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Horizontal Transfer, Not Duplication, Drives the Expansion of Protein Families in Prokaryotes

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Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1002/bies.080085openalex-snapshot
The life and death of gene families
inferredcites →https://doi.org/10.1002/bies.20728openalex-snapshot
Gene duplications, robustness and evolutionary innovations
inferredcites →https://doi.org/10.1002/jez.b.21124openalex-snapshot
Evolution after gene duplication: models, mechanisms, sequences, systems, and organisms
inferredcites →https://doi.org/10.1002/jez.b.21147openalex-snapshot
Erosion of interaction networks in reduced and degraded genomes
inferredcites →https://doi.org/10.1007/pl00006158openalex-snapshot
Amelioration of Bacterial Genomes: Rates of Change and Exchange
inferredcites →https://doi.org/10.1007/s00239-006-0207-7openalex-snapshot
How Common Are Intragene Windows with K A > K S Owing to Purifying Selection on Synonymous Mutations?
inferredcites →https://doi.org/10.1016/j.jmb.2006.07.033openalex-snapshot
The Role of Domain Redundancy in Genetic Robustness Against Null Mutations
inferredcites →https://doi.org/10.1016/j.mib.2008.09.006openalex-snapshot
Comparative genomics: the bacterial pan-genome
inferredcites →https://doi.org/10.1016/j.mib.2008.09.007openalex-snapshot
Evolutionary patterns in prokaryotic genomes
inferredcites →https://doi.org/10.1016/j.tim.2004.02.007openalex-snapshot
Gene duplication and biased functional retention of paralogs in bacterial genomes
inferredcites →https://doi.org/10.1016/s0022-2836(05)80360-2openalex-snapshot
Basic Local Alignment Search Tool
inferredcites →https://doi.org/10.1038/35012500openalex-snapshot
Lateral gene transfer and the nature of bacterial innovation
inferredcites →https://doi.org/10.1038/nature07410openalex-snapshot
The Phaeodactylum genome reveals the evolutionary history of diatom genomes
inferredcites →https://doi.org/10.1038/nbt1354openalex-snapshot
Complete genome sequence of the myxobacterium Sorangium cellulosum
inferredcites →https://doi.org/10.1038/ng1340openalex-snapshot
Gene regulatory network growth by duplication
inferredcites →https://doi.org/10.1038/ng1579openalex-snapshot
An adaptive radiation model for the origin of new gene functions
inferredcites →https://doi.org/10.1038/ng1686openalex-snapshot
Adaptive evolution of bacterial metabolic networks by horizontal gene transfer
inferredcites →https://doi.org/10.1038/nrg2386openalex-snapshot
Horizontal gene transfer in eukaryotic evolution
inferredcites →https://doi.org/10.1038/nrg2482openalex-snapshot
Turning a hobby into a job: How duplicated genes find new functions
inferredcites →https://doi.org/10.1038/nrg2689openalex-snapshot
The evolution of gene duplications: classifying and distinguishing between models
inferredcites →https://doi.org/10.1046/j.1365-2958.2000.02067.xopenalex-snapshot
Molecular models accounting for the gene conversion reactions mediating gonococcal pilin antigenic variation
inferredcites →https://doi.org/10.1073/pnas.0604795103openalex-snapshot
Genome analysis of the smallest free-living eukaryote Ostreococcus tauri unveils many unique features
inferredcites →https://doi.org/10.1073/pnas.0607048103openalex-snapshot
The complete genome of Rhodococcus sp. RHA1 provides insights into a catabolic powerhouse
inferredcites →https://doi.org/10.1073/pnas.0607335103openalex-snapshot
Evolution of sensory complexity recorded in a myxobacterial genome
inferredcites →https://doi.org/10.1073/pnas.0608309103openalex-snapshot
Multiple pathways of selected gene amplification during adaptive mutation
inferredcites →https://doi.org/10.1073/pnas.0611553104openalex-snapshot
