A comprehensive set of end-to-end publishing services for the needs of scientific societies and institutions and their journals.


Please note:

  1. Features marked with red dot are globally unique.
  2. Features marked with ARPHA-XML are available exclusively in the ARPHA-XML workflow.
  3. Several services are specific for life sciences and would function only in biological journals. Such features include, for example: TaxPub enhancement to the Journal Archiving Tag Suite (JATS) standard, semantic tagging of biological taxon names, data exchange and integration with biological databases and others.
  4. Additional domain-specific markup and services can be elaborated by agreement.

Webdesign, setup, and hosting  

  1. Design of journal websites and publisher platforms.
  2. Setup of journal websites and associated services.
  3. Technical maintenance of the websites.
  4. Hosting of three online article versions (HTML, PDF and XML) and associated supplementary materials.

Authoring tool ARPHA-XML  

  1. The ARPHA Writing Tool (AWT) is a What-You-See-Is-What-You-Get (WYSIWYG) authoring tool.
  2. Used by journals based on the ARPHA-XML publishing workflow (optional).
  3. Provides a large set of pre-defined, but flexible article templates covering most types of research outcomes.
  4. Collaborative online co-editing and commenting environment for co-authors and peers.
  5. Online collaboration with external contributors (mentors, pre-submission reviewers, linguistic and copy editors) during the authoring process.
  6. RefindIt literature and data discovery and metadata import tool searching Crossref, DataCite, PubMed, Mendeley, RefBank and GNUB.
  7. Tables uploadable and downloadable to and from the text as CSV files.
  8. Image and multimedia import tool.
  9. TеX module for writing mathematical formulae.
  10. Import of domain-specific data types from online data sources.
  11. Creation of data paper manuscripts from XML metadata.
  12. Automated technical validation for checking manuscripts for consistency.
  13. An article update capability, allowing published articles to be imported back into editing mode and republished at the click of a button.
  14. Submission to a journal at the click of a button.

Submission and peer review system  

  1. Setup of online editorial management system.
  2. Highly automated but customised email notification system.
  3. Customised manuscript submission tool.
  4. Customisation of publishing policies (e.g. pricing, discounts, society membership etc.).
  5. Customisation of subject, geographical, taxonomic and other classifications.
  6. Setup of preferred peer review process: conventional (single-blind or double-blind), community-sourced, public and/or post-publication.
  7. Pre-submission peer review on choice of authors.ARPHA-XML
  8. Linking to funding agencies and projects via CrossRef Registry of Funders and OpenAIRE.
  9. Identification of conflicts of interest and author contributions in the submission metadata.
  10. Technical support to authors, editors and reviewers.
  11. Online manuscript flow control and internal email communication tool for editors, authors, reviewers and publishers.
  12. Access to reviewers database of all journals published via ARPHA.
  13. In-house journal management.
  14. Archiving of peer review history and associated files.
  15. Automated registration of peer reviews at Publons.

Managing editor's services  

  1. Handling and control of the overall editorial process.
  2. Assignment of subject editors.
  3. Correspondence with authors, reviewers and editors, including reminders.
  4. Technical support.

Copy editing and linguistic editing  

  1. Basic copy editing (screening the quality of the English language; checking/correcting article structure and metadata to conform to journal‘s style).
  2. Linguistic editing by native speakers.

Layout and proofreading  

  1. Online layout-to-publication management (formatting, proofreading, notifying authors and editors during the proofing process).
  2. Assigning CrossRef DOIs to articles.
  3. Assigning CrossRef DOIs to supplementary files, figures, data sets (optional).
  4. Discovering and inserting CrossRef DOIs for references cited in the paper.
  5. Semantic tagging through the Pensoft Markup Tool (PMT) (optional).
  6. Cross-linking of in-text citations of literature references, figures and tables.

Semantic markup and enhancements  

Note: The features described below are functional for journals publishing Biology-related content. Similar services can be developed also in other science domains by agreement.

  1. Markup of taxon names and treatments in the text, based on the TaxPub XML schema (an extension of the Journal Archiving Tag Suite (JATS) used by PubMed and PubMedCentral).
  2. Automated mapping of geo-referenced data per taxon.
  3. Pre-publication registration of new taxa in ZooBank, IPNI or Index Fungorum (as relevant).
  4. Dynamic, in real time, creation of online profile for each taxon name mentioned in an article through the Pensoft Taxon Profile tool.
  5. Automated linking through the Pensoft Taxon Profile tool of each taxon name mentioned in an article to various biodiversity resources (GBIF, Encyclopedia of Life, Biodiversity Heritage Library, the National Center for Biodiversity Information (NCBI),  Genbank and Barcode of Life, PubMed, PubMedCentralGoogle Scholar, the International Plant Name Index (IPNI), MycoBank, Index FungorumZooBank, PLANTS, Tropicos, Wikispecies, Wikipedia, Species-ID and others).
  6. Integration of the editorial workflow with the GBIF Integrated Publishing Toolkit (IPT) (useful for any kind of taxon occurrence data and checklists/inventories in Darwin Core Archive format) (optional).
  7. Export of XML-based metadata and TaxPub XML versions of the papers to PubMedCentral (in case the journal is accepted for coverage by the latter).
  8. Export of all taxon treatments (new taxa and re-descriptions, including images) to Encyclopedia of Life, example:
  9. Export of all taxon treatments (new taxa and re-descriptions) to Plazi TreatmentBank example:
  10. Export of all taxon treatments (new taxa and re-descriptions) including images, keys etc. to the Species-ID Wiki treatment repository, for example:
  11. Automated online import of species occurrence records into manuscripts from GBIF, iDigBio, Barcode of Life (BOLD) and PlutoF.
  12. Automated export of species occurrence records in Darwin Core Archive for upload to GBIF and other data aggregators.
  13. Automated export of taxon treatments in Darwin Core Archive.
  14. Automated creation of data paper manuscripts from Ecological Metadata Language (EML) metadata from GBIF, DataONE, and LTER.

