Incongruence in the phylogenomics era

JL Steenwyk, Y Li, X Zhou, XX Shen… - Nature Reviews Genetics, 2023 - nature.com
Genome-scale data and the development of novel statistical phylogenetic approaches have
greatly aided the reconstruction of a broad sketch of the tree of life and resolved many of its …

Monkeypox virus in Nigeria: infection biology, epidemiology, and evolution

E Alakunle, U Moens, G Nchinda, MI Okeke - Viruses, 2020 - mdpi.com
Monkeypox is a zoonotic disease caused by monkeypox virus (MPXV), which is a member of
orthopoxvirus genus. The reemergence of MPXV in 2017 (at Bayelsa state) after 39 years of …

Global diversity and systematics of Hymenochaetaceae with poroid hymenophore

F Wu, LW Zhou, J Vlasák, YC Dai - Fungal Diversity, 2022 - Springer
Taxonomy and phylogeny of poroid Hymenochaetaceae based on the most comprehensive
phylogenetic analyses are presented. A phylogeny based on a combined dataset of ITS and …

ModelTest-NG: a new and scalable tool for the selection of DNA and protein evolutionary models

D Darriba, D Posada, AM Kozlov… - Molecular biology …, 2020 - academic.oup.com
ModelTest-NG is a reimplementation from scratch of jModelTest and ProtTest, two popular
tools for selecting the best-fit nucleotide and amino acid substitution models, respectively …

Clinical and virologic characteristics of the first 12 patients with coronavirus disease 2019 (COVID-19) in the United States

Nature medicine, 2020 - nature.com
Data on the detailed clinical progression of COVID-19 in conjunction with epidemiological
and virological characteristics are limited. In this case series, we describe the first 12 US …

Fungal identification using molecular tools: a primer for the natural products research community

HA Raja, AN Miller, CJ Pearce… - Journal of natural …, 2017 - ACS Publications
Fungi are morphologically, ecologically, metabolically, and phylogenetically diverse. They
are known to produce numerous bioactive molecules, which makes them very useful for …

Early phylogenetic estimate of the effective reproduction number of SARS‐CoV‐2

A Lai, A Bergna, C Acciarri, M Galli… - Journal of medical …, 2020 - Wiley Online Library
To reconstruct the evolutionary dynamics of the 2019 novel‐coronavirus recently causing an
outbreak in Wuhan, China, 52 SARS‐CoV‐2 genomes available on 4 February 2020 at …

A global phylogeny of turtles reveals a burst of climate-associated diversification on continental margins

RC Thomson, PQ Spinks… - Proceedings of the …, 2021 - National Acad Sciences
Living turtles are characterized by extraordinarily low species diversity given their age. The
clade's extensive fossil record indicates that climate and biogeography may have played …

ModelFinder: fast model selection for accurate phylogenetic estimates

S Kalyaanamoorthy, BQ Minh, TKF Wong… - Nature …, 2017 - nature.com
Abstract Model-based molecular phylogenetics plays an important role in comparisons of
genomic data, and model selection is a key step in all such analyses. We present …

Global assessment of arbuscular mycorrhizal fungus diversity reveals very low endemism

J Davison, M Moora, M Öpik, A Adholeya, L Ainsaar… - Science, 2015 - science.org
The global biogeography of microorganisms remains largely unknown, in contrast to the well-
studied diversity patterns of macroorganisms. We used arbuscular mycorrhizal (AM) fungus …