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ESSD | Articles | Volume 12, issue 4
Earth Syst. Sci. Data, 12, 2423–2445, 2020
https://doi.org/10.5194/essd-12-2423-2020
© Author(s) 2020. This work is distributed under
the Creative Commons Attribution 4.0 License.
Earth Syst. Sci. Data, 12, 2423–2445, 2020
https://doi.org/10.5194/essd-12-2423-2020
© Author(s) 2020. This work is distributed under
the Creative Commons Attribution 4.0 License.

Data description paper 09 Oct 2020

Data description paper | 09 Oct 2020

The Eurasian Modern Pollen Database (EMPD), version 2

The Eurasian Modern Pollen Database (EMPD), version 2
Basil A. S. Davis1, Manuel Chevalier1, Philipp Sommer1, Vachel A. Carter2, Walter Finsinger3, Achille Mauri4, Leanne N. Phelps1, Marco Zanon5, Roman Abegglen6, Christine M. Åkesson7, Francisca Alba-Sánchez8, R. Scott Anderson9, Tatiana G. Antipina10, Juliana R. Atanassova11, Ruth Beer6, Nina I. Belyanina12, Tatiana A. Blyakharchuk13, Olga K. Borisova14, Elissaveta Bozilova15, Galina Bukreeva16, M. Jane Bunting17, Eleonora Clò18, Daniele Colombaroli19, Nathalie Combourieu-Nebout20, Stéphanie Desprat21, Federico Di Rita22, Morteza Djamali23, Kevin J. Edwards24, Patricia L. Fall25, Angelica Feurdean26, William Fletcher27, Assunta Florenzano18, Giulia Furlanetto28, Emna Gaceur29, Arsenii T. Galimov10, Mariusz Gałka30, Iria García-Moreiras31, Thomas Giesecke32, Roxana Grindean33, Maria A. Guido34, Irina G. Gvozdeva35, Ulrike Herzschuh36, Kari L. Hjelle37, Sergey Ivanov38, Susanne Jahns39, Vlasta Jankovska40, Gonzalo Jiménez-Moreno41, Monika Karpińska-Kołaczek42, Ikuko Kitaba43, Piotr Kołaczek42, Elena G. Lapteva44, Małgorzata Latałowa45, Vincent Lebreton46, Suzanne Leroy47, Michelle Leydet48, Darya A. Lopatina49, José Antonio López-Sáez50, André F. Lotter6, Donatella Magri22, Elena Marinova51, Isabelle Matthias52, Anastasia Mavridou53, Anna Maria Mercuri18, Jose Manuel Mesa-Fernández41, Yuri A. Mikishin35, Krystyna Milecka42, Carlo Montanari54, César Morales-Molino6, Almut Mrotzek55, Castor Muñoz Sobrino31, Olga D. Naidina56, Takeshi Nakagawa43, Anne Birgitte Nielsen57, Elena Y. Novenko58, Sampson Panajiotidis53, Nata K. Panova10, Maria Papadopoulou53, Heather S. Pardoe59, Anna Pędziszewska45, Tatiana I. Petrenko35, María J. Ramos-Román60, Cesare Ravazzi28, Manfred Rösch61, Natalia Ryabogina38, Silvia Sabariego Ruiz62, J. Sakari Salonen60, Tatyana V. Sapelko63, James E. Schofield24, Heikki Seppä60, Lyudmila Shumilovskikh64, Normunds Stivrins65, Philipp Stojakowits66, Helena Svobodova Svitavska67, Joanna Święta-Musznicka45, Ioan Tantau33, Willy Tinner6, Kazimierz Tobolski42,, Spassimir Tonkov15, Margarita Tsakiridou53, Verushka Valsecchi6, Oksana G. Zanina68, and Marcelina Zimny45 Basil A. S. Davis et al.
  • 1Institute of Earth Surface Dynamics IDYST, Faculté des Géosciences et l'Environnement, University of Lausanne, Batiment Géopolis, 1015, Lausanne, Switzerland
  • 2Department of Botany, Charles University, Benatska 2, Prague 2 128-01, Czech Republic
  • 3ISEM, CNRS, University of Montpellier, EPHE, IRD, Montpellier, France
  • 4European Commission Joint Research Centre, Directorate D – Sustainable Resources – Bio-Economy Unit, Via E. Fermi 2749, 21027 Ispra (VA), Italy
  • 5Institute of Pre- and Protohistoric Archaeology, Kiel University, Johanna-Mestorf-Str. 2–6, 24118 Kiel, Germany
  • 6Institute of Plant Sciences, University of Bern, Altenbergrain 21, Bern, Switzerland
  • 7Department of Geography and Sustainable Development, University of St Andrews, North Street, St Andrews, KY16 9AL, UK
  • 8Department of Botany, University of Granada, Avda. Fuente Nueva, 18071-Granada, Spain
  • 9School of Earth and Sustainability, 624 S. Knoles St., Ashust Building, Room A108, Flagstaff, AZ, USA
  • 10Botanical Garden of the Ural Branch of the Russian Academy of Sciences, 620144, Yekaterinburg, Russia
  • 11Biological Faculty, Department of Botany, Sofia University, 8 Dragan Tzankov bld., 1164 Sofia, Bulgaria
  • 12Pacific Institute of Geography FEB RAS, 7, Radio Street, 690042, Vladivostok, Russia
  • 13Institute of Monitoring of Climatic and Ecological Systems of Siberian Branch of Russian Academy of Sciences, Akademicheski ave. 10/3, 634055, Tomsk, Russia
  • 14Russian Academy of Sciences, Institute of Geography, Staromonetny lane 29, 119017, Moscow, Russia
  • 15Faculty of Biology, Laboratory of Palynology, Sofia University, 8 Dragan Tsankov blvd., 1164 Sofia, Bulgaria
  • 16Siberian Branch of the Russian Academy of Sciences, c/o N. Ryabogina, Tyumen Scientific Centre SB RAS, Malygina st. 86, 625026, Tyumen, Russia
  • 17Department of Geography, Geology and Environment, University of Hull, Cottongham Road, Hull, HU67RX, UK
  • 18Laboratorio di Palinologia e Paleobotanica – Dipartimento Scienze della Vita, Università di Modena e Reggio Emilia, via Campi 287, 41125 Modena, Italy
  • 19Department of Geography, Royal Holloway University of London, Egham, Surrey TW20 0EX, UK
  • 20UMR 7194 – CNRS/MNHN, Dpt Homme et Environnement, Institut de Paléontologie Humaine 1, rue René Panhard, 75013 Paris, France
  • 21University of Bordeaux, EPOC UMR 5805, EPHE- PSL University, Allée Geoffroy St Hilaire, 33615 Pessac, France
  • 22Department of Environmental Biology, Sapienza University, Piazzale Aldo Moro, 5, Rome, Italy
