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  <front>
    <journal-meta><journal-id journal-id-type="publisher">FR</journal-id><journal-title-group>
    <journal-title>Fossil Record</journal-title>
    <abbrev-journal-title abbrev-type="publisher">FR</abbrev-journal-title><abbrev-journal-title abbrev-type="nlm-ta">Foss. Rec.</abbrev-journal-title>
  </journal-title-group><issn pub-type="epub">2193-0074</issn><publisher>
    <publisher-name>Copernicus Publications</publisher-name>
    <publisher-loc>Göttingen, Germany</publisher-loc>
  </publisher></journal-meta>
    <article-meta>
      <article-id pub-id-type="doi">10.5194/fr-21-47-2018</article-id><title-group><article-title>History and development of ABCDEFG: a data standard for geosciences</article-title>
      </title-group><?xmltex \runningtitle{History and development of ABCDEFG}?><?xmltex \runningauthor{M.~Petersen et al.}?>
      <contrib-group>
        <contrib contrib-type="author" corresp="yes" rid="aff1">
          <name><surname>Petersen</surname><given-names>Mareike</given-names></name>
          <email>mareike.petersen@mfn-berlin.de</email>
        <ext-link>https://orcid.org/0000-0001-8666-1931</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff1">
          <name><surname>Glöckler</surname><given-names>Falko</given-names></name>
          
        <ext-link>https://orcid.org/0000-0002-7127-2738</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff2">
          <name><surname>Kiessling</surname><given-names>Wolfgang</given-names></name>
          
        <ext-link>https://orcid.org/0000-0002-1088-2014</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff3">
          <name><surname>Döring</surname><given-names>Markus</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff4">
          <name><surname>Fichtmüller</surname><given-names>David</given-names></name>
          
        <ext-link>https://orcid.org/0000-0002-0829-5849</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff1">
          <name><surname>Laphakorn</surname><given-names>Lertsutham</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff1">
          <name><surname>Baltruschat</surname><given-names>Brian</given-names></name>
          
        <ext-link>https://orcid.org/0000-0002-6416-2477</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff1">
          <name><surname>Hoffmann</surname><given-names>Jana</given-names></name>
          
        <ext-link>https://orcid.org/0000-0001-6214-661X</ext-link></contrib>
        <aff id="aff1"><label>1</label><institution>Museum für Naturkunde, Leibniz Institute for Evolution and
Biodiversity Science, Invalidenstr. 43, 10115 Berlin, Germany</institution>
        </aff>
        <aff id="aff2"><label>2</label><institution>GeoZentrum Nordbayern, Friedrich-Alexander Universität
Erlangen-Nürnberg, Loewenichstr. 28, 91054 Erlangen, Germany</institution>
        </aff>
        <aff id="aff3"><label>3</label><institution>GBIF Secretariat, Universitetsparken 15, 2100 Copenhagen,
Denmark</institution>
        </aff>
        <aff id="aff4"><label>4</label><institution>Botanischer Garten und Botanisches Museum Berlin-Dahlem, Freie
Universität Berlin, Königin-Luise-Straße 6–8,<?xmltex \hack{\break}?> 14195 Berlin,
Germany</institution>
        </aff>
      </contrib-group>
      <author-notes><corresp id="corr1">Mareike Petersen (mareike.petersen@mfn-berlin.de)</corresp></author-notes><pub-date><day>17</day><month>January</month><year>2018</year></pub-date>
      
      <volume>21</volume>
      <issue>1</issue>
      <fpage>47</fpage><lpage>53</lpage>
      <history>
        <date date-type="received"><day>24</day><month>May</month><year>2017</year></date>
           <date date-type="rev-recd"><day>25</day><month>July</month><year>2017</year></date>
           <date date-type="accepted"><day>18</day><month>August</month><year>2017</year></date>
      </history>
      <permissions>
        
        
      <license license-type="open-access"><license-p>This work is licensed under the Creative Commons Attribution 3.0 Unported License. To view a copy of this licence, visit <ext-link ext-link-type="uri" xlink:href="https://creativecommons.org/licenses/by/3.0/">https://creativecommons.org/licenses/by/3.0/</ext-link></license-p></license></permissions><self-uri xlink:href="https://fr.copernicus.org/articles/.html">This article is available from https://fr.copernicus.org/articles/.html</self-uri><self-uri xlink:href="https://fr.copernicus.org/articles/.pdf">The full text article is available as a PDF file from https://fr.copernicus.org/articles/.pdf</self-uri>
      <abstract>
    <p id="d1e161">Museums and their collections have specially customized databases in order
to optimally gather and record their contents and associated metadata
associated with their specimens. To share, exchange, and publish data, an
appropriate data standard is essential. ABCD (Access to Biological
