University of Gothenburg

Research publications

The scientific output from our members creates the foundation for the activities at the centre. It is important that information spread concerning biodiversity, the threats against it and possible solutions has a strong scientific foundation. Together we not only explore and discover new things about biodiversity, we also share it in the scientific community as well as to the general public.


Abarenkov K, Kristiansson E, Ryberg M, Nogal-Prata S, Gómez-Martínez D, Stüer-Patowsky K, Jansson T, Põlme S, Ghobad-Nejhad M, Corcoll N, Scharn R, Sánchez-García M, Khomich M, Wurzbacher C, Nilsson RH. The curse of the uncultured fungus. MycoKeys 2022;86:177-94

Andermann T, Antonelli A, Barrett RL, Silvestro D. Estimating Alpha, Beta, and Gamma Diversity Through Deep Learning. Frontiers in Plant Science 2022;13:839407

Andresen LC, Bodé S, Björk RG, Michelsen A, Aerts R, Boeckx P, Cornelissen JHC, Klanderud K, Van Logtestijn RSP, Rütting T. Patterns of free amino acids in tundra soils reflect mycorrhizal type, shrubification, and warming. Mycorrhiza 2022;32:305–313

Bastos Lima MG, Palme U. The Bioeconomy–Biodiversity Nexus: Enhancing or Undermining Nature’s Contributions to People? Conservation 2022;2(1):7-25

Belluardo F, Scherz MD, Santos B, Andreone F, Antonelli A, Glaw F, Muñoz-Pajares AJ, Randrianirina JE, Raselimanana AP, Vences M, Crottini A. Molecular taxonomic identification and species-level phylogeny of the narrow-mouthed frogs of the genus Rhombophryne (Anura: Microhylidae: Cophylinae) from Madagascar. Systematics and Biodiversity 2022;20(1):1-13

Calió MF, Thode VA, Bacon CD, Silvestro D, Antonelli A, Lohmann LG. Spatio-temporal evolution of the catuaba clade in the Neotropics: Morphological shifts correlate with habitat transitions. Journal of Biogeography2022;49(6):1086-98

Cássia-Silva C, Oliveira RS, Sales LP, Freitas CG, Jardim L, Emilio T, Bacon CD, Collevatti RG. Acaulescence promotes speciation and shapes the distribution patterns of palms in Neotropical seasonally dry habitats. Ecography 2022;2022(3):e06072

Ceron K, Provete DB, Pires MM, Araujo AC, Blüthgen N, Santana DJ. Differences in prey availability across space and time lead to interaction rewiring and reshape a predator–prey metaweb. Ecology 2022;103(8):e3716

Cooke R, Gearty W, Chapman ASA, Dunic J, Edgar GJ, Lefcheck JS, Rilov G, Mcclain CR, Stuart-Smith RD, Kathleen Lyons S, Bates AE. Anthropogenic disruptions to longstanding patterns of trophic-size structure in vertebrates. Nature Ecology & Evolution 2022;6:684-692

Crous PW, Boers J, …, Larsson E, …, Jeppson M, …, Groenewald JZ. Fungal Planet description sheets: 1383–1435. Persoonia - Molecular Phylogeny and Evolution of Fungi 2022;48(1):261-371

Damasco G, Anhalt M, Perdiz RO, Wittmann F, De Assis RL, Schöngart J, Piedade MTF, Bacon CD, Antonelli A, Fine PVA. Certification of açaí agroforestry increases the conservation potential of the Amazonian tree flora. Agroforestry Systems 2022;96(2):407-16

De Sousa Lira CR, Dos Santos Chikowski R, De Lima VX, Gibertoni TB, Larsson K-H. Allophlebia, a new genus to accomodate Phlebia ludoviciana (Agaricomycetes, Polyporales). Mycological Progress 2022;21(4):47

Entiauspe-Neto OM, Koch C, Guedes TB, Paredero RCB, Tiutenko A, Loebmann D. Unveiling an enigma from the Cerrado: taxonomic revision of two sympatric species of Apostolepis Cope, 1862 (Dipsadidae: Xenodontinae: Elapomorphini) from central Brazil. European Journal of Taxonomy 2022;817(1):143–82

Eriksson M, Rafajlović M. The role of phenotypic plasticity in the establishment of range margins. Philosophical Transactions of the Royal Society B: Biological Sciences 2022;377(1846):20210012

Farooq H, Antonelli A, Faurby S. A call for improving the Key Biodiversity Areas framework. bioRxiv2022:2022.06.21.496934

Ferreira PDL, Batista R, Andermann T, Groppo M, Bacon CD, Antonelli A. Target sequence capture of Barnadesioideae (Compositae) demonstrates the utility of low coverage loci in phylogenomic analyses. Molecular Phylogenetics and Evolution 2022;169:107432

Flannery-Sutherland JT, Silvestro D, Benton MJ. Global diversity dynamics in the fossil record are regionally heterogeneous. Nature Communications 2022;13(1):2751

Henniges MC, Powell RF, Mian S, Stace CA, Walker K, Gornall RJ, Christenhusz MJ, Brown M, Twyford AD, Hollingsworth PM, Jones L, De Vere N, Antonelli A, Leitch AR, Leitch IJ. A taxonomic, genetic and ecological data resource for the vascular plants of Britain and Ireland. Scientific Data 2022;9:1-8

Herrera F, Testo WL, Field AR, Clark EG, Herendeen PS, Crane PR, Shi G. A permineralized Early Cretaceous lycopsid from China and the evolution of crown clubmosses. New Phytologist 2022;233(5):2310-22

Hoorn C, Palazzesi L, Silvestro D. Exploring the impact of Andean uplift and climate on life evolution and landscape modification: From Amazonia to Patagonia. Global and Planetary Change 2022:103759

Keuschnig C, Larose C, Rudner M, Pesqueda A, Doleac S, Elberling B, Björk RG, Klemedtsson L, Björkman MP. Reduced methane emissions in former permafrost soils driven by vegetation and microbial changes following drainage. Global Change Biology 2022;28(10):3411-25

Klingberg J, Strandberg B, Sjöman H, Taube M, Wallin G, Pleijel H. Polycyclic aromatic hydrocarbon (PAH) accumulation in Quercus palustris and Pinus nigra in the urban landscape of Gothenburg, Sweden. Science of The Total Environment 2022;805:150163

Kõljalg U, Nilsson RH, Jansson AT, Zirk A, Abarenkov K. A price tag on species. Research Ideas and Outcomes2022;8:e86741

Lagomarsino LP, Frankel L, Uribe-Convers S, Antonelli A, Muchhala N. Increased resolution in the face of conflict: phylogenomics of the Neotropical bellflowers (Campanulaceae: Lobelioideae), a rapid plant radiation. Annals of Botany 2022;129(6):723-36

Lembrechts JJ, Van Den Hoogen J, …, Björk RG, Björkman MP, …, Lenoir J. Global maps of soil temperature. Global Change Biology 2022;28(9):3110-44

Martynov A, Lundin K, Korshunova T. Ontogeny, Phylotypic Periods, Paedomorphosis, and Ontogenetic Systematics. Frontiers in Ecology and Evolution 2022;10:806414

Mattsson E, Erlandsson M, Karlsson PE, Holmström H. A Conceptual Landscape-Level Approach to Assess the Impacts of Forestry on Biodiversity. Sustainability 2022;14(7):4214

Mehltreter K, Wachter H, Trabi C, Testo W, Sundue M, Jansen S. Hydathodes in ferns: their phylogenetic distribution, structure and function. Annals of Botany 2022;mcac076

Melo Araújo SC, Ceron K, Guedes TB. Use of geospatial analyses to address snakebite hotspots in mid-northern Brazil – A direction to health planning in shortfall biodiversity knowledge areas. Toxicon 2022;213:43-51

Messas YF, D’angelo GB, Guedes TB, Vasconcellos-Neto J. Integrating citizen nature photography to natural history science: New record of bird-lizard predation. Austral Ecology 2022;47(2):456-59

Mousavi H, Cottis T, Hoff G, Solberg SØ. Nitrogen Enriched Organic Fertilizer (NEO) and Its Effect on Ryegrass Yield and Soil Fauna Feeding Activity under Controlled Conditions. Sustainability 2022;14(4):2005

Neubauer TA, Hauffe T, Silvestro D, Scotese CR, Stelbrink B, Albrecht C, Delicado D, Harzhauser M, Wilke T. Drivers of diversification in freshwater gastropods vary over deep time. Proceedings of the Royal Society B: Biological Sciences 2022;289(1968):20212057

