Drosophila willistoni

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Alias:

Top Publications

  1. Vicogne J, Pin J, Lardans V, Capron M, Noël C, Dissous C. An unusual receptor tyrosine kinase of Schistosoma mansoni contains a Venus Flytrap module. Mol Biochem Parasitol. 2003;126:51-62 pubmed
    ..The preferential localization of SmRTK-1 in sporocyst germinal cells and ovocytes could be in favor of its function in schistosome growth and differentiation...
  2. Satija R, Pachter L, Hein J. Combining statistical alignment and phylogenetic footprinting to detect regulatory elements. Bioinformatics. 2008;24:1236-42 pubmed publisher
    ..SAPF is freely available to download online at http://www.stats.ox.ac.uk/~satija/SAPF/..
  3. Vibranovski M, Koerich L, Carvalho A. Two new Y-linked genes in Drosophila melanogaster. Genetics. 2008;179:2325-7 pubmed publisher
    ..Here we describe two new genes (ARY and WDY) on the Drosophila melanogaster Y, bringing its number of known single-copy genes to 12. WDY may correspond to the fertility factor kl-1...
  4. Williams T, Selegue J, Werner T, Gompel N, Kopp A, Carroll S. The regulation and evolution of a genetic switch controlling sexually dimorphic traits in Drosophila. Cell. 2008;134:610-23 pubmed publisher
    ..These findings reveal how new dimorphic characters can emerge from genetic networks regulating pre-existing dimorphic traits. ..
  5. Russo C, Takezaki N, Nei M. Molecular phylogeny and divergence times of drosophilid species. Mol Biol Evol. 1995;12:391-404 pubmed publisher
    ..melanogaster groups apparently diverged about 25 Mya. Many of the D. repleta group species studied here have two functional Adh genes (Adh-1 and Adh-2), and these duplicated genes can be explained by two duplication events...
  6. Robe L, Cordeiro J, Loreto E, Valente V. Taxonomic boundaries, phylogenetic relationships and biogeography of the Drosophila willistoni subgroup (Diptera: Drosophilidae). Genetica. 2010;138:601-17 pubmed publisher
    The Drosophila willistoni subgroup represents a complex with varying taxonomic levels. It encompasses D. willistoni and its five sibling species: D. equinoxialis, D. insularis, D. paulistorum, D. pavlovskiana and D. tropicalis...
  7. Griffith E, Powell J. Adh nucleotide variation in Drosophila willistoni: high replacement polymorphism in an electrophoretically monomorphic protein. J Mol Evol. 1997;45:232-7 pubmed
    b>Drosophila willistoni was the subject of intensive allozyme studies and the locus coding for alcohol dehydrogenase (Adh) was found to be virtually monomorphic...
  8. Anderson C, Carew E, Powell J. Evolution of the Adh locus in the Drosophila willistoni group: the loss of an intron, and shift in codon usage. Mol Biol Evol. 1993;10:605-18 pubmed publisher
    We report here the DNA sequence of the alcohol dehydrogenase gene (Adh) cloned from Drosophila willistoni. The three major findings are as follows: (1) Relative to all other Adh genes known from Drosophila, D...
  9. Kalay G, Lachowiec J, Rosas U, Dome M, Wittkopp P. Redundant and Cryptic Enhancer Activities of the Drosophila yellow Gene. Genetics. 2019;: pubmed publisher
    ..and intronic sequences of Drosophila melanogaster, Drosophila pseudoobscura, and Drosophila willistoni. We find that cis-regulatory sequences driving expression in a particular tissue are not as ..

More Information

Publications96

  1. Gonçalves J, Valiati V, Delprat A, Valente V, Ruiz A. Structural and sequence diversity of the transposon Galileo in the Drosophila willistoni genome. BMC Genomics. 2014;15:792 pubmed publisher
    ..Galileo is strikingly abundant in Drosophila willistoni, a neotropical species that is highly polymorphic for chromosomal inversions, suggesting a role for this ..
