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Search Results
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Journal article
Fossil data support a pre-Cretaceous origin of flowering plants
Flowering plants (angiosperms) are the most diverse of all land plants, becoming abundant in the Cretaceous and achieving dominance in the Cenozoic. However, the exact timing of their origin remains a controversial topic, with molecular clocks generally placing their origin much further back in time than the oldest unequivocal fossils....Silvestro, Daniele ; Bacon, Christine D. ; Ding, Wenna ; Zhang, Qiuyue ; Donoghue, Philip C. J. …
Evolution, Computational biology and bioinformatics , and Plant sciences
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Journal article
Phylogenomics and biogeography of the world's thrushes (Aves, Turdus): new evidence for a more parsimonious evolutionary history
To elucidate the relationships and spatial range evolution across the world of the bird genus Turdus (Aves), we produced a large genomic dataset comprising ca 2 million nucleotides for ca 100 samples representing 53 species, including over 2000 loci. We estimated time-calibrated maximum-likelihood and multispecies coalescent phylogenies and carried out...Batista, Romina ; Olsson, Urban ; Andermann, Tobias ; Aleixo, Alexandre ; Ribas, Camila Cherem …
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Research report
Exploring the Impact of Political Regimes on Biodiversity
National governments are the main actors responsible for mapping and protecting their biodiversity, but countries differ in their capacity, willingness, and effectiveness to do so. We quantify the global biodiversity managed by different regime types and developed a tool to explore the links between level of democracy and other key...Zizka, Alexander ; Rydén, Oskar ; Edler, Daniel ; Klein, Johannes ; Aronsson, Heléne …
Democracy, Regime type, Autocracy, Specimen collection, and Biodiversity
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Journal article
outsider: Install and run programs, outside of R, inside of R
In many areas of research, product development and software engineering, analytical pipelines – workflows connecting output from multiple software – are key for processing and running tests on data. They can provide results in a consistent, modular and transparent manner. Pipelines also make it easier to demonstrate the reproducibility of...Bennett, Dominic ; Hettling, Hannes ; Silvestro, Daniele ; Vos, Rutger ; Antonelli, Alexandre
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Book chapter
On the Young Savannas in the Land of Ancient Forests
Covering ancient geomorphological landscapes, and surrounded by some of the most diverse forests on Earth, the Neotropical savannas were once perceived by naturalists as ancient environments. However, current evidence suggests that tropical forests have existed in the Neotropics since the Paleocene, whereas most plant lineages present in South American savannas... -
Book chapter
Diversity, Endemism, and Evolutionary History of Montane Biotas Outside the Andean Region
Mountain ranges are important centers of biodiversity around the world. This high diversity is the result of the presence of different soil types and underlying bedrock, a variety of micro-climatic regimes, high topographic heterogeneity, a heterogeneous and complex vegetation cline, and a dynamic geo-climatic history. Neotropical research on mountains has... -
Journal article
Endemism patterns are scale dependent
Areas of endemism are important in biogeography because they capture facets of biodiversity not represented elsewhere. However, the scales at which they are relevant to research and conservation are poorly analysed. Here, we calculate weighted endemism (WE) and phylogenetic endemism (PE) separately for all birds and amphibians across the globe....Daru, Barnabas H. ; Farooq, Harith ; Antonelli, Alexandre ; Faurby, Søren
biogeography, evolutionary ecology, and conservation biology
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Journal article
A Guide to Carrying Out a Phylogenomic Target Sequence Capture Project
High-throughput DNA sequencing techniques enable time- and cost-effective sequencing of large portions of the genome. Instead of sequencing and annotating whole genomes, many phylogenetic studies focus sequencing effort on large sets of pre-selected loci, which further reduces costs and bioinformatic challenges while increasing coverage. One common approach that enriches loci...Andermann, Tobias ; Torres Jiménez, Maria Fernanda ; Matos-Maraví, Pável ; Batista, Romina ; Blanco-Pastor, José L. …
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Journal article
Phylogenomics and biogeography of the world's thrushes (Aves, Turdus): new evidence for a more parsimonious evolutionary history
To elucidate the relationships and spatial range evolution across the world of the bird genus Turdus (Aves), we produced a large genomic dataset comprising ca 2 million nucleotides for ca 100 samples representing 53 species, including over 2000 loci. We estimated time-calibrated maximum-likelihood and multispecies coalescent phylogenies and carried out...Batista, Romina ; Olsson, Urban ; Andermann, Tobias ; Aleixo, Alexandre ; Ribas, Camila Cherem …