Genetic VariationPhylogenyGenetics, PopulationSequence Analysis, DNAGenotypePolymorphism, GeneticGenome, ViralEvolution, MolecularHIV-1Foot-and-Mouth Disease VirusMolecular Sequence DataRNA VirusesVirusesSelection, GeneticRNA, ViralDrug Resistance, ViralViral TropismMutation RateHigh-Throughput Nucleotide SequencingHIV InfectionsGenes, envenv Gene Products, Human Immunodeficiency VirusSerial PassageMutationDNA, ViralVirus ReplicationBiodiversityBase SequenceBiological EvolutionAnti-HIV AgentsHIV Envelope Protein gp120Likelihood FunctionsHost-Pathogen InteractionsAmino Acid SequenceViral LoadModels, GeneticPolymerase Chain ReactionAntiviral AgentsCluster AnalysisHepacivirusHIVRecombination, GeneticHIV Reverse TranscriptasePoliovirusPhenotypeSequence AlignmentNevirapineReceptors, CXCR4Receptors, CCR5Amino Acid SubstitutionCultural DiversityVirulenceMutagenesisCell LineMutation, MissenseEcosystemDNA PrimersHepatitis CGeographyPoint MutationAlgorithmsViral ProteinsSpecies SpecificityRNA, Ribosomal, 16SAntibody DiversityBacteriaViral Envelope ProteinsMicrosatellite RepeatsSoftwarePhylogeographyDNA, BacterialDNA, RibosomalSoil MicrobiologyHaplotypesPopulation DynamicsBiotaMetagenomeDNA, MitochondrialRandom Amplified Polymorphic DNA TechniqueConservation of Natural ResourcesAllelesPopulation DensityPolymorphism, Restriction Fragment LengthDNA FingerprintingSeawaterDNA, PlantGene FlowEndangered SpeciesAmplified Fragment Length Polymorphism AnalysisGeologic SedimentsFresh WaterFossilsTropical Climate