  • 23Institut Méditerranéen de Biodiversité et d'Ecologie, Aix-Marseille Université – Campus Aix Technopôle de l'environnement Arbois Méditerranée Avenue Louis Philibert Bât Villemin – BP 80, 13545 Aix-en-Provence CEDEX 4, France
  • 24Departments of Geography and Environment and Archaeology, School of Geosciences, University of Aberdeen, Elphinstone Road, Aberdeen AB24 3UF, UK
  • 25Department of Geography & Earth Sciences, University of North Carolina, Charlotte, NC, USA
  • 26Department of Physical Geography, Goethe University, Altenhöferallee 1, 60438 Frankfurt am Main, Germany
  • 27Quaternary Environments and Geoarchaeology Group, Department of Geography, School of Environment, Education and Development, University of Manchester, Oxford Road, Manchester, M13 9PL, UK
  • 28CNR-IGAG, Laboratory of Palynology and Palaeoecology, Piazza della Scienza 1, 20126 Milan, Italy
  • 29GEOGLOB, Faculty of Sciences of Sfax, Route Soukra, BP. 802, 3038 Sfax, Tunisia
  • 30Faculty of Biology and Environmental Protection, Department of Geobotany and Plant Ecology, University of Łódź, Banacha Str. 12/16, 90-237 Łódź, Poland
  • 31Dpto. Bioloxía Vexetal e Ciencias do Solo, Facultade de Ciencias, Universidade de Vigo, 36310, Vigo, Spain
  • 32Department of Physical Geography, Faculty Geoscience, Utrecht University, P.O. Box 80115, 3508 TC, Utrecht, the Netherlands
  • 33Department of Geology, Babes-Bolyai University, Kogalniceanu Street, 400084, Cluj-Napoca, Romania
  • 34CIR-LASA – University of Genoa, Via Balbi, 6, 16126, Genoa, Italy, Italy
  • 35Far East Geological Institute FEB RAS, 159, Prospekt 100-letiya, 690022, Vladivostok, Russia
  • 36Alfred Wegener Institute Helmholtz Centre for Polar and Marine Research, Telegraphenberg A45, Potsdam, Germany
  • 37Department of Natural History, University Museum, University of Bergen, P.O. Box 7800, 5020 Bergen, Norway
  • 38Tyumen Scientific Centre SB RAS, Malygina st. 86, 625026, Tyumen, Russia
  • 39Brandenburgisches Landesamt für Denkmalpflege, Wünsdorfer Platz 4–5, 15806 Zossen OT Wünsdorf, Germany
  • 40Paleoecological Laboratory, Institute of Botany, Academy of the Sciences of the Czech Republic, Lidická 25/27, 602 00 BRNO, Czech Republic
  • 41Departamento de Estratigrafía y Paleontología, Universidad de Granada, Avda. Fuentenueva S/N, 18002 Granada, Spain
  • 42Laboratory of Wetland Ecology and Monitoring, Adam Mickiewicz University, B. Krygowskiego 10/247, 61-680 Poznań, Poland
  • 43Research Centre for Palaeoclimatology, Ritsumeikan University, 1-1-1 Noji-Higashi, Kusatsu, Shiga 525-8577, Japan
  • 44Laboratory of Paleoecology, Institute of Plant and Animal Ecology of the Ural Branch of the Russian Academy of Sciences, 8 Matra str., 202, 620144, Yekaterinburg, Russia
  • 45Department of Plant Ecology, Laboratory of Palaeoecology & Archaeobotanyul, University of Gdańsk, Wita Stwosza 59, 80-308 Gdańsk, Poland
  • 46CNRS/Muséum National d'Histoire Naturelle, UMR 7194 – Institut de Paléontologie Humaine 1, rue René Panhard, 75013 Paris, France
  • 47AMU-LAMPEA, Aix Marseille Univ, CNRS, Minist Culture, LAMPEA, UMR 7269, 5 rue du Château de l'Horloge, 13094, Aix-en-Provence, France
  • 48Aix Marseille Univ, Avignon Université, CNRS, IRD, IMBE, Europôle Arbois, Aix-en-Provence, France
  • 49Laboratory of Stratigraphy and Paleogeography of oceans Geological Institute Russian Academy of Sciences, Pyzevskii per., 119017, Moscow, Russia
  • 50Instituto de Historia-CSIC, Albasanz 26–28, 28037 Madrid, Spain
  • 51State Office for Cultural Heritage Baden Württemberg, Laboratory for Archaeobotany, Fischersteig 9, 78343 Hemmenhofen, Germany
  • 52Campus Institute Data Science, Göttingen, Germany
  • 53Laboratory of Forest Botany-Geobotany, Faculty of Forestry and Natural Environment, Aristotle University of Thessaloniki, Thessaloniki, Greece
  • 54University of Genoa, DISTAV – Corso Europa, 26, Genoa, Italy
  • 55Institute of Botany and Landscape Ecology, University of Greifswald, Soldmannstr. 15, 17487 Greifswald, Germany
  • 56Geological Institute RAS, Pyzhevsky 7, 119017, Moscow, Russia
  • 57Lund University, Sölvegatan 12, 66362 Lund, Sweden
  • 58Faculty of geography, Department of Physical Geography and Landscape Science, Lomonosov Moscow State University, Leninskiye gory, 1., 119991, Moscow, Russia
  • 59National Museum Wales, Cathays Park, Cardiff CF10 3NP, UK
  • 60Department of Geosciences and Geography, University of Helsinki, P.O. Box 64 (Gustaf Hällströmin katu 2), F00014, Helsinki, Finland
  • 61Department of Philosophy, Universität Heidelberg, Sandgasse 7, 69117 Heidelberg, Germany
  • 62Dept. de Biodiversidad, Ecología y Evolución, Universidad Complutense de Madrid, Ciudad Universitaria 28040, Madrid, Spain
  • 63Institute of Limnology, RAS, 9, Sevastyanova st., 196105, St. Petersburg, Russia
  • 64Department of Palynology and Climate Dynamics, University of Göttingen, Wilhelm-Weber-Str. 2a, 37073 Göttingen, Germany
  • 65Department of Geography, University of Latvia, Jelgavas str. 1, 1004, Riga, Latvia
  • 66Institute of Geography, University of Augsburg, Alter Postweg 118, 86159 Augsburg, Germany
  • 67Institute of Botany, Czech Academy of Sciences, Zámek 1, 252 43 Pruhonice, Czech Republic
  • 68RAS, Laboratory of Soil Cryology, Institute of Physico-Chemical and Biological Problems in Soil Science, Moscow region, Institutskaya 2, 142290, Pushchino, Russia
  • deceased

