comparative / phylogenetic analysis

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.

This study compares alternative splicing across 1,494 species to show lineage-specific variation, with mammals and birds having the highest levels and plants showing moderate but variable splicing.

The paper develops a computational framework to simulate 5-ALA transport and fluorescence in glioblastoma patients, showing peak fluorescence occurs 2-7 hours post-administration, consistent with current guidelines.

The paper compares SARS-CoV-2 variants from China and other countries, finding that Chinese variants have more dispersed RBD mutations with higher ACE2 binding and less immune evasion potential due to a distinct immune background.

The paper examines the evolutionary loss and degradation of plaat1 in vertebrates adapted to low-light environments, showing its role in visual acuity and its loss through relaxed selection.

The paper examines the faster-Z effect in Leptidea sinapis, showing that neo-Z chromosomes evolve at different rates due to varying selective pressures and W gametolog presence.

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

This study identifies phylogenetically distinct Planctomycetota groups with diverse CAZyme capabilities for complex polysaccharide degradation, highlighting potential biotechnological applications.

This study shows how sexual parasitism and immune gene degeneration in anglerfishes enabled their evolutionary radiation into deep-sea pelagic habitats during a global warming event.

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.

The paper identifies distinct PE2 subcategories in paramyxoviruses and shows that four U-containing hexamer repeats are critical for filovirus genome replication.

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

This study examines the evolution of nodule symbiosis in Chamaecrista species, finding that the shift from fixation threads to symbiosomes correlates with changes in growth form and habitat.

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.

The paper maps tRNA modifications and their synthesis genes in two Bartonella species, identifying gene reductions linked to reductive evolution.

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 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 determines the Paleocene origin of a symbiotic relationship between Cassidinae leaf beetles and their bacterial symbiont, showing how the symbiont enhances digestive capabilities and promotes host diversification.

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.