The Orientia tsutsugamushi genome reveals massive proliferation of conjugative type IV secretion system and host–cell interaction genes
inferredcites →https://doi.org/10.1073/pnas.0800679105openalex-snapshot
Modular networks and cumulative impact of lateral transfer in prokaryote genome evolution
inferredcites →https://doi.org/10.1073/pnas.0804119105openalex-snapshot
Conservation and topology of protein interaction networks under duplication-divergence evolution
inferredcites →https://doi.org/10.1073/pnas.0907584106openalex-snapshot
The impact of long-distance horizontal gene transfer on prokaryotic genome size
inferredcites →https://doi.org/10.1073/pnas.1735481100openalex-snapshot
Extensive repetitive DNA facilitates prokaryotic genome plasticity
inferredcites →https://doi.org/10.1073/pnas.251396098openalex-snapshot
Recombination and mutation during long-term gastric colonization by Helicobacter pylori : Estimates of clock rates, recombination size, and minimal age
inferredcites →https://doi.org/10.1073/pnas.98.1.182openalex-snapshot
Recombination within natural populations of pathogenic bacteria: Short-term empirical estimates and long-term phylogenetic consequences
inferredcites →https://doi.org/10.1074/mcp.m900240-mcp200openalex-snapshot
Unbiased Quantitation of Escherichia coli Membrane Proteome Using Phase Transfer Surfactants
inferredcites →https://doi.org/10.1080/10635150490522232openalex-snapshot
Bayesian Estimation of Ancestral Character States on Phylogenies
inferredcites →https://doi.org/10.1093/bioinformatics/13.5.555openalex-snapshot
PAML: a program package for phylogenetic analysis by maximum likelihood
inferredcites →https://doi.org/10.1093/bioinformatics/18.3.502openalex-snapshot
TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing
inferredcites →https://doi.org/10.1093/molbev/msh004openalex-snapshot
An Analysis of Determinants of Amino Acids Substitution Rates in Bacterial Proteins
inferredcites →https://doi.org/10.1093/molbev/msj052openalex-snapshot
Inference and Analysis of the Relative Stability of Bacterial Chromosomes
inferredcites →https://doi.org/10.1093/molbev/msj085openalex-snapshot
Periodic Extinctions of Transposable Elements in Bacterial Lineages: Evidence from Intragenomic Variation in Multiple Genomes
inferredcites →https://doi.org/10.1093/molbev/msm014openalex-snapshot
Causes of Insertion Sequences Abundance in Prokaryotic Genomes
inferredcites →https://doi.org/10.1093/molbev/msm283openalex-snapshot
Integration of Horizontally Transferred Genes into Regulatory Interaction Networks Takes Many Million Years
inferredcites →https://doi.org/10.1093/nar/15.3.1281openalex-snapshot
The codon adaptation index-a measure of directional synonymous codon usage bias, and its potential applications
inferredcites →https://doi.org/10.1093/nar/30.7.1575openalex-snapshot
An efficient algorithm for large-scale detection of protein families
inferredcites →https://doi.org/10.1093/nar/gkf391openalex-snapshot
Origin and fate of repeats in bacteria
inferredcites →https://doi.org/10.1093/nar/gkh340openalex-snapshot
MUSCLE: multiple sequence alignment with high accuracy and high throughput
inferredcites →https://doi.org/10.1093/nar/gkj014openalex-snapshot
ISfinder: the reference centre for bacterial insertion sequences
inferredcites →https://doi.org/10.1093/nar/gkl732openalex-snapshot
Phage_Finder: Automated identification and classification of prophage regions in complete bacterial genome sequences
inferredcites →https://doi.org/10.1093/nar/gkm204openalex-snapshot
Detecting laterally transferred genes: use of entropic clustering methods and genome position
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a004046openalex-snapshot