  2. Civetta A, Gaudreau C. Hybrid male sterility between Drosophila willistoni species is caused by male failure to transfer sperm during copulation. BMC Evol Biol. 2015;15:75 pubmed publisher
    ..b>Drosophila willistoni quechua and Drosophila willistoni willistoni are two subspecies that experience reproductive isolation...
  3. Lu J, Chen Z. Isolation, characterization and anti-cancer activity of SK84, a novel glycine-rich antimicrobial peptide from Drosophila virilis. Peptides. 2010;31:44-50 pubmed publisher
    ..Our results show that SK84 represents a novel glycine-rich peptide family in Drosophila species with antimicrobial and anti-cancer cell activities. ..
  4. Rohde C, Pinto H, Valiati V, Schrank A, Valente V. Localization of the Cu/Zn superoxide dismutase gene in the Drosophila willistoni species group by in situ hybridization. Cytobios. 1994;80:193-8 pubmed
    ..the Cu/Zn superoxide dismutase enzyme, the gene coding for this enzyme was mapped in five species of the Drosophila willistoni subgroup and in D. nebulosa by in situ hybridization using D. melanogaster as a control...
  5. Costas J, Pereira P, Vieira C, Pinho S, Vieira J, Casares F. Dynamics and function of intron sequences of the wingless gene during the evolution of the Drosophila genus. Evol Dev. 2004;6:325-35 pubmed
    ..b>Drosophila willistoni showed a rate of evolution, in both introns, faster than expected from its phylogenetic position...
  6. Kwiatowski J, Latorre A, Skarecky D, Ayala F. Characterization of a Cu/Zn superoxide dismutase-encoding gene region in Drosophila willistoni. Gene. 1994;147:295-6 pubmed
    A Cu/Zn superoxide dismutase-encoding gene (Sod) from Drosophila willistoni was cloned and sequenced. The gene shows a typical structure for a fruit-fly Sod gene, with a coding region of 462 bp in two exons separated by a 417-bp intron...
  7. Parker D, Gardiner A, Neville M, Ritchie M, Goodwin S. The evolution of novelty in conserved genes; evidence of positive selection in the Drosophila fruitless gene is localised to alternatively spliced exons. Heredity (Edinb). 2014;112:300-6 pubmed publisher
    ..Alternative splicing may thus provide a route to gene diversification in key regulatory loci. ..
  8. Garcia C, Delprat A, Ruiz A, Valente V. Reassignment of Drosophila willistoni Genome Scaffolds to Chromosome II Arms. G3 (Bethesda). 2015;5:2559-66 pubmed publisher
    b>Drosophila willistoni is a geographically widespread Neotropical species. The genome of strain Gd-H4-1 from Guadeloupe Island (Caribbean) was sequenced in 2007 as part of the 12 Drosophila Genomes Project...
  9. Hodar C, Zúñiga A, Pulgar R, Travisany D, Chacón C, Pino M, et al. Comparative gene expression analysis of Dtg, a novel target gene of Dpp signaling pathway in the early Drosophila melanogaster embryo. Gene. 2014;535:210-7 pubmed publisher
    ..These results suggest that Dtg was recruited as a new component of the network that controls dorsal ectoderm patterning in the lineage leading to higher Cyclorrhaphan flies, such as D. melanogaster and M. domestica. ..
  10. Gleason J, Powell J. Interspecific and intraspecific comparisons of the period locus in the Drosophila willistoni sibling species. Mol Biol Evol. 1997;14:741-53 pubmed
    ..We studied most of the coding region of per in Drosophila willistoni and confirmed previously observed patterns of conservation and divergence among distantly related species...
  11. Niepielko M, Yakoby N. Evolutionary changes in TGFα distribution underlie morphological diversity in eggshells from Drosophila species. Development. 2014;141:4710-5 pubmed publisher
    ..willistoni. Furthermore, we demonstrate that GRK from D. willistoni rescues a grk-null D. melanogaster fly and, remarkably, it is also sufficient to generate a DR-like structure on its eggshell. ..