Correspondence: Basil A. S. Davis (basil.davis@unil.ch)

Abstract
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The Eurasian (née European) Modern Pollen Database (EMPD) was established in 2013 to provide a public database of high-quality modern pollen surface samples to help support studies of past climate, land cover, and land use using fossil pollen. The EMPD is part of, and complementary to, the European Pollen Database (EPD) which contains data on fossil pollen found in Late Quaternary sedimentary archives throughout the Eurasian region. The EPD is in turn part of the rapidly growing Neotoma database, which is now the primary home for global palaeoecological data. This paper describes version 2 of the EMPD in which the number of samples held in the database has been increased by 60 % from 4826 to 8134. Much of the improvement in data coverage has come from northern Asia, and the database has consequently been renamed the Eurasian Modern Pollen Database to reflect this geographical enlargement. The EMPD can be viewed online using a dedicated map-based viewer at https://empd2.github.io and downloaded in a variety of file formats at https://doi.pangaea.de/10.1594/PANGAEA.909130 (Chevalier et al., 2019).

1 Introduction
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Modern pollen samples provide an essential source of information for interpreting and understanding the fossil pollen record, which in turn provides one of the most important spatially resolved sources of information on Quaternary vegetation and climate. We use the term “fossil pollen” here as it is commonly used in the Quaternary sciences. The fossils in this sense can more accurately be described as sub-fossils since they have usually only undergone limited (if any) post-deposition mineralisation, while pollen is taken to include many spores as well as the pollen from flowering plants. Fossil pollen can be found preserved in sediments in lakes and bogs and other anaerobic environments throughout the Eurasian region extending back throughout the Quaternary. Modern pollen is simply the component of that fossil record found in the last 100–150 years, most often in the surface layers of lake and bog sediments, but also including comparable collectors of pollen such as moss polsters.

Davis et al. (2013) include a comprehensive introduction to the different scientific uses of modern pollen samples. Modern pollen samples have been used to interpret many different environmental processes, such as past changes in land cover, land use, and human impact; the impact on vegetation of past edaphic and hydroseral changes; and the effects of past changes in fire, pests, and disease on vegetation. Modern samples have also been used to understand taphonomic problems with regard to pollen transport, deposition, and preservation. One of the early motivations for establishing large modern pollen datasets and one that still remains important is their use as calibration “training sets” for the quantitative reconstruction of past climate. This approach has also more recently been adapted to quantitative reconstructions of land cover, where a similar modelling approach to climate reconstruction is applied to determine, for instance, forest cover. Similarly, modern samples have also been used to establish and model the relationship between vegetation and pollen assemblages based on the different pollen productivity of different taxa and thereby provide quantitative estimates of past vegetation composition in a landscape from records of fossil pollen.