Prokaryotic Evolution in Light of Gene Transfer
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a025808openalex-snapshot
BIONJ: an improved version of the NJ algorithm based on a simple model of sequence data
inferredcites →https://doi.org/10.1099/mic.0.033266-0openalex-snapshot
New insights into the regulatory networks of paralogous genes in bacteria
inferredcites →https://doi.org/10.1101/gr.1092603openalex-snapshot
The Balance of Driving Forces During Genome Evolution in Prokaryotes
inferredcites →https://doi.org/10.1101/gr.1224503openalex-snapshot
OrthoMCL: Identification of Ortholog Groups for Eukaryotic Genomes
inferredcites →https://doi.org/10.1101/gr.176501openalex-snapshot
Genomes in Flux: The Evolution of Archaeal and Proteobacterial Gene Content
inferredcites →https://doi.org/10.1101/gr.5322306openalex-snapshot
Phylogenetic analyses of cyanobacterial genomes: Quantification of horizontal gene transfer events
inferredcites →https://doi.org/10.1101/gr.5525106openalex-snapshot
Similar compositional biases are caused by very different mutational effects
inferredcites →https://doi.org/10.1109/tcbb.2009.9openalex-snapshot
A Novel Heuristic for Local Multiple Alignment of Interspersed DNA Repeats
inferredcites →https://doi.org/10.1111/j.1574-6976.2009.00169.xopenalex-snapshot
Genesis, effects and fates of repeats in prokaryotic genomes
inferredcites →https://doi.org/10.1126/science.1147112openalex-snapshot
Genome-Wide Experimental Determination of Barriers to Horizontal Gene Transfer
inferredcites →https://doi.org/10.1128/jb.00472-06openalex-snapshot
Genome Rearrangements, Deletions, and Amplifications in the Natural Population of Bartonella henselae
inferredcites →https://doi.org/10.1146/annurev-genet-102108-134805openalex-snapshot
Gene Amplification and Adaptive Evolution in Bacteria
inferredcites →https://doi.org/10.1146/annurev.genet.31.1.91openalex-snapshot
GENE AMPLIFICATION AND GENOMIC PLASTICITY IN PROKARYOTES
inferredcites →https://doi.org/10.1186/1745-6150-4-28openalex-snapshot
On the need for widespread horizontal gene transfers under genome size constraint
inferredcites →https://doi.org/10.1186/1745-6150-4-46openalex-snapshot
Evolution by leaps: gene duplication in bacteria
inferredcites →https://doi.org/10.1186/gb-2003-4-8-r48openalex-snapshot
Duplication is more common among laterally transferred genes than among indigenous genes
inferredcites →https://doi.org/10.1186/gb-2004-5-4-r27openalex-snapshot
Comparative genomics of gene-family size in closely related bacteria
inferredcites →https://doi.org/10.1186/gb-2007-8-4-r51openalex-snapshot
Evolution of protein complexes by duplication of homomeric interactions
inferredcites →https://doi.org/10.1186/gb-2007-8-6-r100openalex-snapshot
Genetic flux over time in the Salmonella lineage
inferredcites →https://doi.org/10.1186/gb-2007-8-8-r156openalex-snapshot
Complexity, connectivity, and duplicability as barriers to lateral gene transfer
inferredcites →https://doi.org/10.1186/gb-2008-9-1-r4openalex-snapshot
Horizontal gene transfer and the evolution of transcriptional regulation in Escherichia coli
inferredcites →https://doi.org/10.1371/journal.pbio.0030130openalex-snapshot
Evolutionary Origins of Genomic Repertoires in Bacteria
inferredcites →https://doi.org/10.1371/journal.pbio.1000096openalex-snapshot
Global Functional Atlas of Escherichia coli Encompassing Previously Uncharacterized Proteins
inferredcites →https://doi.org/10.1371/journal.pcbi.0020143openalex-snapshot
The Evolution of Two-Component Systems in Bacteria Reveals Different Strategies for Niche Adaptation
inferredcites →https://doi.org/10.1371/journal.pcbi.1000059openalex-snapshot
The Emergence and Fate of Horizontally Acquired Genes in Escherichia coli