Nield CB, Yanes Y, Pigati JS, Rech JA, Von Proschwitz T, Nekola JC. Oxygen isotopes of land snail shells in high latitude regions. Quaternary Science Reviews 2022;279:107382

Nilsson RH, Andersson AF, Bissett A, Finstad AG, Fossøy F, Grosjean M, Hope M, Jeppesen TS, Kõljalg U, Lundin D, Prager M, Suominen S, Svenningsen CS, Schigel D. Introducing guidelines for publishing DNA-derived occurrence data through biodiversity data platforms. Metabarcoding and Metagenomics 2022;6:e84960

Pérez-Escobar OA, Zizka A, Bermúdez MA, Meseguer AS, Condamine FL, Hoorn C, Hooghiemstra H, Pu Y, Bogarín D, Boschman LM, Pennington RT, Antonelli A, Chomicki G. The Andes through time: evolution and distribution of Andean floras. Trends in Plant Science 2022;27(4):364-78

Phukhamsakda C, Nilsson RH, Bhunjun CS, De Farias ARG, Sun Y-R, Wijesinghe SN, Raza M, Bao D-F, Lu L, Tibpromma S, Dong W, Tennakoon DS, Tian X-G, Xiong Y-R, Karunarathna SC, Cai L, Luo Z-L, Wang Y, Manawasinghe IS, Camporesi E, Kirk PM, Promputtha I, Kuo C-H, Su H-Y, Doilom M, Li Y, Fu Y-P, Hyde KD. The numbers of fungi: contributions from traditional taxonomic studies and challenges of metabarcoding. Fungal Diversity 2022;114(1):327-86

Pino K, Vallejos-Garrido P, Espinoza-Aravena N, Cooper RB, Silvestro D, Hernández CE, Rodríguez-Serrano E. Regional landscape change triggered by Andean uplift: The extinction of Sparassodonta (Mammalia, Metatheria) in South America. Global and Planetary Change 2022;210:103758

Polovodova Asteman I, Kankainena M, Nordberg K, Lundin K. Too old to be new? A recent discovery of a pteropod Limacina lesueurii (d'Orbigny 1836) at the Swedish west coast (Skagerrak, North Sea). Marine Micropaleontology 2022;171:102083

Reeve AH, Blom MP, Zahl Marki P, Batista R, Olsson U, Edmark VN, Irestedt M, Jønsson KA. The Sulawesi Thrush (Cataponera turdoides; Aves: Passeriformes) belongs to the genus Turdus. Zoologica Scripta2022;51(1):32-40

Ridley R, Jimenez-Mejias P. Incipient insular differentiation of Carex firmula (Cyperaceae, former genus Uncinia) in the Juan Fernández archipelago (Chile). Phytotaxa 2022;533 (no. 5)

Rosenblad MA, Larsson E, Walker A, Thongklang N, Wurzbacher C, Nilsson RH. Evidence for further non-coding RNA genes in the fungal rDNA region. MycoKeys 2022;90:203-213

Sáez L, Mesbah M, López-Alvarado J, Bacchetta G, El Mokni R, Peruzzi L, Oxelman B. Re-establishment of Silene neglecta Ten. (Caryophyllaceae) with taxonomic notes on some related taxa. PhytoKeys 2022;195:143-60

Sanín MJ, Cardona A, Valencia-Montoya WA, Jiménez MFT, Carvalho-Madrigal S, Gómez AC, Bacon CD, Tangarife TR, Jaramillo JS, Zapata S, Valencia V, Valencia JWA, Vargas V, Paris M. Volcanic events coincide with plant dispersal across the Northern Andes. Global and Planetary Change 2022;210:103757

Scharn R, Negri IS, Sundqvist MK, Løkken JO, Bacon CD, Antonelli A, Hofgaard A, Nilsson RH, Björk RG. Limited decadal growth of mountain birch saplings has minor impact on surrounding tundra vegetation. Ecology and Evolution 2022;12(6):e9028

Schuster A, Strehlow B, Perrigo A. Are All Sponges Spongy? Frontiers for Young Minds 2022;10:682878

Si X, Cadotte MW, Davies TJ, Antonelli A, Ding P, Svenning J-C, Faurby S. Phylogenetic and functional clustering illustrate the roles of adaptive radiation and dispersal filtering in jointly shaping late-Quaternary mammal assemblages on oceanic islands. Ecology Letters 2022;25(5):1250-62

Silva SV, Andermann T, Zizka A, Kozlowski G, Silvestro D. Global Estimation and Mapping of the Conservation Status of Tree Species Using Artificial Intelligence. Frontiers in Plant Science 2022;13:839792

Silvestro D, Goria S, Sterner T, Antonelli A. Improving biodiversity protection through artificial intelligence. Nature Sustainability 2022;5(5):415-24

Sol D, Olkowicz S, Sayol F, Kocourek M, Zhang Y, Marhounová L, Osadnik C, Corssmit E, Garcia-Porta J, Martin TE, Lefebvre L, Němec P. Neuron numbers link innovativeness with both absolute and relative brain size in birds. Nature Ecology & Evolution 2022

Staude IR, Pereira HM, …, Bjorkman AD, …, Winkler M, Baeten L. Directional turnover towards larger-ranged plants over time and across habitats. Ecology Letters 2022;25(2):466-82

Svantesson S, Syme K, Douch JK, Robinson RM, May TW. The Mouldy Marshmallow” Amaurodon caeruleocaseus (Thelephorales, Basidiomycota) – the first stipitate species in the genus Amaurodon. Sydowia2022;74:181-91

Tedersoo L, Bahram M, Zinger L, Nilsson RH, Kennedy PG, Yang T, Anslan S, Mikryukov V. Best practices in metabarcoding of fungi: From experimental design to results. Molecular Ecology 2022;31(10):2769-95

Tietje M, Antonelli A, Baker WJ, Govaerts R, Smith SA, Eiserhardt WL. Global variation in diversification rate and species richness are unlinked in plants. Proceedings of the National Academy of Sciences2022;119(27):e2120662119

Vuorinen K, Austrheim G, …, Björkman MP, Björk RG, …, Speed JDM. Growth rings show limited evidence for ungulates’ potential to suppress shrubs across the Arctic. Environmental Research Letters 2022;13(No. 3):034013

Wittemann M, Andersson MX, Ntirugulirwa B, Tarvainen L, Wallin G, Uddling J. Temperature acclimation of net photosynthesis and its underlying component processes in four tropical tree species. Tree Physiology2022;tpac002

Zhang Q, Ree RH, Salamin N, Xing Y, Silvestro D. Fossil-Informed Models Reveal a Boreotropical Origin and Divergent Evolutionary Trajectories in the Walnut Family (Juglandaceae). Systematic Biology 2022;71(1):242–58

Zhang Q, Ree RH, Salamin N, Xing Y, Silvestro D. Fossil-Informed Models Reveal a Boreotropical Origin and Divergent Evolutionary Trajectories in the Walnut Family (Juglandaceae). Systematic Biology 2022;71(1):242-58

Zizka A, Andermann T, Silvestro D. IUCNN – Deep learning approaches to approximate species' extinction risk. Diversity and Distributions 2022;28(2):227-41

Cowell C, Paton A, Borrell JS, Williams C, Wilkin P, Antonelli A, Baker WJ, Buggs R, Fay MF, Gargiulo R, Grace OM, Kuhnhäuser BG, Woudstra Y, Kersey PJ. Uses and benefits of digital sequence information from plant genetic resources: Lessons learnt from botanical collections. Plants, People, Planet 2022;4:33-43

Moharrek F, Taylor PD, Silvestro D, Jenkins HL, Gordon DP, Waeschenbach A. Diversification dynamics of cheilostome bryozoans based on a Bayesian analysis of the fossil record. Palaeontology 2022;65:e12586


Alström P, Rasmussen PC, Xia C, Zhang L, Liu C, Magnusson J, Shafaeipour A, Olsson U. Morphology, vocalizations, and mitochondrial DNA suggest that the Graceful Prinia is two species. The Auk: Ornithological Advances 2021;138(2):ukab014

Alström P, Van Linschooten J, Donald PF, Sundev G, Mohammadi Z, Ghorbani F, Shafaeipour A, Van Den Berg A, Robb M, Aliabadian M, Wei C, Lei F, Oxelman B, Olsson U. Multiple species delimitation approaches applied to the avian lark genus Alaudala. Molecular Phylogenetics and Evolution 2021;154:106994

Alves RRN, Borges AKM, Barboza RRD, Souto WMS, Gonçalves‐Souza T, Provete DB, Albuquerque UP. A global analysis of ecological and evolutionary drivers of the use of wild mammals in traditional medicine. Mammal Review 2021;51(2):293-306