Collection Data) is a standard for biological collection units, including
living and preserved specimen, together with field observation data. Its
extension, EFG (Extension for Geoscience), enables sharing and publishing data
related to paleontological, mineralogical, and petrological objects. The
standard is very granular and allows detailed descriptions, including
information about the collection event itself, the holding institution,
stratigraphy, chemical analysis, and host rock. The standard extension was developed in 2006 and has been used since then by different
initiatives and applied for the publication of collection-related data in
domain-specific and interdisciplinary portals.</p>
  </abstract>
    </article-meta>
  </front>
<body>
      

<sec id="Ch1.S1" sec-type="intro">
  <title>Introduction</title>
      <p id="d1e171">Natural history museums and universities harbor millions of collection items
gathered in expeditions over hundreds of years. Most collections are highly
diverse and comprise voucher specimens from different scientific disciplines such as
botany, zoology, paleontology, geology, and anthropology. Independently of
discipline and type of preservation, each collection item is accompanied by
various metadata regarding not only its collecting event (time, region, and
collector) but also research data, aggregated over time (laboratory
analysis, relations to other collection items, etc.). In addition, images or
other multimedia files of the collection item or the gathering locality are
connected to stored objects. Furthermore, collections which are born digital
collections, e.g., animal sound archives, are likewise commonly associated
with natural history museums. This variety of information makes each
collection unique and leads to specific customizations in the databases for
each museum or even for a single collection.</p>
      <p id="d1e174">However, once mobilized, the data should not only subsist in institutional
databases but also be shared with the scientific community and laymen alike using
the internet. Leading scientific organizations have signed agreements to
facilitate the exchange of scientific results in the sense of open access
(e.g., Berlin Declaration on Open Access to knowledge in the sciences and
humanities, 2003; Bouchout Declaration, 2014). Furthermore, large funding
bodies have implemented principles for the sharing and dissemination of
research data (e.g., Alliance of German Science Organizations, 2010; National
Science Foundation, 2014) and various journals require accessibility of data
after publication.</p>
      <p id="d1e177">In order to effectively share data relating to collection units from
structurally diverse databases, they need to be mapped to a data scheme
which is universally intelligible. Data standards are designed to facilitate
the exchange and publication of information via a range of different
approaches and pattern. Their use provides semantics and structure in order
to avoid errors in interpreting the data, and enhances automated treatment,
e.g., usage in web portals and services.</p>
      <p id="d1e180">ABCD (<italic>Access to Biological Collection Data</italic>) is a data standard for biological collection units, including living
and preserved specimens, and is also applicable to field observation data
(Berendsohn, 2007). The standard allows a detailed and atomized mapping of
collection specimen and field observation data in the biological science
disciplines. However, fossil specimens are usually accompanied with
stratigraphic and geological data, which are inadequately covered by ABCD.
Since paleontological, mineralogical, and petrological items are also covered
by natural history collections, the <italic>Extension for Geoscience</italic> (EFG; Kiessling et al., 2006) has been
developed in order to complement ABCD towards a more complete standard for
natural history (ABCD<bold>EFG</bold>).</p>
      <p id="d1e193">Here we review the history and usage of ABCDEFG and highlight
current developments, its uniqueness, and importance as a data standard in
the domain of earth science.</p>
</sec>
<sec id="Ch1.S2">
  <title>Historical background of the EFG schema</title>
      <p id="d1e202">The development of ABCD started in 2000. Five years later, ABCD version 2.06
was ratified as a standard by the non-profit scientific and educational
association <italic>Biodiversity Information Standards</italic> (TDWG), formerly known as the Taxonomic Databases Working Group
(<uri>www.tdwg.org</uri>). Development of the Extension for Geoscience
(EFG) started in 2005. In the framework of the SYNTHESYS project (<uri>www.synthesys.info</uri>,
funded by the European Commission) the <italic>Geosciences Collection Access Service</italic> (GeoCASe,
<uri>www.geocase.eu/project</uri>), led by Museum für Naturkunde
Berlin, was developed to make standardized paleontological, mineralogical,
and petrological collection data openly available through the internet.