Historically, modern pollen data were often gathered directly for a particular research project, but the data were rarely shared and if published often in grey literature such as a thesis, report, or monograph. Efforts to develop larger datasets at continental scales were pioneered in the 1990s, primarily by research groups looking to use these datasets as calibration datasets for quantitative climate reconstruction. Development however was haphazard, and the datasets had a reputation for being poorly documented and quality controlled, often containing duplicates, digitised data (not original raw counts), uncertain taxonomic standardisation, poor geolocation information, and loose definitions of “modern” that could embrace as much as the last 500 years. It became increasingly clear that a quality controlled and standardised database of modern pollen samples was required, comparable to the European Pollen Database (EPD) for fossil pollen samples and reflecting the same open-access and community-based principles.

The Eurasian (née European) Modern Pollen Database (EMPD) was therefore established in 2013 as a complement to the European Pollen Database (EPD) for fossil pollen (Davis et al., 2013). The first version of the EMPD (referenced herein as the EMPD1) contained almost 5000 samples, submitted by over 40 individuals and research groups from all over Europe. Over the last 6 years more data have continued to be submitted, and additional efforts have been made to incorporate more data held in open data repositories such as PANGAEA and made available as a supplement in published studies. This paper documents the first update to the EMPD (referenced herein as EMPD2), in which the number of samples stored in the database has increased by around 60 %.

The EMPD remains the only open-access database of modern pollen samples covering the Eurasian continent. Smaller compilations of modern pollen samples exist for some regions, but these generally have limitations in terms of some or all of the following: (1) the extent of metadata provided, (2) the completeness of the taxa assemblage, (3) the standardisation of taxa nomenclature and hierarchy with respect to the EPD, (4) the inclusion of digitised rather than original raw count data, (5) the inclusion of percentages rather than raw counts, (6) information about the original source of the data and the analyst, and in some cases, (7) limitations to public access. Importantly, all of these aspects limit their compatibility with the EPD, where compatibility with the EPD is one of the primary objectives of the EMPD. The EMPD contains only the original raw count data (no percentage data) for the complete pollen assemblage. The EMPD also contains comprehensive and standardised metadata about the pollen sample location, the landscape and vegetation environment from which it was collected, the way it was collected, the year that it was collected, and who collected and analysed the sample and where it was published.

Table 1List of metadata fields used in the EMPD.

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The EMPD has no formal spatial domain, but in general it covers the same geographic region as the EPD. This has traditionally been the Palearctic vegetation region of Eurasia excluding China, which has established its own semi-private regional database. As well as the terrestrial Eurasian landmass and associated islands, it also includes marine samples from coastal margins and enclosed seas. Increasingly however these geographical administrative boundaries have become blurred as regional pollen databases become integrated into the global Neotoma Palaeoecology Database (Williams et al., 2018), hereafter referred to as “Neotoma”. While regional databases such as the EPD will outwardly retain their identity within Neotoma, internally the data will be completely integrated at a global level. It is also planned that the EMPD will become integrated into Neotoma in the near future, and with this in mind, the EMPD2 also includes data from outside of the traditional EPD region on the basis that it represented the most expeditious route to making these data publicly available within Neotoma. Consequently, this second version of the EMPD includes not only data from Europe and northern Asia, but also data from Greenland, India, China, and North Africa.

2 Methods
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Details about the structure and metadata of the database have already been described in detail by Davis et al. (2013). The list of metadata fields is shown in Table 1. We also include climate and vegetation data for each sample location. The climate data include mean monthly, seasonal, and annual temperature and precipitation climatology from WorldClim2 (Fick and Hijmans, 2017). The climate was assigned according to the nearest grid point within the 30 s (approximately 1 km2) resolution of the WorldClim2 grid. The vegetation data include realm, biome, and ecoregion, taken from Olson et al. (2001). Note that all samples have been assigned a biome, including marine samples. The biome assigned to marine samples was based on the nearest point of land to the sample. No climate has been assigned to marine samples.

The protocol for the database follows that of the European Pollen Database, with some additions. The EMPD only includes samples younger than 200 BP, and with a sampling resolution comparable with the fossil pollen in the EPD. For instance, the EMPD does not include pollen trap data gathered at monthly or annual resolution, but it does accept trap data averaged over a period of at least 10 years, which is more comparable with the time typically represented in a fossil pollen sample taken from a sediment core.

Like the EPD, the EMPD only includes raw count data representing the full pollen assemblage, and it does not contain percentage data or truncated or summary assemblages. Percentages are excluded because their calculation can vary from author to author, and therefore unlike raw count data it is not always possible to directly compare different samples from different sources with percentage data. This is an important data quality criteria, but it has led to the exclusion of some large regional modern pollen datasets that have been recently published. This is discussed in the next section.

Modern pollen samples have been gathered from a variety of depositional environments, and the type of environment is recorded for 75 % of the samples in the database. The most common environments are moss polsters (31 %), soil (21 %), and lake sediments (19 %).