Andermann T, Faurby S, Cooke R, Silvestro D, Antonelli A. iucn_sim: a new program to simulate future extinctions based on IUCN threat status. Ecography 2021;44(2):162-76

Antonelli A. The rise and fall of Neotropical biodiversity. Botanical Journal of the Linnean Society 2021;XX:1-17 or boab061

Antonelli A, Clarkson JJ, Kainulainen K, Maurin O, Brewer GE, Davis AP, Epitawalage N, Goyder DJ, Livshultz T, Persson C, Pokorny L, Straub SCK, Struwe L, Zuntini AR, Forest F, Baker WJ. Settling a family feud: a high-level phylogenomic framework for the Gentianales based on 353 nuclear genes and partial plastomes. American Journal of Botany 2021;108(7):1143-65

Apostolou A, Velkov B, Green L. The first record of the invasive round goby Neogobius melanostomus in the Aegean Basin, Bulgaria. Journal of Applied Ichthyology 2021;00:1-4

Azevedo JaR, De C. Nogueira C, Antonelli A, Faurby S. Contrasting patterns of phylogenetic turnover in amphibians and reptiles are driven by environment and geography in Neotropical savannas. Journal of Biogeography 2021;48(8):2008-21

Bacon CD, Gutiérrez-Pinto N, Flantua S, Castellanos Suárez D, Jaramillo C, Pennington RT, Antonelli A. The seasonally dry tropical forest species Cavanillesia chicamochae has a middle Quaternary origin. Biotropica 2021;00(n/a):1-9

Bacon CD, Roncal J, Andermann T, Barnes CJ, Balslev H, Gutiérrez-Pinto N, Morales H, Núñez-Avelleneda LA, Tunarosa N, Antonelli A. Genomic and niche divergence in an Amazonian palm species complex. Botanical Journal of the Linnean Society 2021;197(4):498-512

Batson J, Dudas G, Haas-Stapleton E, Kistler AL, Li LM, Logan P, Ratnasiri K, Retallack H. Single mosquito metatranscriptomics identifies vectors, emerging pathogens and reservoirs in one assay. eLife 2021;10:e68353

Baucon A, Carvalho CND, Felletti F, Tosadori G, Antonelli A. Small-world dynamics drove Phanerozoic divergence of burrowing behaviors. Geology 2021;49(6):748-52

Bellanger J-M, Lebeuf R, Sesli E, Loizides M, Schwarz C, Moreau P-A, Liimatainen K, Larsson E. Hygrophorus sect. Olivaceoumbrini: new boundaries, extended biogeography and unexpected diversity unravelled by transatlantic studies. Persoonia-Molecular Phylogeny and Evolution of Fungi 2021;46(1):272-312

Bjorkman AD, Wulff A. A reflection on four impactful Ambio papers: The biotic perspective. Ambio 2021;50(6):1145-49

Bogotá-Ángel G, Huang H, Jardine PE, Chazot N, Salamanca S, Banks H, Pardo-Trujillo A, Plata A, Dueñas H, Star W, Langelaan R, Eisawi A, Umeji OP, Enuenwemba LO, Parmar S, Da Silveira RR, Lim JY, Prasad V, Morley RJ, Bacon CD, Hoorn C. Climate and geological change as drivers of Mauritiinae palm biogeography. Journal of Biogeography 2021;48(5):1001-22

Buschke FT, Hagan JG, Santini L, Coetzee BWT. Random population fluctuations bias the Living Planet Index. Nature Ecology & Evolution2021;5(8):1145-52

Carrillo-Briceño JD, Sánchez R, Scheyer TM, Carrillo JD, Delfino M, Georgalis GL, Kerber L, Ruiz-Ramoni D, Birindelli JLO, Cadena E-A, Rincón AF, Chavez-Hoffmeister M, Carlini AA, Carvalho MR, Trejos-Tamayo R, Vallejo F, Jaramillo C, Jones DS, Sánchez-Villagra MR. A Pliocene–Pleistocene continental biota from Venezuela. Swiss Journal of Palaeontology 2021;140(1):9

Carvalho MR, Jaramillo C, Parra FDL, Caballero-Rodríguez D, Herrera F, Wing S, Turner BL, D’apolito C, Romero-Báez M, Narváez P, Martínez C, Gutierrez M, Labandeira C, Bayona G, Rueda M, Paez-Reyes M, Cárdenas D, Duque Á, Crowley JL, Santos C, Silvestro D. Extinction at the end-Cretaceous and the origin of modern Neotropical rainforests. Science 2021;372(6537):63-68

Cássia-Silva C, Freitas CG, Jardim L, Bacon CD, Collevatti RG. In situ radiation explains the frequency of dioecious palms on islands. Annals of Botany 2021;128(2):205-15

Cavender JC, Landolt JC, Vadell EM, Perrigo AL, Stephenson SL, De Basanta DW, Lado C, Liu P. Distribution and ecology of dictyostelids in Madagascar. Phytotaxa 2021;505(2):176-86

Ceron K, Mângia S, Guedes TB, Alvares DJ, Neves MO, De Toledo Moroti M, Torello N, Borges-Martins M, Ferreira VL, Santana DJ. Ecological niche explains the sympatric occurrence of lined ground snakes of the genus Lygophis (Serpentes, Dipsadidae) in the South American dry diagonal. Herpetologica 2021;77(3):239-48

Chazot N, Condamine FL, Dudas G, Peña C, Kodandaramaiah U, Matos-Maraví P, Aduse-Poku K, Elias M, Warren AD, Lohman DJ, Penz CM, Devries P, Fric ZF, Nylin S, Müller C, Kawahara AY, Silva-Brandão KL, Lamas G, Kleckova I, Zubek A, Ortiz-Acevedo E, Vila R, Vane-Wright RI, Mullen SP, Jiggins CD, Wheat CW, Freitas AVL, Wahlberg N. Conserved ancestral tropical niche but different continental histories explain the latitudinal diversity gradient in brush-footed butterflies. Nature Communications 2021;12(1):5717

Cowell C, Paton A, Borrell JS, Williams C, Wilkin P, Antonelli A, Baker WJ, Buggs R, Fay MF, Gargiulo R, Grace OM, Kuhnhäuser BG, Woudstra Y, Kersey PJ. Uses and benefits of digital sequence information from plant genetic resources: Lessons learnt from botanical collections. Plants, People, Planet 2021;4:33-43

Crous PW, Cowan DA, …, Larsson E, …, Jeppson M, …, Groenewald JZ. Fungal Planet description sheets: 1182–1283. Persoonia - Molecular Phylogeny and Evolution of Fungi 2021;46(1):313-528

Crous PW, Lombard L, …, Nilsson RH, …, Thines M. Fusarium: more than a node or a foot-shaped basal cell. Studies in Mycology2021;98:100116

Crous PW, Osieck ER, …, Larsson E, …, Vieira BS, Groenewald JZ. Fungal Planet description sheets: 1284–1382. Persoonia - Molecular Phylogeny and Evolution of Fungi 2021;47(1):178-374

Daru BH, Davies TJ, Willis CG, Meineke EK, Ronk A, Zobel M, Pärtel M, Antonelli A, Davis CC. Widespread homogenization of plant communities in the Anthropocene. Nature communications 2021;12(1):1-10

Day LB, Helmhout W, Pano G, Olsson U, Hoeksema JD, Lindsay WR. Correlated evolution of acrobatic display and both neural and somatic phenotypic traits in manakins (Pipridae). Integrative and Comparative Biology 2021;61(4):1343-62

De Meiras-Ottoni A, Larsson K-H, Gibertoni TB. Additions to Trechispora and the status of Scytinopogon (Trechisporales, Basidiomycota). Mycological Progress 2021;20(2):203-22

Di Sacco A, Hardwick KA, Blakesley D, Brancalion PHS, Breman E, Cecilio Rebola L, Chomba S, Dixon K, Elliott S, Ruyonga G, Shaw K, Smith P, Smith RJ, Antonelli A. Ten golden rules for reforestation to optimize carbon sequestration, biodiversity recovery and livelihood benefits. Global Change Biology 2021;27(7):1328-48

Dima B, Brandrud TE, Corriol G, Jansen GM, Jordal JB, Khalid AN, Larsson E, Lorås J, Morozova OV, Naseer A, Noordeloos ME, Rossi W, Santamaria S, Sarwar S, Sesli E, Usman M, Afshan NS, Ahmad I, Banerjee A, Banerjee K, Bendiksen E, Rodrigues Da Silva Colombo DB, De Kesel A, Dovana F, Ferisin G, Hussain S, Islam S, Jesus AL, Kaygusuz OU, Krisai-Greilhuber I, Mahammad S, Mishra DK, Partha Sarathi Nath16, De Oliveira Da PaixãO SC, Panja B, Papp V, Amorim Pires-Zottarelli CL, RadnóTi AG, Rana D, Saha R, TüRkekul I, Haelewaters D. Fungal systematics and evolution: FUSE 7. Sydowia 2021;73:271-340