GeoCASe built upon the technology of the <italic>Biological Collection Access Service </italic>(BioCASe; developed by the BioCASE
and BioCISE projects funded by the European Commission from 1996 to 2004;
Berendsohn, 2000; Güntsch et al., 2007). As a first step towards the
definition of a schema for the earth sciences, a team of 11 experts from
several European institutions specified the requirements on typical data
that describe paleontological and geological collection objects. Building on
ABCD, the resulting schema extension was named EFG.</p>
</sec>
<sec id="Ch1.S3">
  <title>Composition of EFG</title>
<sec id="Ch1.S3.SS1">
  <title>Extent of EFG</title>
      <p id="d1e235">The ABCDEFG schema is very granular and allows a detailed
description of data gathered in geoscience (see technical schema
documentation at <uri>http://www.geocase.eu/efg</uri>). It comprises a
broad range of properties, including
<?xmltex \hack{\newpage}?>
<list list-type="bullet"><list-item><p id="d1e244">geological and geomorphological observations;</p></list-item><list-item><p id="d1e247">geological specimens and their preparation;</p></list-item><list-item><p id="d1e250">paleontological, mineral, rock and sediment specimens; anomalous items
(e.g.,
glacial erratics, transported assemblages);</p></list-item><list-item><p id="d1e253">stratigraphic and absolute dates, measured stratigraphic sections, and
borehole logs;</p></list-item><list-item><p id="d1e256">identifications (extended to cover rock and mineral classifications,
varietal names etc.) and analyses (techniques and results, e.g., chemical
composition of minerals, petrological analysis of rock);</p></list-item><list-item><p id="d1e259">integrated description of the host rock as part of a unit record (e.g.,
mineralization and lithological context of a fossil).</p></list-item></list></p>
      <p id="d1e262">As fossil objects share a considerable number of properties from both
biology and geology, it is a great advantage to establish a geoscience
schema as an extension of a biological data standard, rather than creating a
completely separated standard for geosciences. Furthermore, another area of
overlap are the data elements that refer to the collection or collection
event itself. The EFG extension is not applicable without its backbone, the
ABCD schema itself (Fig. 1). Elements describing the collection, the holding
institution, contact persons, and any additional information on the dataset
are placed within ABCD. Furthermore, details on the gathering event
(location, date, collector, etc.) and links to object related multimedia
material including their respective licensing or any related publication can
be specified in the ABCD standard.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F1" specific-use="star"><caption><p id="d1e267">Simplified overview of the schema extension EFG. Given are the relationships
among EFG components and between EFG components and the ABCD schema. EFG elements are given in
yellow and elements originating from ABCD in green.</p></caption>
          <?xmltex \igopts{width=398.338583pt}?><graphic xlink:href="https://fr.copernicus.org/articles/21/47/2018/fr-21-47-2018-f01.png"/>

        </fig>

</sec>
<sec id="Ch1.S3.SS2">
  <title>Structure and technical requirements</title>
      <p id="d1e282">ABCDEFG is an XML-based schema and thus can be easily processed by
software and is readable by humans. The schema is hierarchically structured
and the descriptive elements are aggregated in thematic concepts. All
elements are arranged according to their contextual relation to other
elements and their cardinality (Holetschek et al., 2012). The full potential
of ABCDEFG is unlocked in combination with the free and open-source
BioCASe Provider Software (BPS; <uri>http://www.biocase.org/products/provider_software/</uri>). It
consists of a generic XML wrapper software for relational databases and a
custom XML-based protocol for communication, and it requires a schema definition
(XSD) for each supported data standard.</p>
      <p id="d1e288">The BPS XML wrapper is able to connect to a wide array of database
management systems (e.g., MySQL, PostgreSQL, Microsoft SQL, Oracle, as well as Excel spreadsheets) and provides a user interface for mapping the
database fields to the data standards' elements. This generic approach of
mapping the individual data models to the standard schema is the essential
functionality for standardized data mobilization. Once an institution has
set up the mapping for its database, the released content (including
revisions, updates and new records) is exposed in the same manner through
the BPS. Thus, only changes in the data model itself necessitate
modifications in the mapping.</p>
      <p id="d1e291">Although mapping of data is straightforward, the (potentially heterogeneous)
content needs to be checked on a regular basis to verify that the results
