Whole-genome sequencing of bacterial pathogens: the future of nosocomial outbreak analysis

S Quainoo, JPM Coolen, SAFT van Hijum… - Clinical microbiology …, 2017 - journals.asm.org
Outbreaks of multidrug-resistant bacteria present a frequent threat to vulnerable patient
populations in hospitals around the world. Intensive care unit (ICU) patients are particularly …

An overview of extant conifer evolution from the perspective of the fossil record

AB Leslie, J Beaulieu, G Holman… - American journal of …, 2018 - Wiley Online Library
Premise of the Study Conifers are an important living seed plant lineage with an extensive
fossil record spanning more than 300 million years. The group therefore provides an …

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 …

Complexity of avian evolution revealed by family-level genomes

J Stiller, S Feng, AA Chowdhury, I Rivas-González… - Nature, 2024 - nature.com
Despite tremendous efforts in the past decades, relationships among main avian lineages
remain heavily debated without a clear resolution. Discrepancies have been attributed to …

MEGA12: Molecular Evolutionary Genetic Analysis version 12 for adaptive and green computing

S Kumar, G Stecher, M Suleski… - Molecular Biology …, 2024 - academic.oup.com
We introduce the 12th version of the Molecular Evolutionary Genetics Analysis (MEGA12)
software. This latest version brings many significant improvements by reducing the …

Evolutionary history of the Hymenoptera

RS Peters, L Krogmann, C Mayer, A Donath, S Gunkel… - Current biology, 2017 - cell.com
Summary Hymenoptera (sawflies, wasps, ants, and bees) are one of four mega-diverse
insect orders, comprising more than 153,000 described and possibly up to one million …

Domestication and divergence of Saccharomyces cerevisiae beer yeasts

B Gallone, J Steensels, T Prahl, L Soriaga, V Saels… - Cell, 2016 - cell.com
Whereas domestication of livestock, pets, and crops is well documented, it is still unclear to
what extent microbes associated with the production of food have also undergone human …

Whole-genome analyses resolve early branches in the tree of life of modern birds

ED Jarvis, S Mirarab, AJ Aberer, B Li, P Houde, C Li… - Science, 2014 - science.org
To better determine the history of modern birds, we performed a genome-scale phylogenetic
analysis of 48 species representing all orders of Neoaves using phylogenomic methods …

[HTML][HTML] Worldwide forest surveys reveal forty-three new species in Phytophthora major Clade 2 with fundamental implications for the evolution and biogeography of …

T Jung, I Milenković, Y Balci, J Janoušek… - Studies in …, 2024 - pmc.ncbi.nlm.nih.gov
During 25 surveys of global Phytophthora diversity, conducted between 1998 and 2020, 43
new species were detected in natural ecosystems and, occasionally, in nurseries and …

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

A Stamatakis - Bioinformatics, 2014 - academic.oup.com
Motivation: Phylogenies are increasingly used in all fields of medical and biological
research. Moreover, because of the next-generation sequencing revolution, datasets used …