Jump to content Jump to navigation

Niels Raes

Dr. N. (Niels) Raes, Senior Project Manager, ISBI department

Contact

Email: niels.raes@naturalis.nl
Phone: +31(0)71 751 9136
Room number: Vondellaan 55, e05.36
“A single virtual European natural history collection (DiSSCo) opens unprecedented scientific and societal opportunities”

As scholar and student, I was fascinated by the variety of life, especially that in tropical jungles and on coral reefs. Soon I figured out that primary producers, plants, determine much of the existence of other life forms, which motivated me to study botanical ecology. After having inventoried many hectare plots of tropical rainforest in Guyana and Bolivia during my MSc. studies and thereafter I gained a thorough understanding of liana ecology and - biodiversity, and how liana communities are impacted by selective logging. Then, during my Ph.D. the opportunity arose to scale up my biodiversity studies to the entire island of Borneo. During this period, I developed my skills on species distribution modelling, spatial analyses and biodiversity informatics that I used in a wide variety of research projects. Being social, creative  and open minded has led to many collaborations in various fields of ecology where digitized collections and species distribution models have an added and unique value.

Recently, I joined the Naturalis' department on 'International Collaboration ('Samenwerking' - in Dutch) on Biodiversity Infrastructures' (ISBI) where I use my expertise on the use of digitized naturalis history collections in a wide variety biodiversity and ecology related research topics for the development of DiSSCo, the 'Distributed System of Scientific Collections' and other Biodiversity Infrastructure projects.

Career

I studied Biology at Universiteit Utrecht, where I graduated in 1998. Between 1999 and 2003 I worked as research associate at Utrecht University, as botanist on an expedition to the Kaw Mountains in French Guiana, and as botanical ecologist at Proyecto Bolfor in Bolivia where I studied liana diversity in relation to selective logging. From 2003-2008 I conducted my Ph.D. research on the botanical diversity and phytogeography of Borneo at the National Herbarium of the Netherlands, Leiden University. After having been project coordinator 'Ecology' at a Dutch conservation NGO (Landschap Noord-Holland) for 1 year (2009), I obtained a position as research fellow on botanical biodiversity patterns of Sundaland at the National herbarium of the Netherlands (2010-2018). During this period all natural history collections have been brought together in Naturalis Biodiversity Center. That is were I currently (2018-present) hold a position as senior project manager in the department on International Collaboration on Biodiversity Infrastructures (ISBI). In this position I am mainly engaged with the development of DiSSCO, the "Distributed System of Scientific Collections" (http://dissco.eu) and ICEDIG, “Innovation and consolidation for large scale digitisation of natural heritage” (http://icedig.eu/).

Research

Research interest

As member of the Naturalis' department on International Collaboration on Biodiversity Infrastructures (ISBI) I am involved in DiSSCo, the "Distributed System of Scientific Collections" (http://dissco.eu/) and the related ICEDIG project, “Innovation and consolidation for large scale digitisation of natural heritage” (http://icedig.eu/). DiSSCo is a Research Infrastructure (RI) that will unify access to natural history collection data in a harmonised and integrated manner across Europe. As an expert on species distribution models (SDMs) I have a long history using digitized natural history collections and all possibilities and difficulties of the use of these data that I contribute to the development of DiSSCo and other Biodiversity Infrastructures.

Keywords

ecology, climate change, biodiversity informatics, climate-smart agriculture, species distribution model, biodiversity infrastructures, conservation, macroecology, spatial statistics, biodiversitybiodiversity

Current research topics

DiSSCo - Distributed System of Scientific Collections - http://dissco.eu

 

ICEDIG - Innovation and consolidation for large scale digitisation of natural heritage - http://icedig.eu/ 

 

PRIDE - Pontocaspian Rise and Demise - http://pontocaspian.eu/

Supervise Aleksandre Gogaladze in the analysis of the social network of stakeholders involved in the conservation of Pontocaspian taxa. Assist with the development of the Pontocaspian taxonomic system - PC-Tax http://mollusca.myspecies.info/ and the Pontocaspian Information System - PC-IS

Badger habitat requirements in the Netherlands

MSc. Carme Piza Roca has conducted her MSc. research at Naturalis Biodiversity Center on the distribution of badgers in the Netherlands and the underlying factors that determine their occurrence. This is a collaboration with Radboud University Nijmegen and the 'Zoogdiervereninging'.