are appropriate within the data standard's context. This practice is
supported by the BioCASe technology, as different datasets and sources
provided in ABCD and ABCDEFG can easily be monitored using the
BioCASe Monitor Service (Glöckler et al., 2013). By using the BioCASe
data interface and protocol in the backend and a comprehensible user
interface as a frontend, the monitoring tool facilitates checks of the
structure, plausibility, and completeness of datasets. Furthermore, it
verifies compliance of provided data for transformation into other target
schemas and can be used for summaries and simple descriptive statistics
across different datasets. Thus, data aggregators like the Geosciences
Collection Access Service (GeoCASe) can make use of the tool in the
supervision of the progress in data provision. A full implementation of the
BioCASe Monitor Service for summarizing the data provision and checking the
minimum requirements of data mapped to ABCDEFG can be found on the
GeoCASe website (<uri>http://geocase.eu/partners_and_providers</uri>).</p>
</sec>
</sec>
<sec id="Ch1.S4">
  <title>Importance of ABCDEFG</title>
<sec id="Ch1.S4.SS1">
  <title>Comparable standards</title>
      <p id="d1e309">For several geoscientific disciplines, data recommendations exist and
structures provide guidance on what kind of data should be recorded in what
form during field work or which research information should be publicly
available. The Evolution of Terrestrial Ecosystems Program (ETE; Damuth,
1997) was designed in the late 1990s and provided the basis for later
developments of various data structures (Reed et al., 2015). At about the
same time the Paleobiology Database (PBDB; <uri>https://paleobiodb.org</uri>) was founded. The PBDB is a public resource
of collection-based occurrence and taxonomic data for fossils of all
geological ages. The PBDB considerably inspired the development of the
EFG schema. Other important data conventions for paleontology are the
FAUNMAP and MIOMAP initiatives, focusing on fossil occurrences in North
America from different time periods (Carrasco et al., 2005; Graham and
Lundelius Jr., 2010).</p>
      <p id="d1e315">All these data structures (ETE, PBDB, and FAUNMAP/MIOMAP) perfectly
manage localities and faunal lists, but cannot be applied on specimen data
in a straightforward fashion. Gilbert and Carlson (2011) established a data
dictionary for paleoanthropology, including a specific table schema for
specimens as the central unit of organization, and localities as clusters of
specimens. This structure facilitates the data collection in the field, the
curation of objects in institutional collections, and the publication of
specimen related information. Along with the International Geo Sample Number
(IGSN) for the registering of samples to the System for Earth Sample
Registration SESAR two metadata sets were defined. These metadata schemes
comprehend core metadata used for the registration itself (registration
metadata) as well as basic characteristics of physical samples and collections
(descriptive metadata and latest version of both sets are available via
<uri>https://github.com/IGSN/metadata/wiki</uri>). EarthChem
(<uri>http://www.earthchem.org/</uri>), the NSF (National Science
Foundation)-funded data facility for solid earth geoscience data, provides suggested and controlled
vocabularies for geochemical, geochronological, and petrological data in
their EarthChem Systems (<uri>http://www.earthchem.org/resources/vocabularies</uri>) in order to help
standardizing these types of data in general. In addition, recommended
properties for a detailed description of minerals and their structure can be
derived from Mindat (<uri>http://mindat.org</uri>), the most comprehensive
and world's largest public database for mineral information. However, none
of the above-mentioned recommendations has yet reached the status of a
ratified standard.</p>
      <p id="d1e330">In biodiversity science and related disciplines, Darwin Core (DwC) and ABCD
are the best-known and most commonly used standards. In parallel with ABCD,
Darwin Core evolved over time and its development is mainly driven by the
community (Wieczorek et al., 2012). Although both schemas aim at
facilitating the mobilization of biodiversity data, they differ in their
purpose. ABCD is a highly structured schema and was intended to be
applicable to a great variety of data in various degrees of granularity,
including their relations and cardinality. It is almost exclusively tied to
the XML format. Darwin Core in contrast aims at providing a flexible
vocabulary for sharing information about biological diversity and can be
represented using various technologies including XML, RDF, or plain CSV
files. It is used to describe the recorded occurrence of a species in space
and time, and to link related information and evidence to this declaration.
