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Supplemental datasets by the Louca lab
 
Bromeliad microbiomes, Brazil
Data from our study on the taxonomic and functional structure of microbial communities in bromeliad plants, in Jurubatiba National Park, Brazil. 16S rRNA amplicon sequencing
Reference: Louca, S., Jacques, S. M. S., Pires, A. P. F., Leal, J. S., Srivastava, D. S., Parfrey, L. W., Farjalla, V. F., Doebeli, M. (2016). High taxonomic variability despite stable functional structure across microbial communities. Nature Ecology & Evolution 1:0015
Aechmea_nudicaulis_bromeliad
OTU composition vs metabolic capabilities
SARS-CoV-2 infections across countries and over time
Estimation of weekly and cumulative SARS-CoV-2 infection counts in 165 countries over time.
Reference: Louca, S. (2021). SARS-CoV-2 infections in 165 countries over time. International Journal of Infectious Diseases 111:336-346
worldmap_cumulative_fraction_infected
US_COVID19_prevalence
Global Prokaryotic Census (GPC)
A massive composite dataset of bacterial and archaeal 16S amplicon sequences, compiled from ~34,000 samples across 492 studies, covering a multitude of environments worldwide.
Reference: Louca, S., Mazel, F., Doebeli, M., Parfrey, W. L. (2019). A census-based estimate of Earth's bacterial and archaeal diversity. PLOS Biology 17:e3000106
OTUs discovered and predicted by the GPC
Samples on world map
Challenge data for macroevolutionary reconstructions
Challenge data that demonstrates the difficulties of reconstructing speciation/extinction dynamics over time from extant timetrees.
Reference: Louca, S., Pennell, M.W. (2020). Extant timetrees are consistent with a myriad of diversification histories. Nature 580:502-505
LTT_HBD4
Model congruency in macroevolution
Supporting data and code for our paper on congruence classes in macroevolutionary birth-death models and on pulled diversification rates.
Reference: Louca, S., Pennell, M.W. (2020). Extant timetrees are consistent with a myriad of diversification histories. Nature 580:502-505
Conceptual
Zero extinction rate estimates
Supporting data and code for our manuscript on zero extinction rate estimates from phylogenies.
conceptual
mu_simulations
 

Louca lab. Department of Biology, University of Oregon, Eugene, USA
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