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Molecular Biology and Evolution  
Volume 41 Issue 7
 
July 2024
 
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Perspective
 
 
 
 
Understanding the Genetic Basis of Variation in Meiotic Recombination: Past, Present, and Future border= 
 
Susan E Johnston
 
 
 
Discoveries
 
 
 
 
Ancient and Recent Hybridization in the Oreochromis Cichlid Fishes border= 
 
Adam G Ciezarek, Tarang K Mehta, Angela Man, Antonia G P Ford, Geraldine Dorcas Kavembe ...
 
 
 
The Human Developing Cerebral Cortex Is Characterized by an Elevated De Novo Expression of Long Noncoding RNAs in Excitatory Neurons border= 
 
David A Morales-Vicente, Ana C Tahira, Daisy Woellner-Santos, Murilo S Amaral, Maria G Berzoti-Coelho ...
 
 
 
Brain Gene Regulatory Networks Coordinate Nest Construction in Birds border=  
 
Yi-Ting Fang, Hao-Chih Kuo, Cheng-Yu Chen, Shen-Ju Chou, Chia-Wei Lu ...
 
 
 
Historic dog Furs Unravel the Origin and Artificial Selection of Modern Nordic Lapphund and Elkhound dog Breeds border= 
 
Shi-Zhi Wang, Yu Yan, Malin Widlund, Chen-Chang Qian, Liang-Liang Zhang ...
 
 
 
 
Morphometrics and Phylogenomics of Coca (Erythroxylum spp.) Illuminate Its Reticulate Evolution, With Implications for Taxonomy border= 
 
Natalia A S Przelomska, Rudy A Diaz, Fabio Andrés Ávila, Gustavo A Ballen, Rocío Cortés-B ...
 
 
 
Evolutionary Dynamics of Accelerated Antiviral Resistance Development in Hypermutator Herpesvirus border= 
 
Thomas Höfler, Mariana Mara Nascimento, Michaela Zeitlow, Ji Yoon Kim, Jakob Trimpert
 
 
 
Genomic Reconstruction of the Successful Establishment of a Feralized Bovine Population on the Subantarctic Island of Amsterdam border= 
 
Mathieu Gautier, Thierry Micol, Louise Camus, Katayoun Moazami-Goudarzi, Michel Naves ...
 
 
 
Selfing Promotes Spread and Introgression of Segregation Distorters in Hermaphroditic Plants border= 
 
Hongru Wang, Léo Planche, Vladimir Shchur, Rasmus Nielsen
 
 
 
Deciphering Structural Traits for Thermal and Kinetic Stability across Protein Family Evolution through Ancestral Sequence Reconstruction border= 
 
Pablo A Cea, Myriam Pérez, Sixto M Herrera, Sebastián M Muñoz, Nicolás Fuentes-Ugarte ...
 
 
 
 
Genome-Wide Allele Frequency Changes Reveal That Dynamic Metapopulations Evolve Differently border= 
 
Pascal Angst, Christoph R Haag, Frida Ben-Ami, Peter D Fields, Dieter Ebert
 
 
 
Exploring the Accuracy and Limits of Algorithms for Localizing Recombination Breakpoints border= 
 
Shi Cen, David A Rasmussen
 
 
 
Multiple Human Population Movements and Cultural Dispersal Events Shaped the Landscape of Chinese Paternal Heritage border= 
 
Mengge Wang, Yuguo Huang, Kaijun Liu, Zhiyong Wang, Menghan Zhang ...
 
 
 
Rewinding the Ratchet: Rare Recombination Locally Rescues Neo-W Degeneration and Generates Plateaus of Sex-Chromosome Divergence border= 
 
Thomas Decroly, Roger Vila, Konrad Lohse, Alexander Mackintosh
 
 
 
Biases in ARG-Based Inference of Historical Population Size in Populations Experiencing Selection border= 
 
Jacob I Marsh, Parul Johri
 
 
 
Heteroplasmy Is Rare in Plant Mitochondria Compared with Plastids despite Similar Mutation Rates border= 
 
Marina Khachaturyan, Mario Santer, Thorsten B H Reusch, Tal Dagan
 
 
 
Analysis of Evolutionary Conservation, Expression Level, and Genetic Association at a Genome-wide Scale Reveals Heterogeneity Across Polygenic Phenotypes border= 
 
Ann-Sophie Giel, Jessica Bigge, Johannes Schumacher, Carlo Maj, Pouria Dasmeh
 
 
 
Evidence for Admixture and Rapid Evolution During Glacial Climate Change in an Alpine Specialist border= 
 
Yi-Ming Weng, David H Kavanaugh, Sean D Schoville
 
 
 
Rapid Adaptation and Interspecific Introgression in the North American Crop Pest Helicoverpa zea border= 
 
Henry L North, Zhen Fu, Richard Metz, Matt A Stull, Charles D Johnson ...
 