Data publishing  

  1. Supplementary data files published with the paper.
  2. Support and infrastructure for open data publishing through internationally recognised data repositories.
  3. Integration of the editorial workflow with the Dryad Data Repository (optional).
  4. Data publishing in the format of peer reviewed "Data Papers".
  5. Publication of multimedia (videos, sound, 3D, MicroCT images, interactive keys) within the article content.

Article collections  

  1. Establishing article collections to bring together an unlimited number of contextually linked publications (e.g. research outcomes from a single project, workshop, conference etc.) submitted by various authors.
  2. A collection can be opened and then edited by any registered user.
  3. Assignment of a manuscript to an existing collection during the authoring stage, before submission to the journal. ARPHA-XML
  4. Assignment of a manuscript to an existing collection upon submission to the journal.
  5. Editable hierarchy within a collection (e.g. grouping of contributions into conference symposia or book chapters).
  6. Handling of the collection and its sub-collections by multiple editors both at the pre- and/or post-submission stage.

Proceedings module  

  1. Setting up collections of proceedings to submit, review and publish abstracts, presentations, posters or full-text publications from conferences, symposia or workshops.
  2. Publication of abstracts linked to a conference before, during or after the conference.
  3. Assignment of a manuscript to an existing collections of proceedings during the authoring stage. ARPHA-XML
  4. Assignment of a manuscript to an existing collections of proceedings upon submission to the journal.
  5. Editable hierarchy within a collection of proceedings (e.g. grouping of abstracts by workshops or symposia in a volume of proceedings or chapters and contributions in a book).
  6. Handling of the proceedings collection by multiple editors (e.g. by symposium or workshop conveners).

Publication in HTML, XML and PDF  

  1. Papers are published in high quality semantically enriched XML, HTML and PDF.
  2. Possibility to choose between the three formats within the ARPHA-DOC workflow.
  3. All three formats are exported and published at the click of a button within ARPHA-XML.

Publishing of article updates ARPHA-XML  

  1. Streamlined publication of article updates under separate DOI.
  2. An ‘Update your article’ feature takes the published article back to editing mode.
  3. Submission of the revised article versions "at the click of a button".
  4. Chronological linking of article versions via CrossRef’s CrossMark® tool.


  1. Archiving on the journal’s website and Pensoft physical servers.
  2. Archiving in Zenodo.
  3. Archiving in CLOCKSS.
  4. Archiving in PubMedCentral, if the journal is accepted by the latter.
  5. Archiving in other international repositories by agreement.

Dissemination of content  

  1. Indexing in: ISI Web of Science, Scopus, Zoological Record, Google Scholar, CAB Abstracts, DOAJ, Vifabio, BHL Citebank, Globalnalmes and others, when appropriate and depending on the approval of the indexer.
  2. Automated posting of article metadata or other relevant information to social networks (Twitter, Mendeley, Facebook, Google+ and others when appropriate) (optional).
  3. Providing information on funding agencies and grants acknowledged in the paper.
  4. Download citation tool.
  5. Sharing and bookmarking tools.
  6. Post-publication comments and reviews.
  7. Automated email acknowledgments to editors and reviewers upon article publication.
  8. Article email alerts and RSS feeds on newly published articles/issues.

Marketing and promotion  

  1. Tailored marketing strategy development.
  2. Identification of the most effective PR and communication channels.
  3. Development of key messages and brand associations.
  4. Targeted press campaigns for important publications.
  5. Preparation and distribution of press releases
  6. Liaison with mass media and journalists.
  7. Social media strategy, identification and active engagement with target communities.
  8. Events planning and support.
  9. Design and implementation of customised promotions and discounts.
  10. Design and production of marketing collateral (brochures, leaflets, T-shirts, stickers etc.)
  11. Dissemination of the supporting materials at appropriate events.

Article and sub-article usage metrics  

  1. Article-Level-Metrics (ALM) based on PLOS methodology and code.
  2. Number of views and downloads for the HTML, PDF and XML article versions.
  3. Number of views and downloads of figures, tables and objects.
  4. Mentions in social media and Wikipedia.

Printing and distribution  

  1. Printing and binding on demand of high-resolution paperback journal issues.
  2. Printing of separate articles (reprints) on demand by order via the journal’s website.
  3. Printing of hardcover copies upon request.
  4. Mailing copies to subscribers, exchange partners, subscription agents.
  5. Displaying copies at conferences and book fairs attended by Pensoft.

Journal statistics  

  1. Number of manuscripts at each stage of the editorial and production process (submitted, awaiting reviewer assignment, in review, in copy-editing, in typesetting, published).
  2. Number of submissions, reviews, rejections and publications.
  3. Number of registered and active users (authors, reviewers, editors).
  4. Distribution of articles by volume and type.
  5. Distribution of authors by country.
  6. Dynamics and graphs of the above parameters on a daily, weekly, monthly, quarterly and yearly basis.

Accounting and payments  

  1. Handling of orders and generation of invoices.
  2. Various payment modes (wire transfer, bank cheques, credit cards, PayPal).
  3. Secure online credit card payment module.
  4. Sales reports and and other statistics.