Dudas G, Hong SL, …, Baele G. Preprint: Emergence and spread of SARS-CoV-2 lineage B.1.620 with variant of concern-like mutations and deletions. Nature Communications 2021;12(1):5769

Dudas G, Huber G, Wilkinson M, Yllanes D. Polymorphism of genetic ambigrams. Virus Evolution 2021;7(1):veab038

Dusenge ME, Wittemann M, Mujawamariya M, Ntawuhiganayo EB, Zibera E, Ntirugulirwa B, Way DA, Nsabimana D, Uddling J, Wallin G. Limited thermal acclimation of photosynthesis in tropical montane tree species. Global Change Biology 2021;27(19):4860-78

Edler D, Klein J, Antonelli A, Silvestro D. raxmlGUI 2.0: A graphical interface and toolkit for phylogenetic analyses using RAxML. Methods in Ecology and Evolution 2021;12(2):373-77

Entiauspe-Neto OM, Koch C, Gray RJ, Tiutenko A, Loebmann D, Guedes TB. Taxonomic status of Apostolepis tertulianobeui Lema, 2004 based on an integrative revision of Apostolepis assimilis (Reinhardt, 1861) (Serpentes: Dipsadidae). Zoologischer Anzeiger 2021;291:123-38

Entiauspe-Neto OM, Koch C, Harvey MB, Colli GR, Guedes TB. Redescription of Apostolepis ambiniger (Peters, 1869) (Serpentes: Dipsadidae: Elapomorphini). Vertebrate Zoology 2021;71:231-51

Entiauspe-Neto OM, Rangel GFM, Guedes TB, Tiutenko A. Raising of Lazarus: Rediscovery and redescription of Apostolepis niceforoiAmaral, 1935 (Serpentes: Dipsadidae: Elapomorphini). Holotipus;1(1)

Eriksson JS, Bacon CD, Bennett DJ, Pfeil BE, Oxelman B, Antonelli A. Gene count from target sequence capture places three whole genome duplication events in Hibiscus L. (Malvaceae). BMC Ecology and Evolution 2021;21(1):107

Farage C, Edler D, Eklöf A, Rosvall M, Pilosof S. Identifying flow modules in ecological networks using Infomap. Methods in Ecology and Evolution 2021;12(5):778-86

Farooq H, Bero C, Guilengue Y, Elias C, Massingue Y, Mucopote I, Nanvonamuquitxo C, Marais J, Antonelli A, Faurby S. Species perceived to be dangerous are more likely to have distinctive local names. Journal of ethnobiology and ethnomedicine 2021;17(1):1-11

Faurby S, Morlo M, Werdelin L. CarniFOSS: A database of the body mass of fossil carnivores. Global Ecology and Biogeography2021;30(10):1958-64

Ferreira PDL, Antonelli A, Groppo M. Touch me carefully: a step towards understanding morphological diversity in the South American spiny sunflowers (Compositae, Barnadesioideae). Phytotaxa 2021;518(2):109-42

Filho GA, Marco F, Washington L, Geraldo Jorge B, Thais Barreto G, Frederico Gustavo Rodrigues F. The snake fauna of the most threatened region of the Atlantic Forest: natural history, distribution, species richness and a complement to the Atlas of Brazilian Snakes. Ethnobiology and Conservation 2021;10(0):n/a

Freitas C, Brum FT, Silva CC, Maracahipes L, Carlucci M, Collevatti R, Bacon CD. Incongruent spatial distribution of taxonomic, phylogenetic, and functional diversity in Neotropical Cocoseae palms. Frontiers in Forests and Global Change 2021;4:739468

G. Ribeiro P, Torres Jiménez MF, Andermann T, Antonelli A, Bacon CD, Matos-Maraví P. A bioinformatic platform to integrate target capture and whole genome sequences of various read depths for phylogenomics. Molecular Ecology 2021;30(n/a):6021–35

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Matos-Maraví P, Wahlberg N, Freitas AVL, Devries P, Antonelli A, Penz CM. Mesoamerica is a cradle and the Atlantic Forest is a museum of Neotropical butterfly diversity: insights from the evolution and biogeography of Brassolini (Lepidoptera: Nymphalidae). Biological Journal of the Linnean Society 2021;133(3):704-24

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Pautienius A, Dudas G, Simkute E, Grigas J, Zakiene I, Paulauskas A, Armonaite A, Zienius D, Slyzius E, Stankevicius A. Bulk milk tank samples are suitable to assess circulation of tick-borne encephalitis virus in high endemic Areas. Viruses 2021;13(9):1772

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Scharn R, Little CJ, Bacon CD, Alatalo JM, Antonelli A, Björkman MP, Molau U, Nilsson RH, Björk RG. Decreased soil moisture due to warming drives phylogenetic diversity and community transitions in the tundra. Environmental Research Letters 2021:To cite this article: Ruud Scharn et al 2021 Environ. Res. Lett. 16 064031

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Zizka A, Rydén O, Edler D, Klein J, Perrigo A, Silvestro D, Jagers SC, Lindberg SI, Antonelli A. Bio-Dem, a tool to explore the relationship between biodiversity data availability and socio-political conditions in time and space. Journal of Biogeography2021;48(11):2715-26

Zizka A, Silvestro D, Vitt P, Knight TM. Automated conservation assessment of the orchid family with deep learning. Conservation Biology2021;35(3):897-908

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Neves, B., Kessous, I. M., Moura, R. L., Couto, D. R., Zanella, C. M., Antonelli, A., . . . Costa, A. F. (2020). Pollinators drive floral evolution in an Atlantic Forest genus. AoB PLANTS, 12(5). doi:10.1093/aobpla/plaa046

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Pérez-Escobar, O., Bellot, S., Gros-Balthazard, M., Flowers, J., Nesbitt, M., Ryan, P., . . . Baker, W. (2020). Archaeogenomics of a ~2,100-year-old Egyptian leaf provides a new timestamp on date palm domestication.
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Persson, C. (2020). Caprifoliaceae in Persson, C. et al. (eds). Flora of Ecuador no. 97.
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Pironon, S., Borrell, J., Ondo, I., Douglas, R., Phillips, C., Khoury, C. K., . . . Antonelli, A. (2020). Toward Unifying Global Hotspots of Wild and Domesticated Biodiversity. Plants, 9, 1128. doi:10.3390/plants9091128

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Amorim, B. S., Vasconcelos, T. N. C., Souza, G., Alves, M., Antonelli, A., & Lucas, E. (2019). Advanced understanding of phylogenetic relationships, morphological evolution and biogeographic history of the mega-diverse plant genus Myrcia and its relatives (Myrtaceae: Myrteae). Molecular Phylogenetics and Evolution, 138, 65-88. doi:

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Antonelli, A. (2019). Tree plantations: we must get them right. Nature, 572(7768), 178.

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Bakker, F. T., Antonelli, A., Clarke, J., Cook, J. A., Edwards, S., Ericson, P. G., . . . Gillespie, R. (2019). The Global Museum: natural history collections and the future of evolutionary biology and public education. PeerJ Preprints, 7.

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Fernández-Martínez, M., Berloso, F., Corbera, J., Garcia-Porta, J., Sayol, F., Preece, C., & Sabater, F. (2019). Towards a moss sclerophylly continuum: Evolutionary history, water chemistry and climate control traits of hygrophytic mosses. Functional Ecology, 33(12), 2273-2289. doi:10.1111/1365-2435.13443

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Pinder, M. I., Johansson, O. N., Almstedt, A., Kourtchenko, O., Clarke, A. K., Godhe, A., & Töpel, M. (2019). Genome Sequence of Kordia sp. Strain SMS9 Identified in a Non-Axenic Culture of the Diatom Skeletonema marinoi. Journal of Genomics, 7, 46.

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Rahbek, C., Borregaard, M. K., Antonelli, A., Colwell, R. K., Holt, B. G., Nogues-Bravo, D., . . . Fjeldså, J. (2019). Building mountain biodiversity: Geological and evolutionary processes. Science, 365(6458), 1114-1119. doi:10.1126/science.aax0151

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Silvestro, D., Salamin, N., Antonelli, A., & Meyer, X. (2019). Improved estimation of macroevolutionary rates from fossil data using a Bayesian framework. Paleobiology, 45(4), 546-570. doi:10.1017/pab.2019.23

Sjöman, H., Bellan, P., Hannus, S., Barblishvili, T., Darchidze, T., & Sikharulidze, S. (2019). Hunting for a Larger Diversity of Urban Trees in Western Europe—A Case Study from the Southern Caucasus. Arboriculture & Urban Forestry, 45, 221-235.