  12. Powell J, Gleason J. Codon usage and the origin of P elements. Mol Biol Evol. 1996;13:278-9 pubmed
  13. Casso D, Liu S, Biehs B, Kornberg T. Expression and characterization of Drosophila signal peptide peptidase-like (sppL), a gene that encodes an intramembrane protease. PLoS ONE. 2012;7:e33827 pubmed publisher
    ..This was unexpected given that genetic knockdown phenotypes in other organisms suggested significant roles for Spp-related proteases. ..
  14. Rohde C, Abdelhay E, Pinto Júnior H, Schrank A, Valente V. Analysis and in situ mapping of the Adh locus in species of the willistoni group of Drosophila. Cytobios. 1995;81:37-47 pubmed
  15. Johnson L, Zhao Y, Golden K, Barolo S. Reverse-engineering a transcriptional enhancer: a case study in Drosophila. Tissue Eng Part A. 2008;14:1549-59 pubmed publisher
    ..Implications for developmental genetics, mathematical modeling, and therapeutic applications are discussed. ..
  16. Kerekes E, Kókai E, Páldy F, Dombradi V. Functional analysis of the glycogen binding subunit CG9238/Gbs-70E of protein phosphatase 1 in Drosophila melanogaster. Insect Biochem Mol Biol. 2014;49:70-9 pubmed publisher
    ..Our results prove that Gbs-70E functions as the glycogen binding subunit of protein phosphatase 1 that regulates glycogen content and plays a role in the development of eggs in D. melanogaster. ..
  17. Ranjini M, Ramachandra N. Rapid evolution of a few members of nasuta-albomicans complex of Drosophila: study on two candidate genes, Sod1 and Rpd3. J Mol Evol. 2013;76:311-23 pubmed publisher
    ..Further these Cytoraces have become a model system to understand the process of anagenesis. ..
  18. Zheng X, Zhang Y, Zhu D, Geng Z. The period gene: high conservation of the region coding for Thr-Gly dipeptides in the Drosophila nasuta species subgroup. J Mol Evol. 1999;49:406-10 pubmed
    ..The data did not implicate the Thr-Gly region playing a role in behavioral isolation in this subgroup of Drosophila. ..
  19. Baggio F, Bozzato A, Benna C, Leonardi E, Romoli O, Cognolato M, et al. 2mit, an intronic gene of Drosophila melanogaster timeless2, is involved in behavioral plasticity. PLoS ONE. 2013;8:e76351 pubmed publisher
  20. Gomes S, Civetta A. Misregulation of spermatogenesis genes in Drosophila hybrids is lineage-specific and driven by the combined effects of sterility and fast male regulatory divergence. J Evol Biol. 2014;27:1775-83 pubmed publisher
    ..e. unidirectional sterility). We find significant differences among genes in misexpression with effects that are lineage-specific and caused by sterility or fast male regulatory divergence. ..
  21. de Setta N, Loreto E, Carareto C. Is the evolutionary history of the O-type P element in the saltans and willistoni groups of Drosophila similar to that of the canonical P element?. J Mol Evol. 2007;65:715-24 pubmed
    ..e., events of horizontal transfer between species of the saltans and willistoni groups. ..
  22. Maier D, Sperlich D, Powell J. Conservation and change of the developmentally crucial fushi tarazu gene in Drosophila. J Mol Evol. 1993;36:315-26 pubmed
    ..This proposition could be tested in the present case because we could predict a priori from the developmental studies which DNA regions should be most conserved. ..
  23. Rodriguez Trelles F, Tarrio R, Ayala F. Xanthine dehydrogenase (XDH): episodic evolution of a "neutral" protein. J Mol Evol. 2001;53:485-95 pubmed
    ..Spastic evolution of Xdh appears to be related to the particularities of the genomes in which the locus is embedded. ..