Collaborations

  • J.W. Ferry Slik - Universiti Brunei Darussalam
  • Saw Leng Guan - Forest Research Institute Malaysia (FRIM)
  • Tetsukaza Yahara - Kyushu University
  • Tiina Sarkinen - Edinburgh Botanical Gardens
  • Charles Cannon - Texas Tech University
  • Marc Sosef - Botanic Garden Meise
  • Rodrigo Camara-Leret - Kew Botanical Gardens
  • Surya Maharjan - Wageningen University
  • Lourens Poorter - Wageningen University
  • Frank Sterk - Wageningen University

Supervision PhDs

Co-promotor/supervisor

Teaching

Courses

  • Methods of Biodiversity Analyses; Naturalis Biodiversity Center - section Botany 
  • Introduction to ArcGIS 10 – Part 2; Naturalis GeoPortal & Voyager GIS
  • Introduction to ArcGIS 10 – Part 1; Plotting species distributions on a map
  • Biodiversity: Trends in time and space; National Herbarium of the Netherlands, Leiden University
  • Richness of the World; Naturalis Biodiversity Center, Leiden
Available student projects

Public outreach

Publications

2018

Journals SCI, peer-reviewed

Gomes V.H.F., Ijff S.D., Raes N., Amaral I.L., Salomão R.P., de Souza Coelho L., de Almeida Matos F.D., Castilho C.V., de Andrade Lima Filho D., López D.C., Guevara J.E., Magnusson W.E., Phillips O.L., Wittmann F., de Jesus Veiga Carim M., Martins M.P., Irume M.V., Sabatier D., Molino J.-F., Bánki O.S., da Silva Guimarães J.R., Pitman N.C.A., Piedade M.T.F., Mendoza A.M., Luize B.G., Venticinque E.M., de Leão Novo E.M.M., Vargas P.N., Silva T.S.F., Manzatto A.G., Terborgh J., Reis N.F.C., Montero J.C., Casula K.R., Marimon B.S., Marimon B.-H., Coronado E.N.H., Feldpausch T.R., Duque A., Zartman C.E., Arboleda N.C., Killeen T.J., Mostacedo B., Vasquez R., Schöngart J., Assis R.L., Medeiros M.B., Simon M.F., Andrade A., Laurance W.F., Camargo J.L., Demarchi L.O., Laurance S.G.W., de Sousa Farias E., Nascimento H.E.M., Revilla J.D.C., Quaresma A., Costa F.R.C., Vieira I.C.G., Cintra B.B.L., Castellanos H., Brienen R., Stevenson P.R., Feitosa Y., Duivenvoorden J.F., Aymard C.G.A., Mogollón H.F., Targhetta N., Comiskey J.A., Vicentini A., Lopes A., Damasco G., Dávila N., García-Villacorta R., Levis C., Schietti J., Souza P., Emilio T., Alonso A., Neill D., Dallmeier F., Ferreira L.V., Araujo-Murakami A., Praia D., do Amaral D.D., Carvalho F.A., de Souza F.C., Feeley K., Arroyo L., Pansonato M.P., Gribel R., Villa B., Licona J.C., Fine P.V.A., Cerón C., Baraloto C., Jimenez E.M., Stropp J., Engel J., Silveira M., Mora M.C.P., Petronelli P., Maas P., Thomas-Caesar R., Henkel T.W., Daly D., Paredes M.R., Baker T.R., Fuentes A., Peres C.A., Chave J., Pena J.L.M., Dexter K.G., Silman M.R., Jørgensen P.M., Pennington T., Di Fiore A., Valverde F.C., Phillips J.F., Rivas-Torres G., von Hildebrand P., Andel, T.R. van, Ruschel A.R., Prieto A., Rudas A., Hoffman B., Vela C.I.A., Barbosa E.M., Zent E.L., Gonzales G.P.G., Doza H.P.D., de Andrade Miranda I.P., Guillaumet J.-L., Pinto L.F.M., de Matos Bonates L.C., Silva N., Gómez R.Z., Zent S., Gonzales T., Vos V.A., Malhi Y., Oliveira A.A., Cano A., Albuquerque B.W., Vriesendorp C., Correa D.F., Torre E.V., van der Heijden G., Ramirez-Angulo H., Ramos J.F., Young K.R., Rocha M., Nascimento M.T., Medina M.N.U., Tirado M., Wang O., Sierra R., Torres-Lezama A., Mendoza C., Ferreira C., Baider C., Villarroel D., Balslev H., Mesones I., Giraldo L.E.U., Casas L.F., Reategui M.A.A., Linares-Palomino R., Zagt R., Cárdenas S., Farfan-Rios W., Sampaio A.F., Pauletto D., Sandoval E.H.V., Arevalo F.R., Huamantupa-Chuquimaco I., Garcia-Cabrera K., Hernandez L., Gamarra L.V., Alexiades M.N., Pansini S., Cuenca W.P., Milliken W., Ricardo J., Lopez-Gonzalez G., Pos E., Steege, H. ter 2018. Species Distribution Modelling: Contrasting presence-only models with plot abundance data. Scientific Reports 8: 1003.
Go to website (URI)