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Töpel, M., Pinder, M. I. M., Johansson, O. N., Kourtchenko, O., Godhe, A., & Clarke, A. K. (2019). Whole Genome Sequence of <i>Marinobacter salarius</i> Strain SMR5, Shown to Promote Growth in its Diatom Host. Journal of Genomics, 7, 60-63. doi:10.7150/jgen.39039

Vowles, T., & Björk, R. G. (2019). Implications of evergreen shrub expansion in the Arctic. Journal of Ecology, 107(2), 650-655. doi:10.1111/1365-2745.13081

Vrasdonk, E., Palme, U., & Lennartsson, T. (2019). Reference situations for biodiversity in life cycle assessments: conceptual bridging between LCA and conservation biology. The International Journal of Life Cycle Assessment, 24(9), 1631-1642. doi:10.1007/s11367-019-01594-x

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Wiemers, M., Chazot, N., Wheat, C. W., Schweiger, O., & Wahlberg, N. (2019). A complete time-calibrated multi-gene phylogeny of the European butterflies. bioRxiv, 844175. doi:10.1101/844175

Wiklund, H., Neal, L., Glover, A. G., Drennan, R., Rabone, M., & Dahlgren, T. G. (2019). Abyssal fauna of polymetallic nodule exploration areas, eastern Clarion-Clipperton Zone, central Pacific Ocean: Annelida: Capitellidae, Opheliidae, Scalibregmatidae, and Travisiidae. ZooKeys, 883. doi:10.3897/zookeys.883.36193

Wurzbacher, C., Larsson, E., Bengtsson-Palme, J., Van den Wyngaert, S., Svantesson, S., Kristiansson, E., . . . Nilsson, R. H. (2019). Introducing ribosomal tandem repeat barcoding for fungi. Molecular Ecology Resources, 19(1), 118-127. doi:10.1111/1755-0998.12944

Zizka, A. (2019). Big data suggest migration and bioregion connectivity as crucial for the evolution of Neotropical biodiversity. Frontiers of Biogeography, 11(2).

Zizka, A., Silvestro, D., Andermann, T., Azevedo, J., Duarte Ritter, C., Edler, D., . . . Antonelli, A. (2019). CoordinateCleaner: Standardized cleaning of occurrence records from biological collection databases. Methods in Ecology and Evolution, 10(5), 744-751. doi:10.1111/2041-210x.13152

Zrimec, J., Buric, F., Muhammad, A. S., Chen, R., Verendel, V., Töpel, M., & Zelezniak, A. (2019). Gene expression is encoded in all parts of a co-evolving interacting gene regulatory structure. bioRxiv, 792531. doi:10.1101/792531

Zurita-Altamirano, D., Buffetaut, E., Forasiepi, A. M., Kramarz, A., Carrillo, J. D., Aguirre-Fernández, G., . . . Sánchez-Villagra, M. R. (2019). The Allemann collection from the Santa Cruz Formation (late early Miocene), Argentina, in Zurich, Switzerland. Swiss Journal of Palaeontology, 138(2), 259-275. doi:10.1007/s13358-019-00185-5


Abarenkov, K., Somervuo, P., Nilsson, R. H., Kirk, P. M., Huotari, T., Abrego, N., & Ovaskainen, O. (2018). Protax-fungi: a web-based tool for probabilistic taxonomic placement of fungal internal transcribed spacer sequences. New Phytologist, 220(2), 517-525. doi:10.1111/nph.15301

Abreu, N. L. d., Alves, R. J. V., Cardoso, S. R. S., Bertrand, Y. J. K., Sousa, F., Hall, C. F., . . . Antonelli, A. (2018). The use of next generation sequencing to solve phylogenetic incongruences in Orchidaceae Juss. PeerJ Preprints, 6, e26530v26531. doi:10.7287/peerj.preprints.26530v1

Andermann, T., Cano, Á., Zizka, A., Bacon, C., & Antonelli, A. (2018). SECAPR—a bioinformatics pipeline for the rapid and user-friendly processing of targeted enriched Illumina sequences, from raw reads to alignments. PeerJ, 6, e5175. doi:10.7717/peerj.5175

Andermann, T., Fernandes, A. M., Olsson, U., Töpel, M., Pfeil, B., Oxelman, B., . . . Antonelli, A. (2018). Allele Phasing Greatly Improves the Phylogenetic Utility of Ultraconserved Elements. Systematic Biology, 68(1), 32-46. doi:10.1093/sysbio/syy039 %J Systematic Biology

Anslan, S., Nilsson, R. H., Wurzbacher, C., Baldrian, P., Leho, T., & Bahram, M. (2018). Great differences in performance and outcome of high-throughput sequencing data analysis platforms for fungal metabarcoding. MycoKeys(39), 29-40. doi:10.3897/mycokeys.39.28109

Antonelli, A., Ariza, M., Albert, J., Andermann, T., Azevedo, J., Bacon, C., . . . Edwards, S. V. (2018). Conceptual and empirical advances in Neotropical biodiversity research. PeerJ, 6, e5644. doi:10.7717/peerj.5644

Antonelli, A., Kissling, W. D., Flantua, S. G. A., Bermúdez, M. A., Mulch, A., Muellner-Riehl, A. N., . . . Hoorn, C. (2018). Geological and climatic influences on mountain biodiversity. Nature Geoscience, 11(10), 718-725. doi:10.1038/s41561-018-0236-z

Antonelli, A., & Perrigo, A. (2018). The science and ethics of extinction. Nature Ecology & Evolution, 2(4), 581-581. doi:10.1038/s41559-018-0500-z

Antonelli, A., & Perrigo, A. (2018). The pitfalls of taking science to the public. Science, 359(6373), 283. doi:10.1126/science.aar8468

Antonelli, A., Zizka, A., Carvalho, F. A., Scharn, R., Bacon, C. D., Silvestro, D., & Condamine, F. L. (2018). Amazonia is the primary source of Neotropical biodiversity. Proceedings of the National Academy of Sciences, 115(23), 6034. doi:10.1073/pnas.1713819115

Bacon, C. D., Velásquez-Puentes, F. J., Hinojosa, L. F., Schwartz, T., Oxelman, B., Pfeil, B., . . . Antonelli, A. (2018). Evolutionary persistence in Gunnera and the contribution of southern plant groups to the tropical Andes biodiversity hotspot. PeerJ, 6, e4388. doi:10.7717/peerj.4388

Bacon, C. D., Velásquez-Puentes, F. J., Hoorn, C., & Antonelli, A. (2018). Iriarteeae palms tracked the uplift of Andean Cordilleras. Journal of Biogeography, 45(7), 1653-1663. doi:10.1111/jbi.13350

Bengtsson-Palme, J., Kanger, K., Eriksson, K. M., Hartmann, M., Johnson, R. M., Richardson, R. T., . . . Thorell, K. (2018). Metaxa2 Database Builder: enabling taxonomic identification from metagenomic or metabarcoding data using any genetic marker. Bioinformatics, 34(23), 4027-4033. doi:10.1093/bioinformatics/bty482

Bennett, D. J., Hettling, H., Silvestro, D., Vos, R., & Antonelli, A. (2018). restez: Create and Query a Local Copy of GenBank in R. Journal of Open Source Software, 3(31), 1102.

