RAINBIO: a mega-database of tropical African vascular plants distributions

. 2016 ; (74) : 1-18. [epub] 20161107

Status PubMed-not-MEDLINE Jazyk angličtina Země Bulharsko Médium electronic-ecollection

Typ dokumentu časopisecké články

Perzistentní odkaz   https://www.medvik.cz/link/pmid28127234

The tropical vegetation of Africa is characterized by high levels of species diversity but is undergoing important shifts in response to ongoing climate change and increasing anthropogenic pressures. Although our knowledge of plant species distribution patterns in the African tropics has been improving over the years, it remains limited. Here we present RAINBIO, a unique comprehensive mega-database of georeferenced records for vascular plants in continental tropical Africa. The geographic focus of the database is the region south of the Sahel and north of Southern Africa, and the majority of data originate from tropical forest regions. RAINBIO is a compilation of 13 datasets either publicly available or personal ones. Numerous in depth data quality checks, automatic and manual via several African flora experts, were undertaken for georeferencing, standardization of taxonomic names and identification and merging of duplicated records. The resulting RAINBIO data allows exploration and extraction of distribution data for 25,356 native tropical African vascular plant species, which represents ca. 89% of all known plant species in the area of interest. Habit information is also provided for 91% of these species.

Botanic Garden Meise Nieuwelaan 38 1860 Meise Belgium

Centre for Ecology Evolution and Environmental Changes Faculty of Sciences University of Lisbon Campo Grande 1749 016 Lisbon Portugal

CIBIO InBio Centro de Investigação em Biodiversidade e Recursos Genéticos Universidade do Porto Campus Agrário de Vairão Vairão Portugal; CEABN InBio Centro de Ecologia Aplicada Professor Baeta Neves Instituto Superior de Agronomia Universidade de Lisboa Tapada da Ajuda 1349 017 Lisboa Portugal

Herbarium et Bibliothèque de Botanique Africaine Université Libre de Bruxelles Boulevard du Triomphe B 1050 Bruxelles Belgium

Herbarium et Bibliothèque de Botanique Africaine Université Libre de Bruxelles Boulevard du Triomphe B 1050 Bruxelles Belgium; Botanic Garden Meise Nieuwelaan 38 1860 Meise Belgium; Missouri Botanical Garden Africa and Madagascar Department St Louis United States of America

Herbarium et Bibliothèque de Botanique Africaine Université Libre de Bruxelles Boulevard du Triomphe B 1050 Bruxelles Belgium; Laboratoire d'Ecologie végétale et Biogéochimie Université Libre de Bruxelles Boulevard du Triomphe B 1050 Bruxelles Belgium

Institut de Recherche pour le Développement UMR AMAP Boulevard de la Lironde TA A 51 PS 2 34398 Montpellier France

Institut de Recherche pour le Développement UMR AMAP Boulevard de la Lironde TA A 51 PS 2 34398 Montpellier France; Herbarium et Bibliothèque de Botanique Africaine Université Libre de Bruxelles Boulevard du Triomphe B 1050 Bruxelles Belgium; Laboratoire de Botanique Systématique et d'Écologie École Normale Supérieure Université de Yaoundé 1 PO Box 047 Yaoundé Cameroon; Missouri Botanical Garden Africa and Madagascar Department St Louis United States of America

Institut de Recherche pour le Développement UMR DIADE 911 Avenue Agropolis 34394 Montpellier France

Institut de Recherche pour le Développement UMR DIADE 911 Avenue Agropolis 34394 Montpellier France; Herbarium et Bibliothèque de Botanique Africaine Université Libre de Bruxelles Boulevard du Triomphe B 1050 Bruxelles Belgium; Laboratoire de Botanique Systématique et d'Écologie École Normale Supérieure Université de Yaoundé 1 PO Box 047 Yaoundé Cameroon

Institut de Recherche pour le Développement UMR DIADE 911 Avenue Agropolis 34394 Montpellier France; Laboratoire d'évolution Biologique et Ecologie Faculté des Sciences Université Libre de Bruxelles CP160 12 avenue F D Roosevelt 50 1050 Bruxelles Belgium; CESAB FRB Domaine du Petit Arbois Av Louis Philibert Aix en Provence 13100 France

Institut de Recherche pour le Développement UMR DIADE 911 Avenue Agropolis 34394 Montpellier France; Laboratoire de Botanique Systématique et d'Écologie École Normale Supérieure Université de Yaoundé 1 PO Box 047 Yaoundé Cameroon; Naturalis Biodiversity Center Darwinweg 2 2333 CR Leiden The Netherlands