The Darwin Core standard was ratified in 2009 by TDWG and since then it is
the most common standard for publishing datasets in the Global Biodiversity
Information Facility (GBIF; <uri>http://gbif.org</uri>).</p>
      <p id="d1e336">The usage of Darwin Core for geoscience is limited. Although specimens can
be classified as “FossilSpecimen” (<uri>http://rs.tdwg.org/dwc/terms/FossilSpecimen</uri>) and basic information about
the chrono-, litho-, and biostratigraphy can be accommodated in the
<italic>GeologicalContext</italic> terms (<uri>http://rs.tdwg.org/dwc/terms/GeologicalContext</uri>),
appropriate terms for geological collection items are still lacking in
Darwin Core. Thus, important measurements and facts like the host rock of a
specimen, the original stratigraphic association of allochthonous material
and metasomatic, metamorphic, or diagenetic alterations of the rock cannot be
shared and distributed using this data standard. The Darwin Core
Paleontology Extension (DarwinCoPE) was proposed as a community standard in
2005, but even then it was described as less detailed than the evolving
ABCDEFG (Theodor, 2006). Furthermore, the PaleoCore initiative
established a list of common terms for the publication of
paleoanthropological datasets (<uri>http://paleocore.org/standard/</uri>)
and combined elements from Darwin Core with some of the Dublin Core Metadata
Initiative (DCMI, <uri>http://dublincore.org/documents/dcmi-terms/</uri>).
However, the possibilities of accommodating comprehensive geoscientific data
are still limited.</p>
      <p id="d1e355">In summary ABCDEFG is the most comprehensive data standard for
geoscientific collection data. Although there have been different
approaches, none of them provide a comparable detailed and atomized schema
for both paleontological and geological data.</p>
</sec>
<sec id="Ch1.S4.SS2">
  <title>Use cases</title>
      <p id="d1e364">ABCDEFG is already used for data aggregation and provision to a
number of thematic data portals. The following examples illustrate different
data portals and aggregators showing collection related information from the
same data source endpoints mapped to the ABCDEFG standard.<?xmltex \hack{\newline}?><?xmltex \hack{\newline}?>
The Global Biodiversity Information Facility (GBIF,
<uri>http://www.gbif.org</uri>) is a web portal for the access to
biodiversity data. It accepts several different data standards, including
Darwin Core, ABCD, and ABCDEFG. As the paleobiological data provide
important information about ancient biodiversity, fossils from natural
history collections and in the published literature are important data
sources for GBIF. Therefore, different institutions provide
occurrence data of not only extant species but also of fossil specimens.<?xmltex \hack{\newline}?><?xmltex \hack{\newline}?><?xmltex \hack{\noindent}?>Examples:<?xmltex \hack{\newline}?><?xmltex \hack{\noindent}?>Fossil (<italic>Mammuthus primigenius</italic>), <uri>http://www.gbif.org/occurrence/1099276603</uri><?xmltex \hack{\newline}?><?xmltex \hack{\noindent}?>Fossil (<italic>Dorygnathus banthensis</italic>), <uri>http://www.gbif.org/occurrence/1099085192</uri><?xmltex \hack{\newline}?><?xmltex \hack{\newline}?>
Within the SYNTHESYS project task <italic>Geosciences Collection Access Service</italic> (GeoCASe) a data portal
(<uri>www.geocase.eu/access</uri>) was developed to make data from the GeoCASe network
freely available on the internet. The portal uses the BioCASe technology to
perform a distributed query on the original provider's databases. In
contrast to paleontological specimens, data on geoscientific collection
objects are not available via GBIF. GeoCASe thus represents a complementary
portal for non-biological data, while both portals overlap in data provision
on fossil objects. GeoCASe originally had its scope on geoscientific objects
(fossils, minerals, and rocks) from European institutions. However, it is now
open for worldwide earth science collections<?xmltex \hack{\newline}?><?xmltex \hack{\newline}?><?xmltex \hack{\noindent}?>Examples:<?xmltex \hack{\newline}?><?xmltex \hack{\noindent}?>Fossil (<italic>Mammuthus primigenius</italic>), <uri>http://geocase.eu/portal/?unitid=MB.Ma.13543</uri><?xmltex \hack{\newline}?><?xmltex \hack{\noindent}?>Fossil (<italic>Dorygnathus banthensis</italic>), <uri>http://geocase.eu/portal/?unitid=MB.R.3661</uri><?xmltex \hack{\newline}?><?xmltex \hack{\noindent}?>Mineral (azurite), <uri>http://geocase.eu/portal/?unitid=MFN_MIN_1999_2270</uri><?xmltex \hack{\newline}?><?xmltex \hack{\newline}?>