 
 
Parallel Evolution in Mosquito Vectors'A Duplicated Esterase Locus is Associated With Resistance to Pirimiphos-methyl in Anopheles gambiae border= 
 
Sanjay C Nagi, Eric R Lucas, Alexander Egyir-Yawson, John Essandoh, Samuel Dadzie ...
 
 
 
Following the Evolutionary Paths of Dscam1 Proteins toward Highly Specific Homophilic Interactions border= 
 
Gil Wiseglass, Rotem Rubinstein
 
 
 
An Orphan Gene Enhances Male Reproductive Success in Plutella xylostella border= 
 
Qian Zhao, Yahong Zheng, Yiying Li, Lingping Shi, Jing Zhang ...
 
 
 
Ancestral Origins and Admixture History of Kazakhs border=  
 
Chang Lei, Jiaojiao Liu, Rui Zhang, Yuwen Pan, Yan Lu ...
 
 
 
The Evolution of Ultraconserved Elements in Vertebrates border=  
 
Mitchell Cummins, Cadel Watson, Richard J Edwards, John S Mattick
 
 
 
Evolution and Functional Differentiation of the C-terminal Motifs of FtsZs During Plant Evolution border= 
 
Jinjie An, Lulu Wang, Conghao Hong, Hongbo Gao
 
 
 
Adaptive Evolution of Two Distinct Adaptive Haplotypes of Neanderthal Origin at the Immunoglobulin Heavy-chain Locus in East Asian and European Populations border= 
 
Xixian Ma, Yan Lu, Shuhua Xu
 
 
 
Methods
 
 
 
 
Please Mind the Gap: Indel-Aware Parsimony for Fast and Accurate Ancestral Sequence Reconstruction and Multiple Sequence Alignment Including Long Indels border= 
 
Clara Iglhaut, Jūlija Pečerska, Manuel Gil, Maria Anisimova
 
 
 
Discovering Fragile Clades and Causal Sequences in Phylogenomics by Evolutionary Sparse Learning border= 
 
Sudip Sharma, Sudhir Kumar
 
 
 
Comparing Phylogeographies to Reveal Incompatible Geographical Histories within Genomes border= 
 
Benjamin Singer, Antonello Di Nardo, Jotun Hein, Luca Ferretti
 
 
 
PHACTboost: A Phylogeny-Aware Pathogenicity Predictor for Missense Mutations via Boosting border= 
 
Onur Dereli, Nurdan Kuru, Emrah Akkoyun, Aylin Bircan, Oznur Tastan ...
 
 
 
COATi: Statistical Pairwise Alignment of Protein-Coding Sequences border=  
 
Juan José García Mesa, Ziqi Zhu, Reed A Cartwright
 
 
 
Inference of Locus-Specific Population Mixtures from Linked Genome-Wide Allele Frequencies border= 
 
Carlos S Reyna-Blanco, Madleina Caduff, Marco Galimberti, Christoph Leuenberger, Daniel Wegmann
 
 
 
Polymorphism-Aware Models in RevBayes: Species Trees, Disentangling Balancing Selection, and GC-Biased Gene Conversion border= 
 
Svitlana Braichenko, Rui Borges, Carolin Kosiol
 
 
 
Resources
 
 
 
 
PhyloAln: A Convenient Reference-Based Tool to Align Sequences and High-Throughput Reads for Phylogeny and Evolution in the Omic Era border= 
 
Yu-Hao Huang, Yi-Fei Sun, Hao Li, Hao-Sen Li, Hong Pang
 
 
 
Brief Communications
 
 
 
 
CMAPLE: Efficient Phylogenetic Inference in the Pandemic Era border= 
 
Nhan Ly-Trong, Chris Bielow, Nicola De Maio, Bui Quang Minh
 
 
 
Correction
 
 
 
 
Correction to: Boundary Effects Cause False Signals of Range Expansions in Population Genomic Data border= 
 
 
 
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