Budiharta, S., Meijaard, E., Gaveau, D.L.A., Struebig, M.J., Wilting, A., Kramer-Schadt, S., Niedballa, J., Raes, N., Maron, M., Wilson, K.A. 2018. Restoration to offset the impacts of developments at a landscape scale reveals opportunities, challenges and tough choices. Global Environmental Change 52: 152-161.
Go to website (DOI)

Chapters in books

Raes N., Aguirre-Gutiérrez J. 2018. A Modeling Framework to Estimate and Project Species Distributions in Space and Time. C. Hoorn, A. Perrigo and A. Antonelli 309-320: John Wiley & Sons, Ltd.,

2017

Journals SCI, peer-reviewed

Wicaksono C.Y., Aguirre-Guiterrez J., Nouhra E., Pastor N., Raes N., Pacheco S., Geml J. 2017. Contracting montane cloud forests: a case study of the Andean alder (Alnus acuminata) and associated fungi in the Yungas. Biotropica 49: 141–152.
Go to website (DOI)

Amaral A.G., Munhoz C.B.R., Walter B.M.T., Aguirre-Gutiérrez J., Raes, N. 2017. Richness pattern and phytogeography of the Cerrado herb–shrub flora and implications for conservation. Journal of Vegetation Science 28: 848-858.
Go to website (DOI)

Chapters in books

Soudzilovskaia N.A., Vaessen S., Zelfde M. van ’t, Raes N. 2017. Global Patterns of Mycorrhizal Distribution and Their Environmental Drivers. Ecological Studies 230: 223-235: Springer International Publishing,
Go to website (DOI)

2016

Journals SCI, peer-reviewed

Proosdij A.S.J. van, Sosef M.S.M., Wieringa J.J., Raes N. 2016. Minimum required number of specimen records to develop accurate species distribution models. Ecography 39: 542-552.
Go to website (DOI)

Schwallier R., Raes N., de Boer H.J., Vos R.A., van Vugt R., Gravendeel B. 2016. Phylogenetic analysis of niche divergence reveals distinct evolutionary histories and climate change implications for tropical carnivorous pitcher plants . Diversity and Distributions 22: 97-110.
Go to website (DOI)

Vollering J., Schuiteman A., Vogel E. de, Vugt R. van, Raes N. 2016. Richness patterns and phytogeographic regions of New Guinea as derived from species distribution models of orchids. Journal of Biogeography 43: 204-214.
Go to website (DOI)

Proosdij A.S.J. van, Raes N., Wieringa J.J., Sosef M.S.M. 2016. Unequal Contribution of Widespread and Narrow-Ranged Species to Botanical Diversity Patterns. PLOS ONE 11: e0169200.
Go to website (URI)