The German Federation for Biological Data (GFBio; <uri>http://www.gfbio.org</uri>)
takes care of the management and standardization of biological research data
during the entire data life cycle (DataOne, 2017) and uses ABCDEFG
for fossil data in order to standardize heterogeneous datasets and to
publish the data on the national GFBio portal. The GFBio data centers are
responsible for the sustainable management, long-term accessibility, and
archiving of their client's data. Therefore, they build upon domain-specific
data standards like ABCDEFG that are actively used, well
documented, and accepted by the community.<?xmltex \hack{\newline}?><?xmltex \hack{\newline}?><?xmltex \hack{\noindent}?>Example:<?xmltex \hack{\newline}?><?xmltex \hack{\noindent}?>Fossil (<italic>Jurassiphorus cailliaudanum</italic>),
<uri>https://www.gfbio.org/data/search?q=MB.Ga.524</uri><?xmltex \hack{\newline}?><?xmltex \hack{\noindent}?>Species (<italic>Mammuthus primigenius</italic>),
<uri>https://www.gfbio.org/data/search?q=Mammuthus primigenius</uri><?xmltex \hack{\newline}?><?xmltex \hack{\newline}?><?xmltex \hack{\noindent}?><italic>European digital library Europeana</italic>. The European digital
library Europeana (<uri>http://www.europeana.eu</uri>) displays the
cultural heritage of Europe. The EU-funded project OpenUp! and its successor
project Europeana DSI provide more than 3 million images and other
multimedia objects from the natural history domain (Berendsohn and
Güntsch, 2012; <uri>http://open-up.eu</uri>). Project partners are
delivering their data in the ABCDEFG schema using the BioCASe
technology and making their multimedia files (mainly images) freely available,
including those of fossils, minerals, and rocks. As Europeana focuses on
media objects, specific filter requests exclude all those records without
any multimedia files. But again, none of the data providers need to set up a
separate schema mapping, parallel to those of the above-mentioned data
portals. Furthermore, Europeana compiles data from cultural heritage
collections that use their own data standards. In order to harmonize these
with the data from the natural history domain, a subset of elements from the
ABCDEFG schema was identified to meet the requirements of the
Europeana data model (ESE/EDM; Zágoršek et al., 2012). As
ABCDEFG is XML-based, the transformation to the Europeana data
model is straightforward.<?xmltex \hack{\newline}?><?xmltex \hack{\newline}?><?xmltex \hack{\noindent}?>Examples:<?xmltex \hack{\newline}?><?xmltex \hack{\noindent}?>Fossil (<italic>Dorygnathus banthensis</italic>),
<uri>http://www.europeana.eu/portal/de/record/11622/_MFN_FOSSIL_VERTEBRATES_V_MFN_GERMANY_MB_R_3661.html</uri><?xmltex \hack{\newline}?><?xmltex \hack{\noindent}?>Mineral (azurite),
<uri>http://www.europeana.eu/portal/de/record/11622/_MFN_MINERALOGY_MFN_GERMANY_MFN_MIN_1999_2270.html</uri><?xmltex \hack{\newline}?><?xmltex \hack{\newpage}?><?xmltex \hack{\noindent}?><italic>Object landing pages of the Museum für Naturkunde Berlin</italic>. Recently, the Consortium of European Taxonomic Facilities (CETAF;
<uri>http://cetaf.org/</uri>)  adopted
the approach of using actionable, web-based uniform resource identifiers
(http-URIs) for physical objects (Güntsch et al., 2017). The advantage
of this approach is the immediate linkage of the physical object with its
digital representation. As the Hypertext Transfer Protocol (http) is a
well-known syntax, people tend to “click” on the URI and expect to find
information about the physical object. Thus, the http-URIs ideally resolve
to web landing pages with a compilation of the objects' media and collection
data. At the Museum für Naturkunde Berlin these landing pages make use
of ABCDEFG structured data to use the standard's controlled and
well-documented terms for exposing the information.<?xmltex \hack{\newline}?><?xmltex \hack{\newline}?><?xmltex \hack{\noindent}?>Examples:<?xmltex \hack{\newline}?><?xmltex \hack{\noindent}?>Fossil (<italic>Dorygnathus banthensis</italic>),
<uri>http://coll.mfn-berlin.de/u/MB_R_3661</uri><?xmltex \hack{\newline}?><?xmltex \hack{\noindent}?>Mineral (azurite),