Institut für Geobotanik und Botanischer Garten University Halle Wittenberg Neuwerk 21 06108 Halle Germany

Laboratoire d'évolution Biologique et Ecologie Faculté des Sciences Université Libre de Bruxelles CP160 12 avenue F D Roosevelt 50 1050 Bruxelles Belgium

Laboratoire de Botanique Systématique et d'Écologie École Normale Supérieure Université de Yaoundé 1 PO Box 047 Yaoundé Cameroon

Laboratoire des Sciences du Climat et de l'Environnement LSCE IPSL CEA CNRS UVSQ Université Paris Saclay F 91191 Gif sur Yvette France

Missouri Botanical Garden Africa and Madagascar Department St Louis United States of America

Naturalis Biodiversity Center Darwinweg 2 2333 CR Leiden The Netherlands

Naturalis Biodiversity Center Darwinweg 2 2333 CR Leiden The Netherlands; Department of Ecology Faculty of Science Charles University Vinicna 7 CZ 12843 Prague Czech Republic

Naturalis Biodiversity Center Darwinweg 2 2333 CR Leiden The Netherlands; Picturae De Droogmakerij 12 1851LX Heiloo The Netherlands

Naturalis Biodiversity Center Darwinweg 2 2333 CR Leiden The Netherlands; Wageningen University Biosystematics Group Droevendaalsesteeg 1 6708 PB Wageningen The Netherlands

Royal Botanic Gardens Kew Richmond Surrey TW9 3AE UK

Section for Ecoinformatics and Biodiversity Department of Bioscience Aarhus University Ny Munkegade 114 DK 8000 Aarhus C Denmark

Wageningen University Biosystematics Group Droevendaalsesteeg 1 6708 PB Wageningen The Netherlands

Zobrazit více v PubMed

African Plants Database (2015) African Plants Database (version 3.4.0). Conservatoire et Jardin botaniques de la Ville de Genève and South African National Biodiversity Institute, Pretoria: http://www.ville-ge.ch/musinfo/bd/cjb/africa/

APG III (2009) An update of the Angiosperm Phylogeny Group classification for the orders and families of flowering plants: APG III. Botanical Journal of the Linnean Society 161: 105–121. doi: 10.1111/j.1095-8339.2009.00996.x DOI

Bini LM, Diniz-Filho JAF, Rangel TFLVB, Bastos RP, Pinto MP. (2006) Challenging Wallacean and Linnean shortfalls: knowledge gradients and conservation planning in a biodiversity hotspot. Diversity and Distributions 12: 475–482. doi: 10.1111/j.1366-9516.2006.00286.x DOI

Blach-Overgaard A, Balslev H, Dransfield J, Normand S, Svenning J-C. (2015) Global-change vulnerability of a key plant resource, the African palms. Scientific Reports 5: 12611. doi: 10.1038/srep12611 PubMed DOI PMC

Blach-Overgaard A, Kissling WD, Dransfield J, Balslev H, Svenning J-C. (2013) Multimillion-year climatic effects on palm species diversity in Africa. Ecology 94: 2426–2435. doi: 10.1890/12-1577.1 PubMed DOI

Blach-Overgaard A, Svenning JC, Dransfield J, Greve M, Balslev H. (2010) Determinants of palm species distributions across Africa: the relative roles of climate, non-climatic environmental factors, and spatial constraints. Ecography 33: 380–391. doi: 10.1111/j.1600-0587.2010.06273.x DOI

Boyle B, Hopkins N, Lu Z, Garay JAR, Mozzherin D, Rees T, Matasci N, Narro ML, Piel WH, Mckay SJ. (2013) The taxonomic name resolution service: an online tool for automated standardization of plant names. BMC Bioinformatics 14: 16. doi: 10.1186/1471-2105-14-16 PubMed DOI PMC

Chamberlain S, Ram K, Barve V, Mcglinn D. (2016) rgbif: Interface to the Global Biodiversity Information Facility. R package version 0.4.0. http://CRAN.R-project.org/package=rgbif

Dauby G. (2012) Structuration spatiale de la diversité intra- et interspécifique en Afrique Centrale: le cas des forêts Gabonaises. Université Libre de Bruxelles, Brussels: http://difusion.ulb.ac.be/vufind/Record/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/209761/Holdings