2015

Journals SCI, peer-reviewed

Andel T.R. van, Croft S., Loon E.E. van, Quiroz D., Towns A.M., Raes N. 2015. Prioritizing West African medicinal plants for conservation and sustainable extraction studies based on market surveys and species distribution models. Biological Conservation 181: 173-181.
Go to website (DOI)

Aguirre-Gutiérrez J., Serna-Chavez H.M., Villalobos-Arámbula A.R., Pérez de la Rosa J.A., Raes N. 2015. Similar but not equivalent: ecological niche comparison across closely related Mexican white pines. Diversity and Distributions 21: 245-257.
Go to website (DOI)

Burridge A.K., Goetze E., Raes N., Huisman J., Peijnenburg K.T.C.A. 2015. Global biogeography and evolution of Cuvierina pteropods. BMC Evolutionary Biology 15: 1-16.
Go to website (URI)

Murray J., Grenyer R., Wunder S., Raes N., Jones J. 2015. Spatial patterns of carbon, biodiversity, deforestation threat and REDD+ projects in Indonesia. Conservation Biology 29: 1434-1445.
Go to website (DOI)

Journals non-SCI, peer-reviewed

Heerlien M., Leusen J. van, Schnörr S., Jong-Kole S. de, Raes N., Hulsen K. van 2015. The natural history production line: an industrial approach to the digitization of scientific collections. Journal on Computing and Cultural Heritage 8: 3-11.
Go to website (URI)

2014

Journals SCI, peer-reviewed

Zhang M.-G., Zhou Z.-K., Chen W.-Y., Cannon C.H., Raes N., Slik J.W.F. 2014. Major declines of woody plant species ranges under climate change in Yunnan, China. Diversity and Distributions 20: 405-415.
Go to website (DOI)

Geml J., Gravendeel B., Neilen M., Lammers Y., Raes N., Semenova T.A., Noordeloos M.E. 2014. The Contribution of DNA Metabarcoding to Fungal Conservation: Diversity Assessment, Habitat Partitioning and Mapping Red-Listed Fungi in Protected Coastal Salix repens Communities in the Netherlands. PLOS ONE 9: e99852.
Go to website (DOI)

Welker F., Duijm E., Gaag K. van der, Geel B. van, Knijff P. de, Leeuwen J. van, Mol D., Plicht J. van der, Raes N., Reumer J., Gravendeel B. 2014. Analysis of coprolites from the extinct mountain goat Myotragus balearicus. Quaternary Research 81: 106-116.
Go to website (DOI)

Budiharta S., Slik F., Raes N., Meijaard E., Erskine P.D., Wilson K.A. 2014. Estimating the Aboveground Biomass of Bornean Forest. Biotropica 46: 507-511.
Go to website (DOI)

Raes N., Cannon C.H., Hijmans R.J., Piessens T., Saw L.G., Welzen P.C. van, Slik J.W.F. 2014. Historical distribution of Sundaland’s Dipterocarp rainforests at Quaternary glacial maxima. Proceedings of the National Academy of Sciences of the United States of America 111: 16790-5.
Go to website (URI)

Edited books

Sills, E.O.; Atmadja, S.; de Sassi, C.; Duchelle, A.E.; Kweka, D.; Resosudarmo, I.A.P.; Sunderlin, W.D. (eds.). 2014. REDD+ on the ground: A case book of subnational initiatives across the globe.

Chapters in books

Murray J.P., Grenyer R., Wunder S., Raes N., and Jones J.P.G. 2014. Can REDD+ deliver biodiversity co-benefits in Indonesia?. 442-443: Center for International Forestry Research (CIFOR), Bogor, Indonesia. ISBN 978-602-1504-55-0.
Go to website (URI)

2013

Journals SCI, peer-reviewed

Yahara T., Javadi F., Onoda Y., Queiroz L.P. de, Faith D.P., Prado D.E., Akasaka M., Kadoya T., Ishihama F., Davies S., Slik J.W.F., Yi T., Ma K., Bin C., Darnaedi D., Pennington R.T., Tuda M., Shimada M., Ito M., Egan A.N., Buerki S., Raes N., Kajita T., Vatanparast M., Mimura M., Tachida H., Iwasa Y., Smith G.F., Victor J.E., Nkonki T. 2013. Global legume diversity assessment: Concepts, key indicators, and strategies. Taxon 62: 249-266.