inferredcites →https://doi.org/10.1371/journal.pgen.1000565openalex-snapshot
Origin of an Alternative Genetic Code in the Extremely Small and GC–Rich Genome of a Bacterial Symbiont

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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The evolution of MarR family transcription factors as counter-silencers in regulatory networks
inferred← citeshttps://doi.org/10.1016/j.mib.2022.01.005openalex-snapshot
Prokaryote pangenomes are dynamic entities
inferred← citeshttps://doi.org/10.1016/j.mib.2022.02.002openalex-snapshot
Natural selection on crosstalk between gene regulatory networks facilitates bacterial adaptation to novel environments
inferred← citeshttps://doi.org/10.1016/j.micpath.2020.104275openalex-snapshot
Interest of bacterial pangenome analyses in clinical microbiology
inferred← citeshttps://doi.org/10.1016/j.oneear.2024.08.002openalex-snapshot
Toward an integrated understanding of how extreme polar light regimes, hybridization, and light-sensitive microbes shape global biodiversity
inferred← citeshttps://doi.org/10.1016/j.pep.2024.106551openalex-snapshot
Cloning and characterization of a hyaluronate lyase EsHyl8 from Escherichia sp. A99
inferred← citeshttps://doi.org/10.1016/j.pestbp.2023.105527openalex-snapshot
Exploring the role of detoxification genes in the resistance of Bursaphelenchus xylophilus to different exogenous nematicidal substances using transcriptomic analyses
inferred← citeshttps://doi.org/10.1016/j.scib.2023.09.001openalex-snapshot
Intraspecific microdiversity and ecological drivers of lactic acid bacteria in naturally fermented milk ecosystem
inferred← citeshttps://doi.org/10.1016/j.tim.2015.07.006openalex-snapshot
Rates of Lateral Gene Transfer in Prokaryotes: High but Why?
inferred← citeshttps://doi.org/10.1016/j.tim.2020.12.004openalex-snapshot
Mechanisms That Shape Microbial Pangenomes
inferred← citeshttps://doi.org/10.1016/j.tree.2013.04.002openalex-snapshot
Exploring the costs of horizontal gene transfer
inferred← citeshttps://doi.org/10.1016/j.ymben.2025.08.005openalex-snapshot
Pan-reactome analysis of Streptomyces strains reveals association and disconnection between primary and secondary metabolism
inferred← citeshttps://doi.org/10.1016/j.ympev.2013.07.010openalex-snapshot
Elucidating the origin of the ExbBD components of the TonB system through Bayesian inference and maximum-likelihood phylogenies
inferred← citeshttps://doi.org/10.1016/j.ympev.2026.108532openalex-snapshot
Large-scale phylogenomics reveals convergent genome evolution across repeated transitions to endosymbiosis in Enterobacterales
inferred← citeshttps://doi.org/10.1021/acsestwater.4c00790openalex-snapshot
Metagenomics Evidence of a Novel Thermoplasmata-like Archaeon Decomposing Heterodisulfide in Nonacidic Estuary-Ocean Sediment
inferred← citeshttps://doi.org/10.1021/ja205043fopenalex-snapshot
Efficient Electron Transfer in a Protein Network Lacking Specific Interactions
inferred← citeshttps://doi.org/10.1038/471269fopenalex-snapshot
New proteins from neighbours
inferred← citeshttps://doi.org/10.1038/ismej.2014.193openalex-snapshot
Inter-phylum HGT has shaped the metabolism of many mesophilic and anaerobic bacteria
inferred← citeshttps://doi.org/10.1038/ismej.2015.223openalex-snapshot
Emerging pathogens of gilthead seabream: characterisation and genomic analysis of novel intracellular β-proteobacteria
inferred← citeshttps://doi.org/10.1038/ismej.2016.116openalex-snapshot
Phylogenomic networks reveal limited phylogenetic range of lateral gene transfer by transduction
inferred← citeshttps://doi.org/10.1038/nature14963openalex-snapshot
Endosymbiotic origin and differential loss of eukaryotic genes