  24. Dorit R, Ayala F. ADH evolution and the phylogenetic footprint. J Mol Evol. 1995;40:658-62 pubmed
  25. Ayala F, Powell J, Dobzhansky T. Polymorphisms in continental and island populations of Drosophila willistoni. Proc Natl Acad Sci U S A. 1971;68:2480-3 pubmed
    ..polymorphisms in four continental (South American) and six oceanic island (West Indies) populations of Drosophila willistoni has been made. The pattern of genic polymorphism is closely similar in all populations...
  26. Mardiros X, Park R, Clifton B, Grewal G, Khizar A, Markow T, et al. Postmating Reproductive isolation between strains of Drosophila willistoni. Fly (Austin). 2016;10:162-71 pubmed publisher
    ..D. w. willistoni has the largest geographic distribution among members of the Drosophila willistoni subgroup, spanning from Argentina to the southern United States, including the Caribbean islands...
  27. Koerich L, Wang X, Clark A, Carvalho A. Low conservation of gene content in the Drosophila Y chromosome. Nature. 2008;456:949-51 pubmed publisher
    ..3-52.5), indicating a clear tendency of the Y chromosomes to increase in gene content. In contrast with the mammalian Y chromosome, gene gains have a prominent role in the evolution of the Drosophila Y chromosome...
  28. Schaeffer S, Bhutkar A, McAllister B, Matsuda M, Matzkin L, O Grady P, et al. Polytene chromosomal maps of 11 Drosophila species: the order of genomic scaffolds inferred from genetic and physical maps. Genetics. 2008;179:1601-55 pubmed publisher
    ..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...
  29. Powell J, Dion K, Papaceit M, Aguade M, Vicario S, Garrick R. Nonrecombining genes in a recombination environment: the Drosophila "dot" chromosome. Mol Biol Evol. 2011;28:825-33 pubmed publisher
    ..Here, we present polymorphism data for genes on the F element in two Drosophila willistoni and one D. insularis populations, genes previously studied in D. melanogaster. The D...
  30. Chiari Y, Dion K, Colborn J, Parmakelis A, Powell J. On the possible role of tRNA base modifications in the evolution of codon usage: queuosine and Drosophila. J Mol Evol. 2010;70:339-45 pubmed publisher
    ..Among species of Drosophila, codon usage is constant with the exception of the Drosophila willistoni lineage which has shifted primary usage from C-ending codons to U/T ending codons only for these four ..
  31. Min G, Powell J. Long-distance genome walking using the long and accurate polymerase chain reaction. Biotechniques. 1998;24:398-400 pubmed
  32. Lerat E, Bi mont C, Capy P. Codon usage and the origin of P elements. Mol Biol Evol. 2000;17:467-8 pubmed publisher
  33. Powell J, Sezzi E, Moriyama E, Gleason J, Caccone A. Analysis of a shift in codon usage in Drosophila. J Mol Evol. 2003;57 Suppl 1:S214-25 pubmed publisher
    In order to gain further insight into a shift in codon usage first observed in Drosophila willistoni we have analyzed seven genes in six species in the lineage leading to D. willistoni...
  34. Coutinho Silva R, Montes M, Oliveira G, de Carvalho Neto F, Rohde C, Garcia A. Effects of seasonality on drosophilids (Insecta, Diptera) in the northern part of the Atlantic Forest, Brazil. Bull Entomol Res. 2017;107:634-644 pubmed publisher
    ..As for other parts of the Atlantic Forest, the most representative Neotropical species (Drosophila willistoni, D. sturtevanti, D. paulistorum and D. prosaltans) were significantly more abundant in the rainy season...
  35. Carlini D, Chen Y, Stephan W. The relationship between third-codon position nucleotide content, codon bias, mRNA secondary structure and gene expression in the drosophilid alcohol dehydrogenase genes Adh and Adhr. Genetics. 2001;159:623-33 pubmed
    ..Whereas the degree of codon bias is positively correlated with level of gene expression, strong individual secondary structural elements may be selected for to retard mRNA translation and to decrease gene expression...
