Genomes and Genes
Carlos A Machado
Affiliation: University of Arizona
- Evaluation of the genomic extent of effects of fixed inversion differences on intraspecific variation and interspecific gene flow in Drosophila pseudoobscura and D. persimilisCarlos A Machado
Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, Arizona 85721, USA
Genetics 175:1289-306. 2007..persimilis and near one breakpoint, consistent with a scenario in which this inversion arose and was fixed in this species by natural selection...
- Multilocus nuclear sequences reveal intra- and interspecific relationships among chromosomally polymorphic species of cactophilic DrosophilaCarlos A Machado
Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ 85721, USA
Mol Ecol 16:3009-24. 2007..arizonae populations was unexpectedly high and suggests that its populations, as well as those of D. mojavensis, may be themselves undergoing incipient speciation and merit further attention...
- Critical review of host specificity and its coevolutionary implications in the fig/fig-wasp mutualismCarlos A Machado
Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, 85721, USA
Proc Natl Acad Sci U S A 102:6558-65. 2005..Last, we use our results to assess previously proposed hypotheses on models of speciation in this mutualism...
- The causes of phylogenetic conflict in a classic Drosophila species groupCarlos A Machado
Department of Genetics, Rutgers University, 604 Allison Road, Nelson Biological Laboratories, Piscataway, NJ 08854 8082, USA
Proc Biol Sci 270:1193-202. 2003....
- Inferring the history of speciation from multilocus DNA sequence data: the case of Drosophila pseudoobscura and close relativesCarlos A Machado
Department of Genetics, Nelson Biological Labs, Rutgers University, 604 Allison Road, Piscataway, NJ 08854 8082, USA
Mol Biol Evol 19:472-88. 2002..pseudoobscura and D. persimilis. We show that there is a good correspondence between the genomic regions associated with reproductive isolation and the regions that show little or no evidence of gene flow...
- Host-specificity and coevolution among pollinating and nonpollinating New World fig waspsWendy A Marussich
Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ 85721 0088, USA
Mol Ecol 16:1925-46. 2007....
- Evolution of sex-dependent gene expression in three recently diverged species of DrosophilaZi Feng Jiang
Department of Ecology, University of Arizona, Tucson, Arizona 85721, USA
Genetics 183:1175-85. 2009....
- Culture-free survey reveals diverse and distinctive fungal communities associated with developing figs (Ficus spp.) in PanamaEllen O Martinson
Department of Ecology and Evolutionary Biology, The University of Arizona, Tucson, AZ 85721, USA
Microb Ecol 64:1073-84. 2012..In turn, changes in fungal communities during fig development and ripening suggest an unexplored role of yeasts in the context of the fig-pollinator wasp mutualism...
- The study of structured populations--new hope for a difficult and divided scienceJody Hey
Department of Genetics, Rutgers The State University of New Jersey, 604 Allison Road, Piscataway, New Jersey 08854, USA
Nat Rev Genet 4:535-43. 2003..Both approaches have limitations, but there is promise in newer probabilistic methods that offer the flexibility and data exploitation of the phylogeographic approach in an explicitly model-based mathematical framework...
- Functional genomics of cactus host shifts in Drosophila mojavensisLuciano M Matzkin
Department of Ecology and Evolutionary Biology, University of Arizona, PO Box 210088, Tucson, AZ 85721 0088, USA
Mol Ecol 15:4635-43. 2006..organpipe (Stenocereus thurberi, alternative host). We have observed differential gene expression associated with cactus host use in genes involved in metabolism and detoxification...
- Sequence variation in the dihydrofolate reductase-thymidylate synthase (DHFR-TS) and trypanothione reductase (TR) genes of Trypanosoma cruziCarlos A Machado
Department of Ecology and Evolutionary Biology, University of California, Irvine, CA 92697 2525, USA
Mol Biochem Parasitol 121:33-47. 2002..cruzi. However, one nearly significant reduction of variation in the TR sequences from one sequence group suggests a recent selective event at, or close to, that locus...
- Metatranscriptome Analysis of Fig Flowers Provides Insights into Potential Mechanisms for Mutualism Stability and Gall InductionEllen O Martinson
Department of Ecology and Evolutionary Biology, The University of Arizona, Tucson, Arizona, United States of America
PLoS ONE 10:e0130745. 2015..This study simultaneously evaluates the gene expression profile of both mutualistic partners in a plant-insect mutualism and provides insight into a possible stability mechanism in the ancient fig-fig wasp association. ..
- Host specificity, phenotype matching and the evolution of reproductive isolation in a coevolved plant-pollinator mutualismAnna G Himler
Center for Insect Science, University of Arizona, Tucson, 85721, USA
Mol Ecol 18:4988-90. 2009..Smith et al.'s study represents an important step to fill the gap in our understanding of how reciprocal selection may lead to speciation in coevolved plant-pollinator mutualisms...
- The distribution of Wolbachia in fig wasps: correlations with host phylogeny, ecology and population structureD DeWayne Shoemaker
Department of Biological Sciences, 3149 Wood Hall, 1903 West Michigan Avenue, Western Michigan University, Kalamazoo, MI 49008 5410, USA
Proc Biol Sci 269:2257-67. 2002..However, the paucity of cospeciation of Wolbachia and their wasp hosts indicates that Wolbachia do not persist within a given host lineage for long time-periods relative to speciation times...
- Evolution of genes and genomes on the Drosophila phylogenyAndrew G Clark
Department of Molecular Biology and Genetics, Cornell University, Ithaca, New York 14853, USA
Nature 450:203-18. 2007..These may prove to underlie differences in the ecology and behaviour of these diverse species...
- Divergence between the Drosophila pseudoobscura and D. persimilis genome sequences in relation to chromosomal inversionsMohamed A F Noor
Biology Department, Duke University, Durham, North Carolina 27708, USA
Genetics 177:1417-28. 2007..This reliance highlights the need for complementary genomic and population genetic approaches for tackling fundamental evolutionary questions such as speciation...
- Polytene chromosomal maps of 11 Drosophila species: the order of genomic scaffolds inferred from genetic and physical mapsStephen W Schaeffer
Department of Biology and Institute of Molecular Evolutionary Genetics, The Pennsylvania State University, University Park, Pennsylvania 16802, USA
Genetics 179:1601-55. 2008..Despite the conservation of genes within homologous chromosome arms across species, the karyotypes of these species have changed through the fusion of chromosomal arms followed by subsequent rearrangement events...
- Inbreeding and population structure in two pairs of cryptic fig wasp speciesDrude Molbo
Institute of Ecology, University of Lausanne, 1015 Lausanne, Switzerland
Mol Ecol 13:1613-23. 2004..obtusifolia, there was no evidence of genetic introgression. Finally, we found that 11% of the sons of allospecifically mated mothers were diploid hybrids suggesting a break down of the sex determination system in hybrids...
- Uncovering evolutionary patterns of gene expression using microarraysJose M Ranz
Department of Genetics, University of Cambridge, Cambridge CB2 3EH, UK
Trends Ecol Evol 21:29-37. 2006....
- Cryptic species of fig-pollinating wasps: implications for the evolution of the fig-wasp mutualism, sex allocation, and precision of adaptationDrude Molbo
Smithsonian Tropical Research Institute, Apartado 2072, Balboa, Republic of Panama
Proc Natl Acad Sci U S A 100:5867-72. 2003....