<uri>http://coll.mfn-berlin.de/u/MFN_MIN_1999_2270</uri><?xmltex \hack{\newline}?></p>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T1" specific-use="star"><caption><p id="d1e521">Use cases of the ABCDEFG. Given are the different portals,
number of institutions using ABCDEFG, and the number of fossils,
rocks, and minerals provided in ABCDEFG to different internet
platforms. The same datasets might be published in several portals. Please
note that most fossil data provided in ABCDEFG and published on
GBIF are not directly originating from collection items but are extracted
from the literature via the PBDB.</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="5">
     <oasis:colspec colnum="1" colname="col1" align="left"/>
     <oasis:colspec colnum="2" colname="col2" align="right"/>
     <oasis:colspec colnum="3" colname="col3" align="right" colsep="1"/>
     <oasis:colspec colnum="4" colname="col4" align="right"/>
     <oasis:colspec colnum="5" colname="col5" align="right"/>
     <oasis:thead>
       <oasis:row>  
         <oasis:entry colname="col1">Portal</oasis:entry>  
         <oasis:entry rowsep="1" namest="col2" nameend="col3" align="center" colsep="1">Number institutions </oasis:entry>  
         <oasis:entry rowsep="1" namest="col4" nameend="col5" align="center">Number objects </oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">  
         <oasis:entry colname="col1"/>  
         <oasis:entry colname="col2">Fossils</oasis:entry>  
         <oasis:entry colname="col3">Rocks and minerals</oasis:entry>  
         <oasis:entry colname="col4">Fossils</oasis:entry>  
         <oasis:entry colname="col5">Rocks and minerals</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>  
         <oasis:entry colname="col1">GeoCASe</oasis:entry>  
         <oasis:entry colname="col2">9</oasis:entry>  
         <oasis:entry colname="col3">5</oasis:entry>  
         <oasis:entry colname="col4">907 965</oasis:entry>  
         <oasis:entry colname="col5">255 862</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">GBIF</oasis:entry>  
         <oasis:entry colname="col2">9</oasis:entry>  
         <oasis:entry colname="col3">n/a</oasis:entry>  
         <oasis:entry colname="col4">762 059</oasis:entry>  
         <oasis:entry colname="col5">n/a</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">GFBio</oasis:entry>  
         <oasis:entry colname="col2">1</oasis:entry>  
         <oasis:entry colname="col3">n/a</oasis:entry>  
         <oasis:entry colname="col4">24 857</oasis:entry>  
         <oasis:entry colname="col5">n/a</oasis:entry>
       </oasis:row>
       <oasis:row>  
         <oasis:entry colname="col1">Europeana</oasis:entry>  
         <oasis:entry colname="col2">7</oasis:entry>  
         <oasis:entry colname="col3">3</oasis:entry>  
         <oasis:entry colname="col4">28 398</oasis:entry>  
         <oasis:entry colname="col5">5701</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table></table-wrap>

      <p id="d1e647">Table 1 summarizes the number of institutions using the ABCDEFG
schema and the number of objects published in different portals.</p>
</sec>
</sec>
<sec id="Ch1.S5" sec-type="conclusions">
  <title>Conclusion and outlook</title>
      <p id="d1e658">ABCDEFG has been established in the national and international
community and its reach is constantly growing. Once the standard and the
supporting software are implemented at an institution and its database
systems are linked up, there are many application opportunities. Apart from
facilitating highly distributed data exchange and publication, this also
facilitates institutional processes such as designing a collection database
by using the ABCDEFG terms and data management with documentation
and archiving based on ABCDEFG structures and definitions.</p>
      <p id="d1e661">The ABCD schema and its extension EFG are currently being revised. Within
the project “ABCD 3.0 – A community platform for the development and
documentation of the ABCD standard for natural history collections” (funded
by the Deutsche Forschungsgemeinschaft (DFG; German Research Foundation),
<uri>http://abcd.biowikifarm.net/</uri>) the entire schema is reviewed by
the scientific community. The EFG extension is being expanded to cover
specific demands of earth scientists and extraterrestrial collection items
such as meteorites. The ABCDEFG schema was imported into the TDWG
Terms Wiki (<uri>https://terms.tdwg.org/wiki/ABCD_EFG</uri>), a development platform for data standards related to biodiversity.