Aguirre Gutierrez J., Carvalheiro L.G., Polce C., Loon E.E. van, Raes N., Reemer M., Biesmeijer J.C. 2013. Fit-for-Purpose: Species Distribution Model Performance Depends on Evaluation Criteria - Dutch Hoverflies as a Case Study. PLOS ONE 8: e63708.
Go to website (DOI)

Raes N., Sam L.G., Welzen P.C. van, Yahara T. 2013. Legume diversity as indicator for botanical diversity on Sundaland, South East Asia. South African Journal of Botany 38: 265-272.
Go to website (URI)

Chapters in books

Raes N., Filer D., Farjon A. 2013. Modelled conifer diversity; a pilot study. 483-486:

2012

Journals SCI, peer-reviewed

Hsu R.C.-C., Tamis W.L.M., Raes N., Snoo G.R. de, Wolf J.H.D., Oostermeijer G., Lin S.-H. 2012. Simulating climate change impacts on forests and associated vascular epiphytes in a subtropical island of East Asia. Diversity and Distributions 18: 334-347.
Go to website (DOI)

Zhang M.-G., Zhou Z.-K., Chen W.-Y., Slik J.W.F., Cannon C.H., Raes N. 2012. Using species distribution modeling to improve conservation and land use planning of Yunnan, China. Biological Conservation 153: 257-264.
Go to website (DOI)

Andel T. van, Mitchell S., Volpato G., Vandebroek I., Swier J., Ruysschaert S., Rentería Jiménez C.A., Raes N. 2012. In search of the perfect aphrodisiac: Parallel use of bitter tonics in West Africa and the Caribbean. Journal of Ethnopharmacology 143: 840-50.
Go to website (DOI)

Wielstra B., Beukema W., Arntzen J.W., Skidmore A.K., Toxopeus A.G., Raes N. 2012. Corresponding mitochondrial DNA and niche divergence for crested newt candidate species. PLOS ONE 7: e46671.
Go to website (DOI)

Raes N. 2012. Partial versus full species distribution models. Natureza & Conservação 10: 127-138.
Go to website (DOI)

2011

Journals SCI, peer-reviewed

Hoang V.S., Baas P., Kessler P.J.A., Slik J.W.F., Steege H. ter, Raes N. 2011. Human and environmental influences on plant diversity and composition in Ben En National Park, Vietnam. Journal of Tropical Forest Science 23: 328-337.

Slik J.W.F., Aiba S.-I., Bastian M., Brearley F.Q., Cannon C.H., Eichhorn K.A.O., Fredriksson G., Kartawinata K., Laumonier Y., Mansor A., Marjokorpi A., Meijaard E., Morley R.J., Nagamasu H., Nilus R., Nurtjahya E., Payne J., Permana A., Poulsen A.D., Raes N., Riswan S., Schaik C.P. van, Sheil D., Sidiyasa K., Suzuki E., Valkenburg J.L.C.H. van, Webb C.O., Wich S., Yoneda T., Zakaria R., Zweifel N. 2011. Soils on exposed Sunda Shelf shaped biogeographic patterns in the equatorial forests of Southeast Asia. Proceedings of the National Academy of Sciences of the United States of America 108: 12343-12347.
Go to website (DOI)

Journals non-SCI, peer-reviewed

Welzen P.C. van, Raes N. 2011. The floristic position of Java. Gardens’ Bulletin Singapore 63 (1&2): 329-339.

Chapters in books

Welzen P.C. van, Madern P.A. , Raes N., Parnell J.A.N., Simpson D.A., Moat J, Chayamarit K., Chantaranothai P., Boyce P.C., Bygrave P., Curtis T., Dransfield S., Esser H.-J, Jebb M.H.P., Kirkup D.W., Larsen K, Larsen S.S., Macklin J., Meade C. , Middleton D.J., Muasya A.M., Nielsen I., Prajaksood A., Pendry C.A., Pooma R., Suddee S., Sungkaew S., Teerawatananon A., Trias Blasi A., Wilkin P. 2011. The Current and Future Status of Floristic Provinces in Thailand. Information Science Reference, Hershey, PA, USA. ISBN 9781609606190.