inferred← citeshttps://doi.org/10.1038/nmicrobiol.2017.40openalex-snapshot
Why prokaryotes have pangenomes
inferred← citeshttps://doi.org/10.1038/nrg2966openalex-snapshot
In Brief
inferred← citeshttps://doi.org/10.1038/nrg3962openalex-snapshot
Horizontal gene transfer: building the web of life
inferred← citeshttps://doi.org/10.1038/nrmicro.2017.66openalex-snapshot
Interbacterial predation as a strategy for DNA acquisition in naturally competent bacteria
inferred← citeshttps://doi.org/10.1038/s41396-018-0290-yopenalex-snapshot
From proteins to polysaccharides: lifestyle and genetic evolution of Coprothermobacter proteolyticus
inferred← citeshttps://doi.org/10.1038/s41467-017-00808-wopenalex-snapshot
The chromosomal organization of horizontal gene transfer in bacteria
inferred← citeshttps://doi.org/10.1038/s41467-020-19132-xopenalex-snapshot
Gene duplication drives genome expansion in a major lineage of Thaumarchaeota
inferred← citeshttps://doi.org/10.1038/s41467-024-45638-9openalex-snapshot
Duplicated antibiotic resistance genes reveal ongoing selection and horizontal gene transfer in bacteria
inferred← citeshttps://doi.org/10.1038/s41467-024-46947-9openalex-snapshot
Genomic language model predicts protein co-regulation and function
inferred← citeshttps://doi.org/10.1038/s41467-026-71534-5openalex-snapshot
Phylogenomics of Asgard archaea reveals a unique blend of prokaryotic-like horizontal transfer and eukaryotic-like gene duplication
inferred← citeshttps://doi.org/10.1038/s41467-026-76386-7openalex-snapshot
Phylogenetic reconciliation supports a methanogenic ancestor of the Archaea and a derived origin for host-associated lineages
inferred← citeshttps://doi.org/10.1038/s41559-024-02357-0openalex-snapshot
A global survey of prokaryotic genomes reveals the eco-evolutionary pressures driving horizontal gene transfer
inferred← citeshttps://doi.org/10.1038/s41564-022-01300-yopenalex-snapshot
Differential carbon utilization enables co-existence of recently speciated Campylobacteraceae in the cow rumen epithelial microbiome
inferred← citeshttps://doi.org/10.1038/s41598-017-01859-1openalex-snapshot
Metazoan Ribosome Inactivating Protein encoding genes acquired by Horizontal Gene Transfer
inferred← citeshttps://doi.org/10.1038/s41598-017-06160-9openalex-snapshot
Comparative genomic analysis of Paenibacillus sp. SSG-1 and its closely related strains reveals the effect of glycometabolism on environmental adaptation
inferred← citeshttps://doi.org/10.1038/s41598-017-08313-2openalex-snapshot
Recurrent horizontal transfer of arsenite methyltransferase genes facilitated adaptation of life to arsenic
inferred← citeshttps://doi.org/10.1038/s41598-019-42311-wopenalex-snapshot
Natural tuning of restriction endonuclease synthesis by cluster of rare arginine codons
inferred← citeshttps://doi.org/10.1038/s41598-020-72267-1openalex-snapshot
Whitefly genomes contain ribotoxin coding genes acquired from plants
inferred← citeshttps://doi.org/10.1038/s41598-020-77377-4openalex-snapshot
Integron gene cassettes harboring novel variants of d-alanine-d-alanine ligase confer high-level resistance to d-cycloserine
inferred← citeshttps://doi.org/10.1038/s41598-022-07632-3openalex-snapshot
Collective effects of human genomic variation on microbiome function
inferred← citeshttps://doi.org/10.1038/s41598-022-07725-zopenalex-snapshot
Genomic evolution and adaptation of arthropod-associated Rickettsia
inferred← citeshttps://doi.org/10.1038/s42003-021-02173-3openalex-snapshot
Comparative analysis of mite genomes reveals positive selection for diet adaptation
inferred← citeshttps://doi.org/10.1038/s42003-024-05961-9openalex-snapshot