The complete documentation of all individual ABCDEFG terms is now
available on a site, the TDWG Terms Wiki, which allows collaborative
improvement (curation, annotation, discussion) of the terminology and
schema. Furthermore, specifications of relationships among various standards
(e.g., “has broader match”, “is part of”) or direct translations into terms
of other vocabularies are possible. This facilitates the usage of the schema
and enables further development by the scientific community.</p>
      <p id="d1e670">In a further step, the XML-based structure is being changed into a more
semantic form (Resource Description Framework, RDF), including terms of
external ontologies. To facilitate the usage of ABCDEFG, specific
application schemas will be developed. These schemas will include mandatory
concepts (see Holetschek, 2016) as well as commonly used elements
(Holetschek, 2015) and further relevant concepts identified by the
community. Thereby the application schemas represent all information that
scientists and curators would like to share with colleagues and the broader
public. An application schema for minerals, meteorites, and drilling cores
commonly found in geological collections will be provided.</p>
      <p id="d1e673">The ABCDEFG schema has been submitted to TDWG for its ratification,
the decision of which is pending. TDWG's Paleobiology Interest Group
(<uri>https://github.com/tdwg/paleo</uri>) will continue the effort of
extending Darwin Core with paleontological elements where needed. This will
be conducted in compliance with ABCDEFG.</p>
</sec>

      
      </body>
    <back><notes notes-type="dataavailability">

      <p id="d1e683">ABCDEFG XML Schema Definition (XSD) is available at
<ext-link xlink:href="https://doi.org/10.7479/pwnr-sh74" ext-link-type="DOI">10.7479/pwnr-sh74</ext-link> (Kiessling et al., 2018).</p>
  </notes><notes notes-type="competinginterests">

      <p id="d1e692">The authors declare that they have no conflict of
interest. The authors and the handling editor are affiliated to the same
institution, but this fact did not give any preference to the choice of the
journal. The journal was chosen in order to raise awareness of the data
standard in the geoscientific and paleontological community.</p>
  </notes><ack><title>Acknowledgements</title><p id="d1e698">The authors thank various project collaborators for their input during the
development, improvement and usage of the ABCDEFG schema. The
following projects and initiatives and the people involved therein
sustainably influenced the current status of the schema: GeoCASe (<uri>http://www.geocase.eu/project</uri>), BioCASe
(<uri>http://www.biocase.org/index.shtml</uri>), GBIF (<uri>http://www.gbif.org</uri>), and OpenUp! (<uri>http://open-up.eu/en</uri>). We are
thankful to the late Charles Copp for his work and his considerable
contribution to the development of EFG.</p><p id="d1e712">Funding was provided via GeoCASe (European Commission, SYNTHESYS I, Activity
D) for initial developmental phase and funding of workshops, GBIF-D (Federal
Ministry of Education and Research, Bundesministerium für Bildung und
Forschung, BMBF) for provider support and maintenance, and ABCD 3.0 (DFG) for
current developments and revisions. All this support is gratefully
acknowledged.<?xmltex \hack{\newline}?><?xmltex \hack{\newline}?>
Edited by: Johannes Müller<?xmltex \hack{\newline}?>
Reviewed by: Donald Hobern and Walter Berendsohn</p></ack><ref-list>
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    <!--<article-title-html>History and development of ABCDEFG: a data standard for geosciences</article-title-html>
<abstract-html><p class="p">Museums and their collections have specially customized databases in order
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related to paleontological, mineralogical, and petrological objects. The
standard is very granular and allows detailed descriptions, including
information about the collection event itself, the holding institution,
stratigraphy, chemical analysis, and host rock. The standard extension was developed in 2006 and has been used since then by different
initiatives and applied for the publication of collection-related data in
domain-specific and interdisciplinary portals.</p></abstract-html>
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