comparative / phylogenetic analysis

This study examines phylogenetic patterns in nest type and other traits of Icteridae birds to assess if they evolved to avoid parasitism by Molothrus species.

This study investigates the molecular evolution of the kinetochore complex across primate and rodent species, finding adaptive evolution in many core components and highlighting the role of centromere features in driving protein evolution.

This study reports four new marseillevirus strains, analyzes their biological properties, and predicts novel translation-associated proteins through in silico methods.

This study compares CDC2-like kinases across eukaryotes, showing their evolutionary conservation, thermo-sensitive properties, and role in alternative splicing regulation.

The paper traces the evolutionary history of aminotransferases across species, revealing their substrate promiscuity and how it shaped nitrogen metabolic networks.

This study identifies six new cytochrome bd inhibitor scaffolds through computational screening and validates their activity against Mycobacterium tuberculosis.

The paper shows that antibiotic resistance islands in MDR plasmids are biased towards specific plasmid lineages and evolve rapidly within these lineages.

This paper identifies molecular factors driving the emergence of highly pathogenic H5N1 influenza viruses by showing HA glycosylation and NA stalk length determine subtype pairing and viral fitness.

The paper identifies a conserved high gene strand bias region in Gemmatimonadota chromosomes, suggests its evolutionary origin through horizontal gene transfer, and links it to reduced replication-transcription conflicts.

The paper compares 12 clitellate genomes and 11 outgroup representatives to show that genome rearrangements in Clitellata began at their base and significantly shaped the Hox cluster evolution.

This study compares silicification mechanisms in cyanobacteria and diatoms, finding similar proteins but suggesting cyanobacteria may have an earlier but less efficient silicon accumulation mechanism.

This study reconstructs the evolutionary history of Belidae weevils to show how their host plant shifts and dispersal were influenced by Gondwana breakup and angiosperm rise.

The paper investigates the role of climate and habitat in the evolution of social grouping in lizards, finding that sociality is linked to cool, dry climates through indirect ecological adaptations.

This study reconstructs the biogeographic history of Hemidactylus geckos, finding an Indian origin and multiple dispersals from India to Africa and Asia.

This paper defines a complete set of combinatorial properties for triplets to uniquely determine phylogenetic trees from coherent triplet sets.

This study assembles the chromosome-level genome of Saccharomyces bayanus and compares it to its parental species to understand genome divergence after hybridization.

The paper examines how the 3D genome landscape and disease influence the functional associations of human genes based on their evolutionary age and lineage restriction.

This study examines the genome evolution and transmission patterns of Spiroplasma endosymbionts in Morpho butterflies, revealing genome size inflation, horizontal gene transfer, and contrasting transmission dynamics between sympatric species.

This study examines the effects of GC-biased gene conversion on sequence evolution in short introns of Drosophila melanogaster using polymorphism and divergence data.

This study reveals unique genome evolution in Bryozoa, showing extensive chromosome fusions and fissions that disrupt bilaterian linkage groups and support the Lophophorata hypothesis.

This study characterizes the canine T-cell receptor repertoire using RNA-seq data from various diseases and tissues, revealing similarities and differences with human TCR repertoires.

This study investigates the evolutionary trajectory of DVNP in dinoflagellates, linking its domestication to the loss of histone H1 and lifestyle adaptation.

This study compares transposable element organization in the large Aedes aegypti genome to smaller Diptera genomes, finding higher TE transposition and lower elimination rates in Ae. aegypti.

The paper maps glycoprotein structures across Flaviviridae to identify evolutionary events shaping their virology and ecology.

The paper investigates the evolutionary history of visual opsins in vertebrates by analyzing jawless vertebrate genomes and finds evidence of tandem duplications before vertebrate radiation.

This paper reconstructs the evolution of ESCRT systems in archaea, identifying homologs in Asgardarchaeota and other groups, suggesting an early origin of ESCRT components and their connection to the ubiquitin system.

This study identifies a potent PVC-dechlorinating activity in gut microbiota of insect larvae using comparative metagenomics.

This study examines the Z-chromosome evolution in Morpho butterflies, finding increased genomic rearrangements and positive selection, suggesting a role in speciation through pre- and post-zygotic isolation.

The paper identifies conserved antiviral pathways across macaques and humans using transcriptomic data from viral infections, showing shared and virus-specific responses that inform pandemic preparedness.

The paper identifies accelerated evolution in conserved enhancer elements across mammals and links it to regulatory function turnover and developmental gene modifications.