Salivary proteins potentially derived from horizontal gene transfer are critical for salivary sheath formation and other feeding processes
inferred← citeshttps://doi.org/10.1038/srep06261openalex-snapshot
Analysis of genes contributing to plant-beneficial functions in plant growth-promoting rhizobacteria and related Proteobacteria
inferred← citeshttps://doi.org/10.1038/srep11608openalex-snapshot
Evidence for horizontal transfer of mitochondrial DNA to the plastid genome in a bamboo genus
inferred← citeshttps://doi.org/10.1038/srep18676openalex-snapshot
Horizontal functional gene transfer from bacteria to fishes
inferred← citeshttps://doi.org/10.1039/c2mb05330fopenalex-snapshot
Horizontal gene transfers as metagenomic gene duplications
inferred← citeshttps://doi.org/10.1042/bcj20160823openalex-snapshot
Evolution of biosynthetic diversity
inferred← citeshttps://doi.org/10.1042/ebc20250017openalex-snapshot
Considering internal conflict in the face of natural product biosynthesis and biosynthetic gene cluster evolution
inferred← citeshttps://doi.org/10.1073/pnas.1113246109openalex-snapshot
Gut inflammation can boost horizontal gene transfer between pathogenic and commensal Enterobacteriaceae
inferred← citeshttps://doi.org/10.1073/pnas.1207359109openalex-snapshot
Genomic diversity of 2010 Haitian cholera outbreak strains
inferred← citeshttps://doi.org/10.1073/pnas.1209119109openalex-snapshot
Acquisition of 1,000 eubacterial genes physiologically transformed a methanogen at the origin of Haloarchaea
inferred← citeshttps://doi.org/10.1073/pnas.1413272111openalex-snapshot
Transfer of noncoding DNA drives regulatory rewiring in bacteria
inferred← citeshttps://doi.org/10.1073/pnas.1418789111openalex-snapshot
Horizontal transfer beyond genes
inferred← citeshttps://doi.org/10.1073/pnas.1517242113openalex-snapshot
Horizontally acquired genes in early-diverging pathogenic fungi enable the use of host nucleosides and nucleotides
inferred← citeshttps://doi.org/10.1073/pnas.1603257113openalex-snapshot
Regulation of genetic flux between bacteria by restriction–modification systems
inferred← citeshttps://doi.org/10.1073/pnas.1811932115openalex-snapshot
Evolution of host support for two ancient bacterial symbionts with differentially degraded genomes in a leafhopper host
inferred← citeshttps://doi.org/10.1073/pnas.1814684116openalex-snapshot
Grammar of protein domain architectures
inferred← citeshttps://doi.org/10.1073/pnas.2304934120openalex-snapshot
Contingency, repeatability, and predictability in the evolution of a prokaryotic pangenome
inferred← citeshttps://doi.org/10.1073/pnas.2502752122openalex-snapshot
Evolution of gene order in prokaryotes is driven primarily by gene gain and loss
inferred← citeshttps://doi.org/10.1073/pnas.2523357123openalex-snapshot
Imported, not invented, genes prevail among Escherichia coli ORFans
inferred← citeshttps://doi.org/10.1074/jbc.m115.647461openalex-snapshot
Structure and Evolution of the Archaeal Lipid Synthesis Enzyme sn-Glycerol-1-phosphate Dehydrogenase
inferred← citeshttps://doi.org/10.1074/jbc.m117.790865openalex-snapshot
Reconstructed ancestral enzymes reveal that negative selection drove the evolution of substrate specificity in ADP-dependent kinases
inferred← citeshttps://doi.org/10.1080/1040841x.2021.1991272openalex-snapshot
Streptomyces : connecting red-nano and grey biotechnology fields
inferred← citeshttps://doi.org/10.1080/21505594.2023.2214416openalex-snapshot
Complete genome sequence of the emerging pathogen Cysteiniphilum spp. and comparative genomic analysis with genus Francisella : Insights into its genetic diversity and potential virulence traits
inferred← citeshttps://doi.org/10.1089/cmb.2015.0228openalex-snapshot
On Tree-Based Phylogenetic Networks
