
Volume 39, Issue 8
August 2022
Cover image
Cover image

PHACT (Phylogeny-aware computing of tolerance) predicts the pathogenicity of missense mutations by detecting the evolutionary instances of amino acid substitution events. Representing the algorithm, a scientist walks through a path corresponding to a phylogenetic tree. The branches through the mountains represent the long evolutionary history that PHACT analyzes by traveling through all the tree branches (39:msac114). Artwork by Nehircan Özdemir.
EISSN 1537-1719
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Volume 39, Issue 8, August 2022
Discoveries
Expanded Dataset Reveals the Emergence and Evolution of DNA Gyrase in Archaea
Paul Villain and others
Molecular Biology and Evolution, Volume 39, Issue 8, August 2022, msac155, https://doi.org/10.1093/molbev/msac155
Evolution of Human-Specific Alleles Protecting Cognitive Function of Grandmothers
Sudeshna Saha and others
Molecular Biology and Evolution, Volume 39, Issue 8, August 2022, msac151, https://doi.org/10.1093/molbev/msac151
Uncovering Signals of Positive Selection in Peruvian Populations from Three Ecological Regions
Rocio Caro-Consuegra and others
Molecular Biology and Evolution, Volume 39, Issue 8, August 2022, msac158, https://doi.org/10.1093/molbev/msac158
Comparative Genomics of the Waterfowl Innate Immune System
Elinor Jax and others
Molecular Biology and Evolution, Volume 39, Issue 8, August 2022, msac160, https://doi.org/10.1093/molbev/msac160
Robertsonian Fusion and Centromere Repositioning Contributed to the Formation of Satellite-free Centromeres During the Evolution of Zebras
Eleonora Cappelletti and others
Molecular Biology and Evolution, Volume 39, Issue 8, August 2022, msac162, https://doi.org/10.1093/molbev/msac162
A Secondary Metabolic Enzyme Functioned as an Evolutionary Seed of a Primary Metabolic Enzyme
Jun Kawaguchi and others
Molecular Biology and Evolution, Volume 39, Issue 8, August 2022, msac164, https://doi.org/10.1093/molbev/msac164
Repeat Dynamics across Timescales: A Perspective from Sibling Allotetraploid Marsh Orchids (Dactylorhiza majalis s.l.)
Mimmi C Eriksson and others
Molecular Biology and Evolution, Volume 39, Issue 8, August 2022, msac167, https://doi.org/10.1093/molbev/msac167
Evolutionary Genomics of a Subdivided Species
Takahiro Maruki and others
Molecular Biology and Evolution, Volume 39, Issue 8, August 2022, msac152, https://doi.org/10.1093/molbev/msac152
Assessing Human Genome-wide Variation in the Massim Region of Papua New Guinea and Implications for the Kula Trading Tradition
Dang Liu and others
Molecular Biology and Evolution, Volume 39, Issue 8, August 2022, msac165, https://doi.org/10.1093/molbev/msac165
Is the Mutation Rate Lower in Genomic Regions of Stronger Selective Constraints?
Haoxuan Liu and Jianzhi Zhang
Molecular Biology and Evolution, Volume 39, Issue 8, August 2022, msac169, https://doi.org/10.1093/molbev/msac169
Genome Sequencing of up to 6,000-Year-Old Citrullus Seeds Reveals Use of a Bitter-Fleshed Species Prior to Watermelon Domestication
Oscar A Pérez-Escobar and others
Molecular Biology and Evolution, Volume 39, Issue 8, August 2022, msac168, https://doi.org/10.1093/molbev/msac168
Phylogenomic Evidence for the Origin of Obligate Anaerobic Anammox Bacteria Around the Great Oxidation Event
Tianhua Liao and others
Molecular Biology and Evolution, Volume 39, Issue 8, August 2022, msac170, https://doi.org/10.1093/molbev/msac170
The Neurodevelopmental Gene MSANTD2 Belongs to a Gene Family Formed by Recurrent Molecular Domestication of Harbinger Transposons at the Base of Vertebrates
Ema Etchegaray and others
Molecular Biology and Evolution, Volume 39, Issue 8, August 2022, msac173, https://doi.org/10.1093/molbev/msac173
Methods
Variational Phylodynamic Inference Using Pandemic-scale Data
Caleb Ki and Jonathan Terhorst
Molecular Biology and Evolution, Volume 39, Issue 8, August 2022, msac154, https://doi.org/10.1093/molbev/msac154
Accounting for Errors in Data Improves Divergence Time Estimates in Single-cell Cancer Evolution
Kylie Chen and others
Molecular Biology and Evolution, Volume 39, Issue 8, August 2022, msac143, https://doi.org/10.1093/molbev/msac143
Bayesian Phylogenetic Inference using Relaxed-clocks and the Multispecies Coalescent
Tomáš Flouri and others
Molecular Biology and Evolution, Volume 39, Issue 8, August 2022, msac161, https://doi.org/10.1093/molbev/msac161
A Phylogeny-aware GWAS Framework to Correct for Heritable Pathogen Effects on Infectious Disease Traits
Sarah Nadeau and others
Molecular Biology and Evolution, Volume 39, Issue 8, August 2022, msac163, https://doi.org/10.1093/molbev/msac163
New Phylogenetic Models Incorporating Interval-Specific Dispersal Dynamics Improve Inference of Disease Spread
Jiansi Gao and others
Molecular Biology and Evolution, Volume 39, Issue 8, August 2022, msac159, https://doi.org/10.1093/molbev/msac159
Resources
HAlign 3: Fast Multiple Alignment of Ultra-Large Numbers of Similar DNA/RNA Sequences
Furong Tang and others
Molecular Biology and Evolution, Volume 39, Issue 8, August 2022, msac166, https://doi.org/10.1093/molbev/msac166
The Codon Statistics Database: A Database of Codon Usage Bias
Krishnamurthy Subramanian and others
Molecular Biology and Evolution, Volume 39, Issue 8, August 2022, msac157, https://doi.org/10.1093/molbev/msac157
TimeTree 5: An Expanded Resource for Species Divergence Times
Sudhir Kumar and others
Molecular Biology and Evolution, Volume 39, Issue 8, August 2022, msac174, https://doi.org/10.1093/molbev/msac174
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