2.1 Data sources

The pollen data for the latest update of the EMPD have come from a diverse range of sources, but mainly submissions from individual researchers and research groups. Most of this has been the result of published research (Table 2), but we also include unpublished data. Additional pollen data have come from open-access sources such as the PANGAEA data archive and data supplements to publications, as well as new fossil pollen data submitted to the EPD and Neotoma since EMPD1 where the sample age of a sediment core top fulfils the requirements of a modern pollen sample.

Table 2List of data submitted to the EMPD2 by country.

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Some large independent surface sample datasets covering the Eurasian region have been published and made available since EMPD1, most notably Binney et al. (2017), Marinova et al. (2018), and Herzschuh et al. (2019). Both Binney et al. (2017) and Marinova et al. (2018) already include a large amount of data from the EPD and EMPD1, but also data that have not been publicly released before. This includes “heritage” data from earlier studies such as the Biome6000 project Prentice and Webb, 1998) and PAIN project (Bigelow et al., 2003). These heritage data are mostly composed of percentages, at least some (unknown part) of which have been digitised, and whose origins, selection criteria, and context are rarely documented. Another problem with these heritage data apart from the limited metadata is the loose definition of a “modern sample” in these early projects, being defined in both PAIN and Biome6000 as anything younger than 500 BP. Unfortunately, the age criteria for selecting individual samples were not recorded when the datasets were compiled.

These problems also extend to the recent release of data by Herzschuh et al. (2019) from China and Mongolia. These data represent most of the modern pollen data held in the Chinese Pollen Database (CPD) (Ni et al., 2010; Zheng et al., 2014). The Herzschuh et al. (2019) dataset includes 2559 modern pollen samples and is of major importance as the first significant amount of publicly available data from this region. However, the data are only provided as percentages based on a summary of the taxa from each sample and also include digitised data. We were therefore unable to include it in the EMPD2. The Herzschuh et al. (2019) data are available from PANGAEA, along with the Tarasov et al. (2011) dataset of 798 samples mainly from Japan and eastern Russia, which are also provided as percentages for a limited selection of taxa. We hope that the raw count data for the full assemblage will be made available in the near future.

Other regional pollen databases that overlap with the EMPD include the Indian Pollen Database (IPD) and the African Pollen Database (APD). The IPD is still under development and is not publicly accessible, but it includes both fossil and modern pollen samples from the Indian subcontinent (Krishnamurthy and Gaillard, 2011). The EMPD also includes samples from North Africa, which overlaps with the APD (Vincens et al., 2007). Fossil pollen data from the APD are available as individual files and as a partially complete paradox database from the APD website (Table 3), but the status of the modern pollen data held within the APD (Gajewski et al., 2002) remains somewhat unclear, since these data have not been made publicly available. At present the APD is being integrated into Neotoma, and it is hoped that once this is completed the modern pollen data from Africa will become more freely available.

Table 3Web addresses for pollen databases mentioned in the text. Last access of all URLs: 20 January 2020.

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2.2 Data processing

As with the EMPD1, the data submitted to the EMPD2 have come in a wide variety of data formats and with varying levels of metadata. All of these files had to be processed and a variety of quality control checks made before entry into the database (see also Davis et al., 2013).

Figure 1 shows the steps taken in processing and quality-controlling the data. On receipt from the contributor, the data were entered into one of two standardised file formats according to whether they were pollen data or the associated metadata. Each of the two different types of data was then subject to a series of quality control checks to make sure they did not contain errors and that they conformed to data protocols. For instance, values in numerical fields in the metadata (shown in Table 1) had to fall within realistic boundaries expected for that field, such as for latitude, longitude, and altitude. Also, it had to be checked that controlled fields based on selection from a list of acceptable classes did not contain assignment errors, such as country name. Any missing entries were referred back to the contributor for completion, or else were completed from the original publication or other information source where available.

One of the most time-consuming tasks with the pollen data was to ensure standardisation of the original taxon names submitted by the contributor. These all had to be checked for language, typographical errors, and other issues and then assigned an internationally accepted taxa name according to the EPD common taxa “p_vars” table. If the name did not exist in the EPD taxa table it was checked (using http://www.theplantlist.org/, last access: 20 January 2020) that it was spelled correctly and was not a synonym. It was then checked against the Neotoma pollen taxa table and assigned the Neotoma-accepted taxa name if there was a match. If it was not in the Neotoma taxa table, and it was established to be a genuine taxa name, then it was added to the EMPD taxa table as a new taxon. Note that although the EMPD is designed to be as compatible with the EPD as possible, the EMPD and EPD do not have a common taxa list, and the EMPD has many more taxa than appear in the EPD.

https://essd.copernicus.org/articles/12/2423/2020/essd-12-2423-2020-f01

Figure 1A flow diagram showing the data processing and quality control steps taken in constructing the EMPD2 database.