Bennett, J. D., Hettling, H., Silvestro, D., Zizka, A., Bacon, D. C., Faurby, S., . . . Antonelli, A. (2018). phylotaR: An Automated Pipeline for Retrieving Orthologous DNA Sequences from GenBank in R. Life, 8(2). doi:10.3390/life8020020

Bjorkman, A. D., Myers-Smith, I. H., Elmendorf, S. C., Normand, S., Rüger, N., Beck, P. S. A., . . . Weiher, E. (2018). Plant functional trait change across a warming tundra biome. Nature, 562(7725), 57-62. doi:10.1038/s41586-018-0563-7

Bjorkman, A. D., Myers-Smith, I. H., Elmendorf, S. C., Normand, S., Thomas, H. J. D., Alatalo, J. M., . . . Zamin, T. (2018). Tundra Trait Team: A database of plant traits spanning the tundra biome. Global Ecology and Biogeography, 27(12), 1402-1411. doi:10.1111/geb.12821

Cano, Á., Bacon, C. D., Stauffer, F. W., Antonelli, A., Serrano-Serrano, M. L., & Perret, M. (2018). The roles of dispersal and mass extinction in shaping palm diversity across the Caribbean. Journal of Biogeography, 45(6), 1432-1443. doi:10.1111/jbi.13225

Carrillo-Briceño, J. D., Carrillo, J. D., Aguilera, O. A., & Sanchez-Villagra, M. R. (2018). Shark and ray diversity in the Tropical America (Neotropics)—an examination of environmental and historical factors affecting diversity. PeerJ, 6, e5313. doi:10.7717/peerj.5313

Conradie, W., Bittencourt-Silva, G. B., Farooq, H. M., Loader, S. P., Menegon, M., & Tolley, K. A. (2018). New species of Mongrel Frogs (Pyxicephalidae: Nothophryne) for northern Mozambique inselbergs. African Journal of Herpetology, 67(1), 61-85. doi:10.1080/21564574.2017.1376714

Eiserhardt, W. L., Antonelli, A., Bennett, D. J., Botigué, L. R., Burleigh, J. G., Dodsworth, S., . . . Baker, W. J. (2018). A roadmap for global synthesis of the plant tree of life. American Journal of Botany, 105(3), 614-622. doi:10.1002/ajb2.1041

Eriksson, J. S., de Sousa, F., Bertrand, Y. J. K., Antonelli, A., Oxelman, B., & Pfeil, B. E. (2018). Allele phasing is critical to revealing a shared allopolyploid origin of Medicago arborea and M. strasseri (Fabaceae). BMC Evolutionary Biology, 18(1), 9. doi:10.1186/s12862-018-1127-z

Faurby, S., & Antonelli, A. (2018). Evolutionary and ecological success is decoupled in mammals. Journal of Biogeography, 45(10), 2227-2237. doi:10.1111/jbi.13411

Faurby, S., & Araújo, M. B. (2018). Anthropogenic range contractions bias species climate change forecasts. Nature Climate Change, 8(3), 252-256. doi:10.1038/s41558-018-0089-x

Faurby, S., Davis, M., Pedersen, R. Ø., Schowanek, S. D., Antonelli, A., & Svenning, J.-C. (2018). PHYLACINE 1.2: The Phylogenetic Atlas of Mammal Macroecology. Ecology, 99(11), 2626-2626. doi:10.1002/ecy.2443

Ferreira, M., Fernandes, A. M., Aleixo, A., Antonelli, A., Olsson, U., Bates, J. M., . . . Ribas, C. C. (2018). Evidence for mtDNA capture in the jacamar Galbula leucogastra/chalcothorax species-complex and insights on the evolution of white-sand ecosystems in the Amazon basin. Molecular Phylogenetics and Evolution, 129, 149-157. doi:

Franco-Belussi, L., De Oliveira, C., & Sköld, H. N. (2018). Regulation of eye and jaw colouration in three-spined stickleback Gasterosteus aculeatus. Journal of Fish Biology, 92(6), 1788-1804. doi:10.1111/jfb.13620

Guedes, T. B., Sawaya, R. J., Zizka, A., Laffan, S., Faurby, S., Pyron, R. A., . . . Antonelli, A. (2018). Patterns, biases and prospects in the distribution and diversity of Neotropical snakes. Global Ecology and Biogeography, 27(1), 14-21. doi:10.1111/geb.12679

Gunnarsson, B., Wallin, J., & Klingberg, J. (2018). Predation by avian insectivores on caterpillars is linked to leaf damage on oak (Quercus robur). Oecologia, 188(3), 733-741. doi:10.1007/s00442-018-4234-z

Hagen, O., Andermann, T., Antonelli, A., Silvestro, D., & Quental, T. B. (2017). Estimating Age-Dependent Extinction: Contrasting Evidence from Fossils and Phylogenies. Systematic Biology, 67(3), 458-474. doi:10.1093/sysbio/syx082 %J Systematic Biology

Hoorn, C., Perrigo, A., & Antonelli, A. (2018). Mountains, Climate and Biodiversity: An Introduction. In C. Hoorn, A. Perrigo, & A. Antonelli (Eds.), Moutnains, Climate and Biodiversity: Wiley.

Jaramillo, C., Montes, C., Cardona, A., Silvestro, D., Antonelli, A., & Bacon, C. D. (2018). Comment (1) on “Formation of the Isthmus of Panama” by O’Dea &lt;em&gt;et al&lt;/em&gt. Science Advances, 3(6), e1602321. doi:10.1126/sciadv.1602321

Korshunova, T., Fletcher, K., Lundin, K., Picton, B., & Martynov, A. (2018). The genus Zelentia is an amphi-boreal taxon expanded to include three new species from the North Pacific and Atlantic oceans (Gastropoda: Nudibranchia: Trinchesiidae). ZooTaxa, 4482, 297. doi:10.11646/zootaxa.4482.2.4

Korshunova, T., Lundin, K., Malmberg, K., Picton, B., & Martynov, A. (2018). First true brackish-water nudibranch mollusc provides new insights for phylogeny and biogeography and reveals paedomorphosis-driven evolution. PLOS ONE, 13(3), e0192177. doi:10.1371/journal.pone.0192177

Larsson, E., Kleine, J., Jacobsson, S., & Krikorev, M. (2018). Diversity within the Hygrophorus agathosmus group (Basidiomycota, Agaricales) in Northern Europe. Mycological Progress, 17(12), 1293-1304. doi:10.1007/s11557-018-1445-y

Larsson, E., Vauras, J., & Cripps, C. L. (2018). Inocybe praetervisa group – A clade of four closely related species with partly different geographical distribution ranges in Europe. Mycoscience, 59(4), 277-287. doi:

Matos-Maraví, P., Clouse, R. M., Sarnat, E. M., Economo, E. P., LaPolla, J. S., Borovanska, M., . . . Janda, M. (2018). An ant genus-group (Prenolepis) illuminates the biogeography and drivers of insect diversification in the Indo-Pacific. Molecular Phylogenetics and Evolution, 123, 16-25. doi:

Matos-Maraví, P., Matzke, N. J., Larabee, F. J., Clouse, R. M., Wheeler, W. C., Sorger, D. M., . . . Janda, M. (2018). Taxon cycle predictions supported by model-based inference in Indo-Pacific trap-jaw ants (Hymenoptera: Formicidae: Odontomachus). Molecular Ecology, 27(20), 4090-4107. doi:10.1111/mec.14835

Melo, W. A., Freitas, C. G., Bacon, C. D., & Collevatti, R. G. (2018). The road to evolutionary success: insights from the demographic history of an Amazonian palm. Heredity, 1.

Metcalfe, D. B., Hermans, T. D. G., Ahlstrand, J., Becker, M., Berggren, M., Björk, R. G., . . . Abdi, A. M. (2018). Patchy field sampling biases understanding of climate change impacts across the Arctic. Nature Ecology & Evolution, 2(9), 1443-1448. doi:10.1038/s41559-018-0612-5

Muscarella, R., Bacon, C. D., Faurby, S., Antonelli, A., Kristiansen, S. M., Svenning, J.-C., & Balslev, H. (2018). Soil fertility and flood regime are correlated with phylogenetic structure of Amazonian palm communities. doi:10.1093/aob/mcy196

Nilsson, R. H., Glöckner, F. O., Saar, I., Tedersoo, L., Kõljalg, U., Abarenkov, K., . . . Picard, K. (2018). The UNITE database for molecular identification of fungi: handling dark taxa and parallel taxonomic classifications. Nucleic Acids Research, 47(D1), D259-D264. doi:10.1093/nar/gky1022

Nilsson, R. H., Taylor, A. F. S., Adams, R. I., Baschien, C., Johan, B.-P., Cangren, P., . . . Abarenkov, K. (2018). Taxonomic annotation of public fungal ITS sequences from the built environment - a report from an April 10-11, 2017 workshop (Aberdeen, UK). MycoKeys(28), 65-82. doi:10.3897/mycokeys.28.20887

Oxelman, B., Pfeil, B., Olsson, U., Andermann, T., Antonelli, A., Töpel, M., . . . Faircloth, B. C. (2018). Allele Phasing Greatly Improves the Phylogenetic Utility of Ultraconserved Elements. Systematic Biology, 68(1), 32-46. doi:10.1093/sysbio/syy039

Pearse, W. D., Barbosa, A. M., Fritz, S. A., Keith, S. A., Harmon, L. J., Harte, J., . . . Davies, T. J. (2018). Building up biogeography: Pattern to process. Journal of Biogeography, 45(6), 1223-1230. doi:10.1111/jbi.13242

Pérez-Consuegra, N., Parra, M., Jaramillo, C., Silvestro, D., Echeverri, S., Montes, C., . . . Escobar, J. (2018). Provenance analysis of the Pliocene Ware Formation in the Guajira Peninsula, northern Colombia: Paleodrainage implications. Journal of South American Earth Sciences, 81, 66-77. doi:

Pérez-Escobar, O. A., Cámara-Leret, R., Antonelli, A., Bateman, R., Bellot, S., Chomicki, G., . . . Jaramillo, C. (2018). Mining threatens Colombian ecosystems. Science, 359(6383), 1475-1475.