Dauby G, Hardy OJ, Leal M, Breteler F, Stévart T. (2014) Drivers of tree diversity in tropical rain forests: new insights from a comparison between littoral and hilly landscapes of Central Africa. Journal of Biogeography 41: 574–586. doi: 10.1111/jbi.12233 DOI

Droissart V. (2009) Etude taxonomique et biogéographique des plantes endémiques d’Afrique centrale atlantique: le cas des Orchidaceae. Université Libre de Bruxelles, Bruxelles: http://difusion.ulb.ac.be/vufind/Record/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/210364/Holdings

Droissart V, Hardy OJ, Sonké B, Dahdouh-Guebas F, Stévart T. (2012) Subsampling Herbarium Collections to Assess Geographic Diversity Gradients: A Case Study with Endemic Orchidaceae and Rubiaceae in Cameroon. Biotropica 44: 44–52. doi: 10.1111/j.1744-7429.2011.00777.x DOI

Droissart V, Sonké B, Hardy OJ, Simo M, Taedoumg H, Nguembou CK, Stévart T. (2011) Do plant families with contrasting functional traits show similar patterns of endemism? A case study with Central African Orchidaceae and Rubiaceae. Biodiversity and Conservation 20: 1507–1531. doi: 10.1007/s10531-011-0042-z DOI

Enquist BJ, Condit R, Peet B, Schildhauer M, Thiers B, BIEN working group (2009) The Botanical and Information Ecology Network (BIEN): Cyberinfrastructure for an integrated botanical information network to investigate the ecological impacts of global climate change on plant biodiversity. http://www.iplantcollaborative.org/sites/default/files/BIEN_White_Paper.pdf [25 August 2014]

Feeley KJ, Silman MR. (2011) The data void in modeling current and future distributions of tropical species. Global Change Biology 17: 626–630. doi: 10.1111/j.1365-2486.2010.02239.x DOI

Gaston KJ. (2000) Global patterns in biodiversity. Nature 405: 220–227. doi: 10.1038/35012228 PubMed DOI

Govaerts R, Dransfield J, Zona S, Hodel D, Henderson A. (2009) World checklist of selected plant families. The Board of Trustees of the Royal Botanic Gardens, Kew: Published on internet: http://apps.kew.org/wcsp

Hansen MC, Potapov PV, Moore R, Hancher M, Turubanova SA, Tyukavina A, Thau D, Stehman SV, Goetz SJ, Loveland TR, Kommareddy A, Egorov A, Chini L, Justice CO, Townshend JRG. (2013) High-Resolution Global Maps of 21st-Century Forest Cover Change. Science 342: 850–853. doi: 10.1126/science.1244693 PubMed DOI

Harris DJ. (2002) The vascular plants of the Dzanga-Sangha Reserve. Scripta Botanica Belgica 23: 1–274.

Heerlien M, van Leusen J, Schnörr S, de Jong-Kole S, van Hulsen K. (2015) The natural history production line: an industrial approach to the digitization of scientific collections. ACM Journal on Computing and Cultural Heritage 8: 1. doi: 10.1109/DigitalHeritage.2013.6744766 DOI

van Kleunen M, Dawson W, Essl F, Pergl J, Winter M, Weber E, Kreft H, Weigelt P, Kartesz J, Nishino M, Antonova LA, Barcelona JF, Cabezas FJ, Cárdenas D, Cárdenas-Toro J, Castaño N, Chacón E, Chatelain C, Ebel AL, Figueiredo E, Fuentes N, Groom QJ, Henderson L, Inderjit Kupriyanov A, Masciadri S, Meerman J, Morozova O, Moser D, Nickrent DL, Patzelt A, Pelser PB, Baptiste MP, Poopath M, Schulze M, Seebens H, Shu W, Thomas J, Velayos M, Wieringa JJ, Pyšek P. (2015) Global exchange and accumulation of non-native plants. Nature 525: 100–103. doi: 10.1038/nature14910 PubMed DOI

Klopper RR, Gautier L, Chatelain C, Smith GF, Spichiger R. (2007) Floristics of the Angiosperm Flora of Sub-Saharan Africa: An Analysis of the African Plant Checklist and Database. Taxon 56: 201–208. doi: 10.2307/25065751 DOI

Küper W, Sommer JH, Lovett JC, Barthlott W. (2006) Deficiency in African plant distribution data – missing pieces of the puzzle. Botanical Journal of the Linnean Society 150: 355–368. doi: 10.1111/j.1095-8339.2006.00494.x DOI