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The accepted names for the fossil data in the EPD or Neotoma should be directly compatible with the accepted names in the EMPD, but some caution needs to be applied in integrating the two datasets since the EMPD contains additional accepted names that do not occur in the EPD or Neotoma. Where possible the EMPD assignment of accepted names respects the taxonomic resolution of the EPD- and Neotoma-accepted names. This means that where a new original taxa name is submitted to the EMPD that does not already occur in the existing databases, it is assigned the EPD- or Neotoma-accepted name according to the existing taxonomic hierarchy. For example, if the new submitted original taxa name is a new species that does not occur in the EPD or Neotoma, and there is an existing accepted name at genus level, then the new species name is assigned the accepted name at the genus level. The assignment of accepted names is complicated because it requires an appreciation of differences in pollen morphology and of the reliability of identification, which can vary given the differences in skill and experience of the different analysts who contribute to the database. In addition, there are also important geographical considerations to take into account. For instance, the EMPD conforms to the EPD-accepted names but these are heavily European orientated, while the EMPD has much more data from regions such as eastern Asia where some of the accepted names are not strictly appropriate. However, in all cases we have retained in the EMPD all of the original taxa names as they were submitted by the original contributor after cleaning for typographical errors.

In the process of updating the EMPD we have harmonised as much as possible the taxa names in the EMPD with those found in the current EPD, including those names previously in the EMPD1 that have since been included in the EPD. When both the EPD and EMPD are included in the Neotoma database, then all of the taxa will exist in a single standardised taxa table consisting of all of the taxa in all of the databases.

https://essd.copernicus.org/articles/12/2423/2020/essd-12-2423-2020-f02

Figure 2A comparison of the number of samples in EMPD versions 1 and 2, by country. Countries with only small numbers of samples are listed at the bottom; values in brackets indicate new samples in EMPD2.

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Once the pollen data and metadata entry tables had been manually completed and checked, these were then uploaded into a Postgres database where a second series of automated quality control procedures were undertaken. These automated checks repeated many of the earlier manual checks, including ensuring that all open and closed fields were correctly completed and that the taxa names conformed to the database standardised taxa names (the “p_vars” table). In addition, it was also necessary to manually standardise worker names, address details, and data references across different datasets submitted to the database.

After the data had passed these database checks, each contributor was then asked to look again at their data as they were now stored in the database. Contributors were able to do this using the online data viewer, which provided an intuitive interface to the database that could be navigated without any prior experience of database systems. Locations for each site/sample could be checked using the viewer map interface, pollen data could be checked using a graphical (histogram) display, and metadata could be checked using a table view of all of the metadata fields. Any issues highlighted by the contributors were then corrected in the database. It was only after completing these final contributor checks that the EMPD2 database was deemed suitable for public release.

As well as adding new data, we also undertook a short review of the data in the original EMPD1. A cross-check between the country attributed to a site and the actual country where the site was located revealed that around 20 sites had either the wrong location or wrong country code. The geolocation data for around 250 samples in Morocco in EMPD1 have now been removed and placed in the information field. These were all highlighted in EMPD1 as having intractable geolocation errors (Davis et al., 2013), and it was felt that by removing the corrupt information from the geolocation field it would discourage their accidental use. In compensation the EMPD2 now includes new high-quality data from Morocco (see next section).

3 Results
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3.1 Spatial sampling

The amount of data in the database has increased by 60 %, and the EMPD2 now holds 8134 samples compared to 4826 samples in the EMPD1. The country that has experienced the largest increase in samples is Russia, which has gained 2274 more samples on top of the 379 samples already in the EMPD1 (Fig. 1). Other significant improvements in data coverage have been made in Italy, Norway, and Spain, while data are available for the first time from other countries such as Japan, Cyprus, and Kyrgyzstan. The increase in data from Russia reflects a general improvement in data coverage in EMPD2 from eastern Europe across to Asia (Fig. 2), prompting a renaming of the database from the “European” to the “Eurasian” Modern Pollen Database.

Countries where there are still relatively few or no samples despite being both relatively populous and having an active palynological community include Belgium, the Netherlands, Hungary, Czech Republic, and Slovakia. There are also virtually no samples from the Balkans. Despite the generally excellent coverage over Scandinavia, north-central Sweden remains poorly sampled, a feature that is also reflected in the lack of fossil pollen data from this area in the EPD. Further east, the distribution of samples tends to be best in the more populous regions and those with better transport infrastructure. Notable areas across northern Eurasia where we still lack samples include the steppes of Ukraine and Kazakhstan and the Central Siberian Plateau. Further south, most of China and Mongolia are well covered by the Chinese Pollen Database (now partly released by Herzschuh et al., 2019), and as mentioned earlier, there are efforts in India to improve data coverage in this region. A more difficult problem is the lack of samples from many of the Central Asian countries including Turkmenistan, Uzbekistan, Tajikistan, Afghanistan, and to some extent Pakistan, where access for scientists is currently difficult or hazardous, and where there are few locally trained scientists. The lack of modern pollen data from these regions is also reflected in a lack of fossil pollen studies from these countries.

https://essd.copernicus.org/articles/12/2423/2020/essd-12-2423-2020-f03

Figure 3Map of samples included in EMPD versions 1 and 2 and two other datasets (see text).

https://essd.copernicus.org/articles/12/2423/2020/essd-12-2423-2020-f04

Figure 4Distribution of samples by altitude for the Palearctic region (compared to land area at each altitude).