inferred← citeshttps://doi.org/10.1089/cmb.2018.0129openalex-snapshot
A New Quartet-Based Statistical Method for Comparing Sets of Gene Trees Is Developed Using a Generalized Hoeffding Inequality
inferred← citeshttps://doi.org/10.1093/bib/bbr030openalex-snapshot
Computational methods for Gene Orthology inference
inferred← citeshttps://doi.org/10.1093/bib/bbr045openalex-snapshot
Models, algorithms and programs for phylogeny reconciliation
inferred← citeshttps://doi.org/10.1093/bioinformatics/btaa792openalex-snapshot
panRGP: a pangenome-based method to predict genomic islands and explore their diversity
inferred← citeshttps://doi.org/10.1093/bioinformatics/btw467openalex-snapshot
A program for verification of phylogenetic network models
inferred← citeshttps://doi.org/10.1093/bioinformatics/btw686openalex-snapshot
Xenolog classification
inferred← citeshttps://doi.org/10.1093/bioinformatics/bty594openalex-snapshot
S-Cluster++: a fast program for solving the cluster containment problem for phylogenetic networks
inferred← citeshttps://doi.org/10.1093/botlinnean/boad017openalex-snapshot
Intracellular gene transfer and codon usage of cytoplasmic genomes in green plants
inferred← citeshttps://doi.org/10.1093/femsle/fnae068openalex-snapshot
A universal and constant rate of gene content change traces pangenome flux to LUCA
inferred← citeshttps://doi.org/10.1093/femsre/fuab022openalex-snapshot
Microbial-driven genetic variation in holobionts
inferred← citeshttps://doi.org/10.1093/femsre/fuw011openalex-snapshot
Impact of genomics on the understanding of microbial evolution and classification: the importance of Darwin's views on classification
inferred← citeshttps://doi.org/10.1093/femsre/fux042openalex-snapshot
Transmission as a basic process in microbial biology. Lwoff Award Prize Lecture
inferred← citeshttps://doi.org/10.1093/gbe/evaa152openalex-snapshot
Plasmids Related to the Symbiotic Nitrogen Fixation Are Not Only Cooperated Functionally but Also May Have Evolved over a Time Span in Family Rhizobiaceae
inferred← citeshttps://doi.org/10.1093/gbe/evab055openalex-snapshot
Gene Duplications Trace Mitochondria to the Onset of Eukaryote Complexity
inferred← citeshttps://doi.org/10.1093/gbe/evab224openalex-snapshot
Gene Duplications Are At Least 50 Times Less Frequent than Gene Transfers in Prokaryotic Genomes
inferred← citeshttps://doi.org/10.1093/gbe/evac098openalex-snapshot
Pangenome Evolution in Environmentally Transmitted Symbionts of Deep-Sea Mussels Is Governed by Vertical Inheritance
inferred← citeshttps://doi.org/10.1093/gbe/evad096openalex-snapshot
Phylogenomic Testing of Root Hypotheses
inferred← citeshttps://doi.org/10.1093/gbe/evad134openalex-snapshot
Parameter Estimation and Species Tree Rooting Using ALE and GeneRax
inferred← citeshttps://doi.org/10.1093/gbe/evae118openalex-snapshot
Gene Protein Sequence Evolution Can Predict the Rapid Divergence of Ovariole Numbers in the Drosophila melanogaster Subgroup
inferred← citeshttps://doi.org/10.1093/gbe/evae160openalex-snapshot
Lessons from Extremophiles: Functional Adaptations and Genomic Innovations across the Eukaryotic Tree of Life
inferred← citeshttps://doi.org/10.1093/gbe/evae180openalex-snapshot
Investigating Additive and Replacing Horizontal Gene Transfers Using Phylogenies and Whole Genomes
inferred← citeshttps://doi.org/10.1093/gbe/evag106openalex-snapshot
Genus-wide Homologous Recombination of Tail Fibers Maintains Tailocin Diversity in Pectobacterium
inferred← citeshttps://doi.org/10.1093/gbe/evs018openalex-snapshot
An Evolutionary Network of Genes Present in the Eukaryote Common Ancestor Polls Genomes on Eukaryotic and Mitochondrial Origin
inferred← citeshttps://doi.org/10.1093/gbe/evs098openalex-snapshot