Lewis SL, Lloyd J, Sitch S, Mitchard ETA, Laurance WF. (2009) Changing Ecology of Tropical Forests: Evidence and Drivers. Annual Review of Ecology, Evolution, and Systematics 40: 529–549. doi: 10.1146/annurev.ecolsys.39.110707.173345 DOI

Linder HP, de Klerk HM, Born J, Burgess ND, Fjeldså J, Rahbek C. (2012) The partitioning of Africa: statistically defined biogeographical regions in sub-Saharan Africa. Journal of Biogeography 39: 1189–1205. doi: 10.1111/j.1365-2699.2012.02728 DOI

Mackinder BA, Harris DJ. (2006) A synopsis of the genus Berlinia (Leguminosae–Caesalpinioideae). Edinburgh Journal of Botany 63: 161–182. doi: 10.1017/S0960428606000631 DOI

Mackinder BA, Pennington TR. (2011) A monograph of Berlinia (Leguminosae: Caesalpinioideae). Systematic Botany Monographs 91: 117.

Mayaux P, Bartholomé E, Fritz S, Belward A. (2004) A new land-cover map of Africa for the year 2000. Journal of Biogeography 31: 861–877. doi: 10.1111/j.1365-2699.2004.01073.x DOI

McClean CJ, Lovett JC, Kuper W, Hannah L, Sommer JH, Barthlott W, Termansen M, Smith GE, Tokamine S, Taplin JRD. (2005) African plant diversity and climate change. Annals of the Missouri Botanical Garden 92: 139–152. http://www.jstor.org/stable/3298511

Oever JP, Gofferjé M. (2012) ‘From Pilot to production’: Large Scale Digitisation project at Naturalis Biodiversity Center. In: Blagoderov V, Smith VS. (Eds) No specimen left behind: mass digitization of natural history collections. ZooKeys 209: 87–92. doi: 10.3897/zookeys.209.3609 PubMed DOI PMC

Olson DM, Dinerstein E, Wikramanayake ED, Burgess ND, Powell GVN, Underwood EC, D’amico JA, Itoua I, Strand HE, Morrison JC, Loucks CJ, Allnutt TF, Ricketts TH, Kura Y, Lamoreux JF, Wettengel WW, Hedao P, Kassem KR. (2001) Terrestrial Ecoregions of the World: A new map of life on earth: a new global map of terrestrial ecoregions provides an innovative tool for conserving biodiversity. BioScience 51: 933–938. doi: 10.1641/0006-3568(2001)051[0933:TEOTWA]2.0.CO;2 DOI

Paton AJ, Brummitt N, Govaerts R, Harman K, Hinchcliffe S, Allkin B, Lughadha EN. (2008) Towards target 1 of the Global Strategy for Plant Conservation: a working list of all known plant species-progress and prospects. Taxon 57: 602–611. http://www.jstor.org/stable/25066027

R Core Team (2015) R: a language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria: https://www.R-project.org/

ter Steege H, Vaessen RW, Cárdenas-López D, Sabatier D, Antonelli A, de Oliveira SM, Pitman NCA, Jørgensen PM, Salomão RP. (2016) The discovery of the Amazonian tree flora with an updated checklist of all known tree taxa. Scientific Reports 6: 29549. doi: 10.1038/srep29549 PubMed DOI PMC

Stropp J, Ladle RJ, Malhado ACM, Hortal J, Gaffuri J, Temperley WH, Olav Skøien J, Mayaux P. (2016) Mapping ignorance: 300 years of collecting flowering plants in Africa: 300 Years of collecting flowering plants in Africa. Global Ecology and Biogeography 25: 1085–1096. doi: 10.1111/geb.12468 DOI

Thiers B. [continuously updated] Index Herbariorum: A global directory of public herbaria and associated staff. New York Botanical Garden’s Virtual Herbarium; http://sweetgum.nybg.org/science/ih/

Wieczorek J, Bloom D, Guralnick R, Blum S, Döring M, Giovanni R, Robertson T, Vieglais D. (2012) Darwin Core: an evolving community-developed biodiversity data standard. PLoS ONE 7(1): e29715. doi: 10.1371/journal.pone.0029715 PubMed DOI PMC

Wieringa JJ, Sosef MSM. (2011) The applicability of relative floristic resemblance to evaluate the conservation value of protected areas. Plant Ecology and Evolution 144: 242–248. doi: 10.5091/plecevo.2011.588 DOI

Najít záznam

Citační ukazatele

Nahrávání dat ...

Možnosti archivace

Nahrávání dat ...