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3.2 Altitudinal sampling

The representativeness of the sample coverage in the vertical spatial domain is not easily discernible from a standard two-dimensional map presented in Fig. 3. Vertical climate and vegetation gradients are much steeper than horizontal gradients, and hilly and mountainous terrain typically holds a greater variety of vegetation and climate types than can be shown on a continental-scale map. We make a better attempt to show this by plotting the distribution of samples by altitude on a hypsometric (or cumulative frequency) curve for the Palearctic study region (Fig. 4). This shows that the number of samples generally follows the proportion of land area represented at each elevation, with more samples at lower altitude, but there is still the presence of samples as the altitude gets higher. Data coverage has improved in particular in the 500–2500 m range between EMPD1 and EMPD2. The upper part of the altitudinal range above 3500 m is dominated by the Himalayas and the Tibetan Plateau, which is covered by the Chinese Pollen Database (Herzschuh et al., 2019).

3.3 Climate and vegetation sampling

The distribution of the EMPD2 samples across the vegetation biomes of the region (from Olson et al., 2001) is shown in Fig. 4. Biomes that are well sampled within the Palearctic region include most of those that occur in Europe, namely Mediterranean scrub and temperate forests and the western range of the boreal forest/taiga and tundra. Less well sampled are the temperate shrub and grasslands and deserts of the Central Asian steppe, and the eastern range of the boreal forest/taiga and tundra. Again, the Chinese Pollen Database (Herzschuh et al., 2019) covers much of the montane biomes of the Himalayas and Tian Shan, the grasslands and deserts of the Gobi area and Mongolia, and temperate and tropical forest biomes of East Asia.

While a conventional map such as Fig. 5a can show how samples are distributed across different biomes in geographical space, it does not show how well those samples are distributed in climate space. Large areas of Earth may have the same or similar climate, and the distribution of samples in conventional space does not necessarily equate to how well climate space has been sampled. Climate space is important because pollen-based climate reconstructions depend on the use of modern pollen calibration datasets that fully sample the available climate space associated with any particular vegetation type. Figure 5b shows the same information as Fig. 5a, but this time in climate space. This indicates that the EMPD2 samples appear better distributed in climate space than geographical space, but that there are fewer samples to represent the more extreme climates found at the edges of the modern climate space (such as tundra, deserts, and xeric scrublands). This is shown more clearly in Fig. 6b, where the Euclidean distance is calculated between the climate of each of the pollen samples in EMPD2 and all of the available climate space of the Palearctic region. This was done using mean annual temperature and precipitation from the WorldClim2 modern climatology (Fick and Hijmans, 2017), normalised to make the different scales comparable. The climate of the pollen site were assigned according to the nearest grid point within the 30 second (approximately 1km2) resolution of the WorldClim2 grid, whilst the climate of the region was taken from the grid itself. The darker regions around the edges of the climate space show where in climate space the EMPD2 still lacks representative samples. These poorly represented climates are then shown in physical space in Fig. 6a. This indicates poor representation in the North African and Persian deserts, which are outside the Palearctic study region, but also areas within the Palearctic region including the Central Asian steppe and more mountainous areas of the Central Siberian Plateau and Siberia east of Yakutsk (130 E).

https://essd.copernicus.org/articles/12/2423/2020/essd-12-2423-2020-f05

Figure 5(a) Biome map and sample locations. (b) Biomes and samples in climate space. Biome data from Olson et al. (2001)

https://essd.copernicus.org/articles/12/2423/2020/essd-12-2423-2020-f06

Figure 6(a) The Euclidian distance between the climate of each modern pollen sample location (as shown in Fig. 3) and the climate of the entire Palearctic region. (b) The same as (a) but shown in climate space. Note that for clarity the values < 0.05 are shown by dark grey in (a), but white in (b). The darker the brown shading, the less well that climate is represented amongst the samples. The climate of each pollen site was assigned according to the nearest grid point within the 30 s (approximately 1 km2) resolution of the WorldClim2 grid, whilst the climate of the region was taken from the grid itself.

4 Discussion
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The increase in size of the EMPD in version EMPD2 has greatly improved the coverage of modern pollen samples across Eurasia in relation to geographical, vegetation, and climate space. This will make it possible to create more accurate reconstructions of past land cover and climate given the commensurate improvements in available climate and vegetation analogues of fossil pollen samples. The database continues to increase in size through a mixture of newly submitted samples from old studies that predate EMPD1 and more recent studies that have occurred since EMPD1 was first made available. It is still likely that older data will continue to be submitted to the database, especially as it becomes better known, but it is unlikely that the database will continue to grow at the present rate given that much of the available older data are now expected to have been submitted. However, surface sample work has traditionally been less likely to be published in international journals, often confined to Masters or PhD theses or other grey literature, and the amount of data in existence may therefore be difficult to estimate.

https://essd.copernicus.org/articles/12/2423/2020/essd-12-2423-2020-f07

Figure 7Screen grab of the EMPD online data viewer (available at https://empd2.github.io, last access: 20 January 2020).

To help promote access and use of the EMPD, we have created an online data viewer https://empd2.github.io (last access: 20 January 2020) (Fig. 7) (Sommer et al., 2020). This allows the database to be viewed using an intuitive clickable map that displays the location of each sample, associated metadata, and a plot of the pollen data themselves. It is also possible to download the data associated with a sample and to make suggested corrections. Other options allow the user to select subsets of the database to be viewed, for instance associated with particular individuals, projects, or research groups. The EMPD viewer allows access to the database in an intuitive way without requiring any particular computer expertise. This has been very important in not only allowing the casual user to view and access the data in the database, but also in allowing the data submitters to view their data as they exist in the database after they have been processed, providing a further quality control check. The data viewer is open source and can be adapted for other uses.