Piras, P., Silvestro, D., Carotenuto, F., Castiglione, S., Kotsakis, A., Maiorino, L., . . . Raia, P. (2018). Evolution of the sabertooth mandible: A deadly ecomorphological specialization. Palaeogeography, Palaeoclimatology, Palaeoecology, 496, 166-174. doi:

Pires Mathias, M., Rankin Brian, D., Silvestro, D., & Quental Tiago, B. (2018). Diversification dynamics of mammalian clades during the K–Pg mass extinction. Biology Letters, 14(9), 20180458. doi:10.1098/rsbl.2018.0458

Ritter, C. D., Zizka, A., Barnes, C., Nilsson, R. H., Roger, F., & Antonelli, A. (2019). Locality or habitat? Exploring predictors of biodiversity in Amazonia. Ecography, 42(2), 321-333. doi:10.1111/ecog.03833

Ritter, C. D., Zizka, A., Roger, F., Tuomisto, H., Barnes, C., Nilsson, R. H., & Antonelli, A. (2018). High-throughput metabarcoding reveals the effect of physicochemical soil properties on soil and litter biodiversity and community turnover across Amazonia. PeerJ, 6, e5661. doi:10.7717/peerj.5661

Rolland, J., Silvestro, D., Litsios, G., Faye, L., & Salamin, N. (2018). Clownfishes evolution below and above the species level. Proceedings of the Royal Society B: Biological Sciences, 285(1873), 20171796. doi:10.1098/rspb.2017.1796

Rolland, J., Silvestro, D., Schluter, D., Guisan, A., Broennimann, O., & Salamin, N. (2018). The impact of endothermy on the climatic niche evolution and the distribution of vertebrate diversity. Nature Ecology & Evolution, 2(3), 459-464. doi:10.1038/s41559-017-0451-9

Ryberg, M., & Nilsson, R. H. (2018). New light on names and naming of dark taxa. MycoKeys(30), 31-39. doi:10.3897/mycokeys.30.24376

Sandom, C. J., Faurby, S., Svenning, J. C., Burnham, D., Dickman, A., Hinks, A. E., . . . Macdonald, D. W. (2018). Learning from the past to prepare for the future: felids face continued threat from declining prey. Ecography, 41(1), 140-152. doi:10.1111/ecog.03303

Silva, G. A. R., Antonelli, A., Lendel, A., Moraes, E. d. M., & Manfrin, M. H. (2018). The impact of early Quaternary climate change on the diversification and population dynamics of a South American cactus species. Journal of Biogeography, 45(1), 76-88. doi:10.1111/jbi.13107

Silvestro, D., & Schnitzler, J. (2018). Inferring macroevolutionary dynamics in mountain systems from fossils. In Mountains, Climate, and Biodiversity: Wiley-Blackwell.

Silvestro, D., Warnock, R. C. M., Gavryushkina, A., & Stadler, T. (2018). Closing the gap between palaeontological and neontological speciation and extinction rate estimates. Nature Communications, 9(1), 5237. doi:10.1038/s41467-018-07622-y

Silvestro, D., Zizka, A., Tejedor, M. F., Antonelli, A., Serrano-Serrano, M. L., Loiseau, O., . . . Höhna, S. (2018). Early Arrival and Climatically-Linked Geographic Expansion of New World Monkeys from Tiny African Ancestors. Systematic Biology, 68(1), 78-92. doi:10.1093/sysbio/syy046 %J Systematic Biology

Sjöman, H., Hirons, A. D., & Bassuk, N. L. (2018). Improving confidence in tree species selection for challenging urban sites: a role for leaf turgor loss. Urban Ecosystems, 21(6), 1171-1188. doi:10.1007/s11252-018-0791-5

Sjöman, H., Hirons, A. D., & Bassuk, N. L. (2018). Magnolias as urban trees – a preliminary evaluation of drought tolerance in seven magnolia species. Arboricultural Journal, 40(1), 47-56. doi:10.1080/03071375.2017.1415554

Stronen, A. V., Iacolina, L., Pertoldi, C., Kusza, S., Hulva, P., Dykyy, I., . . . Faurby, S. (2018). The use of museum skins for genomic analyses of temporal genetic diversity in wild species. Conservation Genetics Resources. doi:10.1007/s12686-018-1036-x

Taboada, S., Riesgo, A., Wiklund, H., Paterson, G. L. J., Koutsouveli, V., Santodomingo, N., . . . Glover, A. G. (2018). Implications of population connectivity studies for the design of marine protected areas in the deep sea: An example of a demosponge from the Clarion-Clipperton Zone. Molecular Ecology, 27(23), 4657-4679. doi:10.1111/mec.14888

Töpel, M., Pinder, M. I. M., Johansson, O. N., Kourtchenko, O., Godhe, A., & Clarke, A. K. (2018). Complete Genome Sequence of &lt;span class=&quot;named-content genus-species&quot; id=&quot;named-content-1&quot;&gt;Loktanella vestfoldensis&lt;/span&gt; Strain SMR4r, a Novel Strain Isolated from a Culture of the Chain-Forming Diatom &lt;span class=&quot;named-content genus-species&quot; id=&quot;named-content-2&quot;&gt;Skeletonema marinoi&lt;/span&gt. Genome Announcements, 6(12), e01558-01517. doi:10.1128/genomeA.01558-17

Vadell, E., Cavender, J. C., Landolt, J. C., Perrigo, A. L., Liu, P., & Stephenson, S. L. (2018). Five new species of dictyostelid social amoebae (Amoebozoa) from Thailand. BMC Evolutionary Biology, 18(1), 198. doi:10.1186/s12862-018-1328-5

Vowles, T., Lindwall, F., Ekblad, A., Bahram, M., Furneaux, B. R., Ryberg, M., & Björk, R. G. (2018). Complex effects of mammalian grazing on extramatrical mycelial biomass in the Scandes forest-tundra ecotone. Ecology and Evolution, 8(2), 1019-1030. doi:10.1002/ece3.3657

Woutersen, A., Jardine, P. E., Bogotá-Angel, R. G., Zhang, H.-X., Silvestro, D., Antonelli, A., . . . Hoorn, C. (2018). A novel approach to study the morphology and chemistry of pollen in a phylogenetic context, applied to the halophytic taxon Nitraria L.(Nitrariaceae). PeerJ, 6, e5055. doi:10.7717/peerj.5055

Zizka, A., & Antonelli, A. (2018). Mountains of diversity. In: Nature Publishing Group.


Branch IR, Guyton J, Schmitz A, Barej MF, Naskrecki P, Farooq H, Verburgt L, Rödel MR (2017) Description of a new flat gecko (Squamata: Gekkonidae: Afroedura) from Mount Gorongosa, Mozambique. Zootaxa DOI: 10.11646/zootaxa.4324.1.8

Hagen O, Andermann T, Quental TB, Antonelli A, Silvestro D (2017) Estimating Age-Dependent Extinction: Contrasting Evidence from Fossils and Phylogenies. Systematic Biology, DOI: 10.1093/sysbio/syx082

Wurzbacher C, Nilsson RH, Rautio M, Peura S (2017) Poorly known microbial taxa dominate the microbiome of permafrost thaw ponds.ISME Journal. DOI: 10.1038/ismej.2017.54

Sandova M, Nilsson RH, Kolarik M. (2017) Relationships within Capitotricha bicolor (Lachnaceae, Ascomycota) as inferred from ITS rDNA sequences, including some notes on the Brunnipila and Erioscyphella clades. Mycological Progress. DOI: 10.1007/s11557-017-1346-5

Nieto-Blázquez ME, Antonelli A, Roncal J (2017) Historical biogeography of endemic seed plant genera in the Caribbean: Did GAARlandia play a role? Ecology and Evolution. DOI: 10.1002/ece3.3521.

Nilsson RH, Sánchez-García M, Ryberg MK, Abarenkov K, Wurzbacher C, Kristiansson E. (2017) Read quality-based trimming of the distal ends of public fungal DNA sequences is nowhere near satisfactory. MycoKeys 26: 13-24.

