevier now provides authors with PDF proofs which can be annotated; for this you will need to download Adobe Reader version 9 (or higher) available free from http://get.adobe.com/reader. Instructions on how to annotate PDF files will accompany the proofs (also given online). The exact system requirements are given at the Adobe site: http://www.adobe.com/products/reader/tech-specs.html.
    If you do not wish to use the PDF annotations function, you may list the corrections (including replies to the Query Form) and return them to Elsevier in an e-mail. Please list your corrections quoting line number. If, for any reason, this is not possible, then mark the corrections and any other comments (including replies to the Query Form) on a printout of your proof and return by fax, or scan the pages and e-mail, or by post. Please use this proof only for checking the typesetting, editing, completeness and correctness of the text, tables and figures. Significant changes to the article as accepted for publication will only be considered at this stage with permission from the Editor. We will do everything possible to get your article published quickly and accurately – please send all your corrections within 48 hours. It is important to ensure that all corrections are sent back to us in one communication: please check carefully before replying, as inclusion of any subsequent corrections cannot be guaranteed. Proofreading is solely your responsibility. Note that Elsevier may proceed with the publication of your article if no response is received.

    Offprints

    The corresponding author, at no cost, will be provided with a personalized link providing 50 days free access to the final published version of the article on ScienceDirect. This link can also be used for sharing via email and social networks. For an extra charge, paper offprints can be ordered via the offprint order form which is sent once the article is accepted for publication. Both corresponding and co-authors may order offprints at any time via Elsevier's WebShop (http://webshop.elsevier.com/myarticleservices/offprints). Authors requiring printed copies of multiple articles may use Elsevier WebShop's 'Create Your Own Book' service to collate multiple articles within a single cover (http://webshop.elsevier.com/myarticleservices/booklets).



    You can track your submitted article at http://help.elsevier.com/app/answers/detail/a_id/89/p/8045/. You can track your accepted article at http://www.elsevier.com/trackarticle. You are also welcome to contact Customer Support via http://support.elsevier.com.

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