The EMPD data viewer is embedded in a web framework that is based on the version control system GitHub, where users and data contributors can transparently submit new data or raise issues with the existing data. These can then be reviewed in an open discussion with the database managers. This framework allows ongoing development of the EMPD in the future, and the usage of a free version control system additionally ensures full transparency, stability, and maintainability of access to the data, independent of funding and changing collaborations.

As well as simply adding more samples as they are submitted, we hope that the future development of the EMPD will also be more targeted. It is clear that although sample coverage is much improved in EMPD2, gaps still exist in the data coverage for Eurasia that would be useful to fill (Figs. 4–6). One way to do this is to encourage fieldwork to collect samples from these data-poor regions. This approach however is expensive, since the reason why many of these areas remain unsampled is precisely because of their remoteness and the difficulty and expense involved in accessing them. An alternative that has not been widely exploited is to analyse soil and sediment samples gathered as a result of fieldwork expeditions organised with a different objective in mind. We hope that by demonstrating the important sampling gaps in the database it will encourage individuals and research groups to consider fieldwork and data analysis in these underrepresented regions.

5 Ethical statement and how to acknowledge the database
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Users of the database are expected to follow the guidelines of the EPD. These state that normal ethics apply to co-authorship of scientific publications. Palaeoecological datasets are labour intensive and complex, they take many years to generate, and they may have additional attributes and metadata not captured in the EMPD/EPD. Users of data stored in the EMPD/EPD should consider inviting the original data contributor of any resultant publications if that contributor's data are a major portion of the dataset analysed, or if a data contributor makes a significant contribution to the analysis of the data or to the interpretation of results. For large-scale studies using many EMPD/EPD records, contacting all contributors or making them co-authors will not be practical, possible, or reasonable. Under no circumstance should authorship be attributed to data contributors, individually or collectively, without their explicit consent.

In all cases, any use of EMPD data should include the following or similar text in the acknowledgements: “Pollen data were extracted from the Eurasian Modern Pollen Database (part of the European Pollen Database), and the work of the data contributors and the EMPD/EPD community is gratefully acknowledged.” Upon publication, please send to the EMPD/EPD a copy of the published work or a link to the electronic resource. Your assistance helps document the usage of the database, which is critical to ensure continued support from funders and contributors.

6 Data availability
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The EMPD is available at https://doi.org/10.1594/PANGAEA.909130 (Chevalier et al., 2019). The data are available as (1) an Excel spreadsheet, (2) a PostgreSQL dump, and (3) a SQLite3 portable database format. The data can also be viewed online using an interactive map-based viewer at https://empd2.github.io/?branch=master (last access: 20 January 2020).

7 Conclusions
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The EMPD remains the only public, quality-controlled, and standardised database of modern pollen samples for the Eurasian region. This paper describes a recent update to the EMPD in which the database has increased almost 60 % in size, so that it now contains data on 8663 modern pollen samples. This reflects an expansion in spatial coverage across northern and eastern Asia, which has prompted a change in the name of the database from the European to the Eurasian Modern Pollen Database. The improvement in spatial coverage has increased the number of vegetation and climate analogues for fossil pollen samples in the region that will directly improve reconstructions of past vegetation and climate. However, areas of poor data coverage still exist, particularly in the more remote regions of central and northern Asia and the Middle East. Development of a new map-based online data viewer for the database is already helping improve access to, and participation in, the EMPD, as well as quality control. We expect the EMPD to continue to grow in the future, although probably at a slower rate given that most of the previously published “heritage” data have now been incorporated. At present the EMPD remains associated with, but physically independent of, the EPD. It is also subject to only periodic updates. In future we expect both the EPD and EMPD to become fully incorporated into the global Neotoma Palaeoecological Database, which will provide seamless integration of the fossil and modern data, whilst also allowing continual updates using Neotoma data management tools.

Author contributions
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Author contributions. 

BASD wrote the manuscript with input from all of the authors. BASD, MC, and PS designed and implemented the database and data viewer. BASD, MC, PS, MZ, WF, LNP, AM, and VC all helped with data processing. All of the remaining authors contributed pollen sample data and were involved in the original collection, preparation, identification, and counting of these data.

Competing interests
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Competing interests. 

The authors declare that they have no conflict of interest.

Acknowledgements
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Acknowledgements. 

The EMPD includes data obtained from the Neotoma Palaeoecology Database and the European Pollen Database. The work of the data contributors and the scientific community supporting these databases is gratefully acknowledged.

Financial support
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Financial support. 

This research has been supported by the Swiss National Science Foundation (grant no. 200021_169598), with additional support from the University of Lausanne.

Review statement
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Review statement. 

This paper was edited by Thomas Blunier and reviewed by two anonymous referees.

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The Eurasian Modern Pollen Database (EMPD) contains pollen counts and associated metadata for 8134 modern pollen samples from across the Eurasian region. The EMPD is part of, and complementary to, the European Pollen Database (EPD) which contains data on fossil pollen found in Late Quaternary sedimentary archives. The purpose of the EMPD is to provide calibration datasets and other data to support palaeoecological research on past climates and vegetation cover over the Quaternary period.
The Eurasian Modern Pollen Database (EMPD) contains pollen counts and associated metadata for...
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