2023
Origins of lineage‐specific elements via gene duplication, relocation, and regional rearrangement in Neurospora crassa
Wang Z, Wang Y, Kasuga T, Hassler H, Lopez‐Giraldez F, Dong C, Yarden O, Townsend J. Origins of lineage‐specific elements via gene duplication, relocation, and regional rearrangement in Neurospora crassa. Molecular Ecology 2023 PMID: 37843462, DOI: 10.1111/mec.17168.Peer-Reviewed Original ResearchLineage-specific genesGene duplicationNew genesLineage-specific elementsWeighted gene correlation network analysisRecent gene duplicationNon-coding DNACell wall integrityCo-regulatory modulesGene correlation network analysisNon-coding sequencesCorrelation network analysisAntifungal toxinsGene syntenyNeurospora speciesGenus NeurosporaEvolutionary biologistsSuch cladesRegulatory machinerySequence repeatsModel speciesAncestral statusNeurospora crassaTranscriptomic dataDiverse functions
2019
Integrative Activity of Mating Loci, Environmentally Responsive Genes, and Secondary Metabolism Pathways during Sexual Development of Chaetomium globosum
Wang Z, López-Giráldez F, Wang J, Trail F, Townsend JP. Integrative Activity of Mating Loci, Environmentally Responsive Genes, and Secondary Metabolism Pathways during Sexual Development of Chaetomium globosum. MBio 2019, 10: 10.1128/mbio.02119-19. PMID: 31822585, PMCID: PMC6904875, DOI: 10.1128/mbio.02119-19.Peer-Reviewed Original ResearchConceptsGene expressionMating lociFungal diversityResponsive genesSexual developmentSecondary metabolism gene clustersGenome-wide gene expressionMating-type genesRich fungal diversitySecondary metabolism pathwaysModel filamentous fungusSecondary metabolic pathwaysWide gene expressionNumerous secondary metabolitesGene expression responsesHistidine kinaseLife cycleSexual reproductionHomothallic speciesDevelopmental genesEvolutionary biologistsHeterokaryon incompatibilityAsexual reproductionDistinct morphological stagesEvolutionary history
2011
Assessing the Role of Tandem Repeats in Shaping the Genomic Architecture of Great Apes
Farré M, Bosch M, López-Giráldez F, Ponsà M, Ruiz-Herrera A. Assessing the Role of Tandem Repeats in Shaping the Genomic Architecture of Great Apes. PLOS ONE 2011, 6: e27239. PMID: 22076140, PMCID: PMC3208591, DOI: 10.1371/journal.pone.0027239.Peer-Reviewed Original ResearchConceptsEvolutionary breakpoint regionsTandem repeatsEvolutionary regionBreakpoint regionSpecific tandem repeatMore base pairsGreat apesGenome architectureMammalian genomesGenome organizationSynteny blocksChromatin conformationEvolutionary biologistsGenomic architectureAncestral reconstructionGenome instabilityMacaque genomeChromosomal reorganizationTransposable elementsGenomic regionsHuman genomeGenomic areasAlu elementsGenomeBase pairs