Quantifying Homologous Replacement of Loci between Haloarchaeal Species
inferred← citeshttps://doi.org/10.1093/gbe/evt174openalex-snapshot
Natural Selection for Operons Depends on Genome Size
inferred← citeshttps://doi.org/10.1093/gbe/evt179openalex-snapshot
Horizontal Gene Transfer is a Significant Driver of Gene Innovation in Dinoflagellates
inferred← citeshttps://doi.org/10.1093/gbe/evu090openalex-snapshot
Selection on Horizontally Transferred and Duplicated Genes in Sinorhizobium (Ensifer), the Root-Nodule Symbionts of Medicago
inferred← citeshttps://doi.org/10.1093/gbe/evu123openalex-snapshot
The Extent of Genome Flux and Its Role in the Differentiation of Bacterial Lineages
inferred← citeshttps://doi.org/10.1093/gbe/evu127openalex-snapshot
Pangenome Evidence for Extensive Interdomain Horizontal Transfer Affecting Lineage Core and Shell Genes in Uncultured Planktonic Thaumarchaeota and Euryarchaeota
inferred← citeshttps://doi.org/10.1093/gbe/evu185openalex-snapshot
Gene Transfers Shaped the Evolution of De Novo NAD + Biosynthesis in Eukaryotes
inferred← citeshttps://doi.org/10.1093/gbe/evu259openalex-snapshot
Modularized Evolution in Archaeal Methanogens Phylogenetic Forest
inferred← citeshttps://doi.org/10.1093/gbe/evv009openalex-snapshot
Genome Rearrangements Can Make and Break Small RNA Genes
inferred← citeshttps://doi.org/10.1093/gbe/evv121openalex-snapshot
Quest for Orthologs Entails Quest for Tree of Life: In Search of the Gene Stream
inferred← citeshttps://doi.org/10.1093/gbe/evw126openalex-snapshot
A Theoretical Lower Bound for Selection on the Expression Levels of Proteins
inferred← citeshttps://doi.org/10.1093/gbe/evw193openalex-snapshot
Inevitability of Genetic Parasites
inferred← citeshttps://doi.org/10.1093/gbe/evx189openalex-snapshot
Extreme Deviations from Expected Evolutionary Rates in Archaeal Protein Families
inferred← citeshttps://doi.org/10.1093/genetics/iyag262openalex-snapshot
The dynamics of gene copy-number mutations: transient changes with long-lasting consequences
inferred← citeshttps://doi.org/10.1093/ismeco/ycaf225openalex-snapshot
PanBGC: a pangenome-inspired framework for comparative analysis of biosynthetic gene clusters
inferred← citeshttps://doi.org/10.1093/ismeco/ycag190openalex-snapshot
Fit for purpose: evaluation and evolution of agricultural bioinoculants across production landscapes
inferred← citeshttps://doi.org/10.1093/ismejo/wrae011openalex-snapshot
The Constructive Black Queen hypothesis: new functions can evolve under conditions favouring gene loss
inferred← citeshttps://doi.org/10.1093/molbev/msaa007openalex-snapshot
Evolution of a New Function by Fusion between Phage DNA and a Bacterial Gene
inferred← citeshttps://doi.org/10.1093/molbev/msaa224openalex-snapshot
CoreCruncher: Fast and Robust Construction of Core Genomes in Large Prokaryotic Data Sets
inferred← citeshttps://doi.org/10.1093/molbev/msab043openalex-snapshot
Systematic Detection of Large-Scale Multigene Horizontal Transfer in Prokaryotes
inferred← citeshttps://doi.org/10.1093/molbev/msad221openalex-snapshot
Horizontally Transferred Salivary Protein Promotes Insect Feeding by Suppressing Ferredoxin-Mediated Plant Defenses
inferred← citeshttps://doi.org/10.1093/molbev/msaf242openalex-snapshot
SegMantX: A Novel Tool for Detecting DNA Duplications Uncovers Prevalent Duplications in Plasmids
inferred← citeshttps://doi.org/10.1093/molbev/msr081openalex-snapshot
Genome Reduction by Deletion of Paralogs in the Marine Cyanobacterium Prochlorococcus
inferred← citeshttps://doi.org/10.1093/molbev/mss163openalex-snapshot
Testing the Infinitely Many Genes Model for the Evolution of the Bacterial Core Genome and Pangenome
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