Welzen P.C. van, Madern A., Raes N., Parnell J.A.N., Simpson D.A., Byrne C., Curtis T., Macklin J., Trias-Blasi A., Prajaksood A., Bygrave P., Dransfield S., Kirkup D.W., Moat J., Wilkin P., Couch C., Boyce P.C., Chayamarit K., Chantaranothai P., Esser H.-J., Jebb M.H.P., Larsen K., Larsen S.S., Nielsen I., Meade C., Middleton D.J., Pendry C.A., Muasya A.M., Pattharahirantricin N., Pooma R., Sudde S., Staples G.W., Sungkaew S., Teerawatananon A. 2011. The Current and Future Status of Floristic Provinces in Thailand. Information Science Reference (IGI Global), Hershey (PA).

2010

Journals SCI, peer-reviewed

Kruijer H.J.D, Raes N., Stech M. 2010. Modelling the distribution of the moss species Hypopterygium tamarisci (Hypopterygiaceae, Bryophyta) in Central and South America. Nova Hedwigia 91: 399-420.
Go to website (DOI)

Schilthuizen M., Raes N., Linder P., Triantis K., Fernandez-Palacios J.M., Whittaker R.J. 2010. Special Issue: Evolutionary Islands - 150 Years After Darwin. Journal of Biogeography 37: 983-983.
Go to website (DOI)

Hovenkamp P., Raes N. 2010. Indicators of endemism. Cladistics 26: 213-213.

Slik J.W.F., Aiba S.-I., Brearley F.Q., Cannon C.H., Forshed O., Kitayama K., Nagamasu H., Nilus R., Payne J., Paoli G., Poulsen A.D., Raes N., Sheil D., Sidiyasa K., Suzuki E., Valkenburg J.L.C.H. van 2010. Environmental correlates of tree biomass, basal area, wood specific gravity and stem density gradients in Borneo's tropical forests. Global Ecology and Biogeography 19: 50-60.
Go to website (DOI)

2009

Journals SCI, peer-reviewed

Raes N., Welzen P. C. van 2009. The demarcation and internal division of Flora Malesiana: 1857-present. Blumea: Journal of Plant Taxonomy and Plant Geography 54: 6-8.
Go to website (DOI)

Slik J.W.F., Raes N., Aiba S.-I., Brearley F.Q., Cannon C.H., Meijaard E., Nagamasu H., Nilus R., Paoli G., Poulsen A.D., Sheil D., Suzuki E., Valkenburg J.L.C.H. van, Webb C.O., Wilkie P., Wulffraat S. 2009. Environmental correlates for tropical tree diversity and distribution patterns in Borneo. Diversity and Distributions 15: 523-532.
Go to website (DOI)

Raes N., Mols J.B., Willemse L.P.M., Smets E.F. 2009. Georeferencing specimens by combining digitized maps with SRTM digital elevation data and satellite images: a Bornean case study. Blumea: Journal of Plant Taxonomy and Plant Geography 54: 162-165.
Go to website (DOI)

Raes N., Roos M.C., Slik J.W.F., Loon E.E. van, Steege H. ter 2009. Botanical richness and endemicity patterns of Borneo derived from species distribution models. Ecography 32: 180-192.
Go to website (DOI)

Chapters in books

Haripersaud P.P., Steege H. ter, Raes N., Granville J.-J. de, Chevillotte H., Hof M. 2009. Using species distribution models to determine species richness and endemism patterns for the Guianas. 75-94:

2007

Journals SCI, peer-reviewed

Raes N., Steege H. ter 2007. A null-model for significance testing of presence-only species distribution models. Ecography 30: 727-736.
Go to website (DOI)

Journals non-SCI, peer-reviewed

Raes N. 2007. Digitisation and georegistration of old expedition maps. Flora Malesiana Bulletin 14 (1&2): 30-31.

Collections


Educations