Pessoa MCR, Persson C, Antonelli A, Barbosa MRV (2017) First record of Chomelia triflora (J.H. Kirkbr.) Delprete & Achille (Rubiaceae) from Brazil. Check List 13: 159-162. DOI: 10.15560/13.4.159

Jaramillo C, Montes C, Cardona A, Silvestro D, Antonelli A, Bacon CD (2017) Comment (1) on “Formation of the Isthmus of Panama” by O’Dea et al. Science Advances. DOI: 10.1126/sciadv.1602321

Lehtonen S, Silvestro D, Karger DN, Scotese C, Tuomisto H, Kessler M, Peña C, Wahlberg N, Antonelli A (2017) Environmentally driven extinction and opportunistic origination explain fern diversification patterns. Scientific Reports. DOI: 10.1038/s41598-017-05263-7

Cámara-Leret R, Faurby S, Macía MJ, Balslev H, Göldel B, Svenning JC, Kissling WD, Rønsted N, Saslis-Lagoudakis CH (2017) Fundamental species traits explain provisioning services of tropical American palms. Nature Plants 3:16220. DOI: 10.1038/nplants.2016.220

Sandom CJ, Faurby S, Svenning JC, Burnham D, Dickman A, Hinks A, Macdonald EA, Ripple B, Williams J, Macdonald D (2017) Learning from the past to prepare for the future: Felids face continued threat from declining prey richness. Ecography. DOI: 10.1111/ecog.03303

Claudel C, Buerki S, Chatrou LW, Antonelli A, Alvarez N, Hetterscheid W (2017) Large-scale phylogenetic analysis of Amorphophallus (Araceae) derived from nuclear and plastid sequences reveals new subgeneric delineation. Botanical Journal of the Linnean Society 184: 32-45. DOI: 10.1093/botlinnean/box013

Gonçalez VM, Pfeil BE, Antonelli A, Duarte MC (2017) Two new species of Pavonia (Malvoideae, Malvaceae) from southern Bahia, Brazil. Phytotaxa 305:97-103, doi: 10.11646/phytotaxa.305.2.3

Antonelli A (2017) Drivers of bioregionalisation. Nature Ecology and Evolution 1, 0114 DOI: 10.1038/s41559-017-0114

Antonelli A, Hettling H, Condamine FL, Vos K, Nilsson RH, Sanderson J, Sauquet H, Scharn R, Silvestro D, Töpel M, Bacon CD, Oxelman B, Vos RA (2017) Towards a Self-Updating Platform for Estimating Rates of Speciation and Migration, Ages, and Relationships of Taxa. Systematic Biology 66 :152–166 DOI: 10.1093/sysbio/syw066

Edler D, Guedes T, Zizka A, Rosvall M, Antonelli A (2017) Infomap Bioregions: Interactive mapping of biogeographical regions from species distributions. Systematic Biology 66:197–204. DOI: 10.1093/sysbio/syw087

Perez-Escobar OA, Chomicki G, Condamine FL, Karremans AP, Bogarin D, Matzke N, Silvestro D, Antonelli A (2017). Recent origin of Neotropical orchids in the world’s richest plant biodiversity hotspot. New Phytologist. DOI: 10.1111/nph.14629.

Ritter CD, McGrate G, Nilsson RH, Fearnside PM, Palme U, Antonelli A (2017) Environmental Impact Statement of biodiversity: Challenges and prospects in biologically diverse environments in Brazilian Amazonia. Biological Conservation 206: 161–168. 

Bacon CD, Moraes M, Jaramillo C, Antonelli A (2017). Endemic palm species shed light on habitat shifts and the assembly of the Cerrado and Restinga floras. Molecular Phylogenetics and Evolution 110:127-133. DOI: 10.1016/j.ympev.2017.03.013

Töpel M, Zizka A, Calió MF, Scharn R, Silvestro D, Antonelli A (2017) SpeciesGeoCoder: Fast categorization of species occurrences for analyses of biodiversity, biogeography, ecology and evolution. Systematic Biology 66:145–151. DOI:10.1093/sysbio/syw064

Cruz GAS, Zizka G, Silvestro D, Leme EMC, Schulte K, Benko-Iseppon AM (2017) Molecular phylogeny, character evolution and historical biogeography of Cryptanthus Otto & A. Dietr. (Bromeliaceae). Molecular Phylogenetics and Evolution. 107: 152-165.

Maldonado C, Persson C, Alban J, Antonelli A, Rønsted N (2017) Cinchona anderssonii (Rubiaceae), a new overlooked species from Bolivia. PhytoTaxa, 297: 203–208.

Maldonado C, Barnes CJ, Cornett C, Holmfred E, Hansen SH, Persson C, Antonelli A, Rønsted N (2017) Phylogeny Predicts the Quantity of Antimalarial Alkaloids Within the Iconic Yellow Cinchona Bark (Rubiaceae: Cinchona calisaya). Frontiers in Plant Science 8:391.

Radek R, Wurzbacher C, Gisder S, Nilsson RH, Owerfeldt A, Genersch E, Kirk PM, Voigt K (2017) Morphologic and molecular data help adopting the insect-pathogenic nephridiophagids (Nephridiophagidae) among the early diverging fungal lineages, close to the Chytridiomycota. MycoKeys 25: 31-50. DOI: 10.3897/mycokeys.25.12446

Rova J, Persson C, Ljungstrand E, Antonelli A (2017) Lectotypification of Pentagonia macrophylla (Rubiaceae) revisited. Phytotaxa. DOI:10.11646/phytotaxa.311.3.10

Obst M, Vicario S, Lundin K, Berggren M, Karlsson A, Haines R, Williams A, Goble C, Mathew C, Güntsch A (2017) Marine long-term biodiversity assessment suggests loss of rare species in the Skagerrak and Kattegat region. Marine Biodiversity. DOI:10.1007/s12526-017-0749-5

Pimiento C, Griffin JN, Clements CF, Silvestro D, Varela S, Uhen MD, Jaramillo C (2017) The Pliocene marine megafauna extinction and its impact on functional diversity. Nature Ecology and Evolution DOI: 10.1038/s41559-017-0223-6

Töpel M, Pinder MIM, Johansson ON, Kourtchenko P, Godhe A, Clarke AK (2017) Genome Sequence of Roseovarius mucosus Strain SMR3, Isolated from a Culture of the Diatom Skeletonema marinoi. Genome Announcements 5: 22. DOI: 10.1128/genomeA.00394-17

Pedersen RØ , Faurby S, Svenning J-C (2017) Shallow size-density relations within mammal clades suggest greater intra-guild ecological impact of large-bodied species. Journal of Animal Ecology DOI: 10.1111/1365-2656.12701

Jeppson M, Altés A, Moreno G, Nilsson RH, Loarce Y, de Bustos A, Larsson E (2017) Unexpected high species diversity among European stalked puffballs – a contribution to the phylogeny and taxonomy of the genus Tulostoma (Agaricales). MycoKeys 21: 33-88. DOI: 10.3897/mycokeys.21.12176

Korshunova, T., Martynov, A., Bakken, T., Evertsen, J., Fletcher, K., Mudianta, I W., Saito, H., Lundin, K., Schrödl, M. & Picton, B. 2017. Polyphyly of the traditional family Flabellinidae affects a major group of Nudibranchia (Mollusca, Gastropoda): aeolidacean taxonomic reassessment with description of several new families, genera and species. ZooKeys 717: 1–139. doi: 10.3897/zookeys.717.21885

Lundin, K., Korshunova, T., Malmberg, K. & Martynov, A. 2017. Intersections of historical museum collections and modern systematic methods: the case of a relict population of the Arctic nudibranch Dendronotus velifer G.O. Sars 1878 in a Swedish fjord. Contributions to Zoology, 86 (4): 303-318.

Vowles T, Lindwall F, Ekblad A, Bahram M, Ryberg M, Furneaux BR, and Björk RG (2017) Complex effects of mammalian grazing on extramatrical mycelia production in the Scandes forest-tundra ecotone. Ecology and Evolution, accepted. DOI:10.1002/ece3.3657.

Vowles T, Molau U, Gunnarsson B, Hickler T, Klemedtsson L, and Björk RG (2017) Expansion of deciduous shrubs but not evergreen dwarf shrubs inhibited by reindeer in Scandes mountain range. Journal of Ecology, 105(6): 1547-1561.

Vowles T, Lovehav C, Molau U, and Björk RG (2017) Contrasting impacts of reindeer grazing in two tundra grasslands. Environmental Research Letters, 12(3): 034018.