  36. Dubruille R, Orsi G, Delabaere L, Cortier E, Couble P, Marais G, et al. Specialization of a Drosophila capping protein essential for the protection of sperm telomeres. Curr Biol. 2010;20:2090-9 pubmed publisher
    ..We propose that K81 specialized in the maintenance of telomere protection in the highly peculiar chromatin environment of differentiating male gametes...
  37. Silva J, Kidwell M. Horizontal transfer and selection in the evolution of P elements. Mol Biol Evol. 2000;17:1542-57 pubmed publisher
    ..These results suggest that horizontal transfer among eukaryotes might be more common than anticipated...
  38. Kandul N, Noor M. Large introns in relation to alternative splicing and gene evolution: a case study of Drosophila bruno-3. BMC Genet. 2009;10:67 pubmed publisher
    ..Large introns could be a reservoir of genetic diversity, because they have a greater number of mutable sites than short introns. Taken together, gene structure can constrain and/or promote gene evolution...
  39. Kwiatowski J, Krawczyk M, Jaworski M, Skarecky D, Ayala F. Erratic evolution of glycerol-3-phosphate dehydrogenase in Drosophila, Chymomyza, and Ceratitis. J Mol Evol. 1997;44:9-22 pubmed
    ..At the nucleotide level, however, Gpdh evolves in a fairly clockwise fashion...
  40. Tatarenkov A, Kwiatowski J, Skarecky D, Barrio E, Ayala F. On the evolution of Dopa decarboxylase (Ddc) and Drosophila systematics. J Mol Evol. 1999;48:445-62 pubmed
    ..Molecular evolution is erratic. The rates of nucleotide substitution in 3rd codon position relative to positions 1 + 2 vary from one species lineage to another and from gene to gene...
  41. Tracy C, Río J, Motiwale M, Christensen S, BETRAN E. Convergently recruited nuclear transport retrogenes are male biased in expression and evolving under positive selection in Drosophila. Genetics. 2010;184:1067-76 pubmed publisher
    ..Disablement of the ran-like gene in D. yakuba indicates turnover of these duplicates. We discuss the possibility that Dntf-2r and ran-like might be involved in genomic conflicts during spermatogenesis. ..
  42. Ahier A, Rondard P, Gouignard N, Khayath N, Huang S, Trolet J, et al. A new family of receptor tyrosine kinases with a venus flytrap binding domain in insects and other invertebrates activated by aminoacids. PLoS ONE. 2009;4:e5651 pubmed publisher
    ..The identification of RTKs specific for parasites and insect vectors raises new perspectives for the control of human parasitic and infectious diseases...
  43. Lang M, Murat S, Clark A, Gouppil G, Blais C, Matzkin L, et al. Mutations in the neverland gene turned Drosophila pachea into an obligate specialist species. Science. 2012;337:1658-61 pubmed publisher
    ..This study illustrates how relatively few genetic changes in a single gene may restrict the ecological niche of a species...
  44. Kim J. Macro-evolution of the hairy enhancer in Drosophila species. J Exp Zool. 2001;291:175-85 pubmed publisher
    ..Here I develop a test for stabilizing selection on length variation and show that the hairy enhancer does not show statistically significant evidence for stabilizing selection. J. Exp. Zool. (Mol. Dev. Evol.) 291:175-185, 2001...
  45. Baumann A, Fujiwara Y, Wilson T. Evolutionary divergence of the paralogs Methoprene tolerant (Met) and germ cell expressed (gce) within the genus Drosophila. J Insect Physiol. 2010;56:1445-55 pubmed publisher
    ..Our results suggest that Drosophila Met and gce experienced divergent evolutionary pressures following the duplication of an ancestral gce-like gene found in less derived holometabolous insects...
  46. Rodr guez Trelles F, Tarr o R, Ayala F. Erratic overdispersion of three molecular clocks: GPDH, SOD, and XDH. Proc Natl Acad Sci U S A. 2001;98:11405-10 pubmed publisher
    ..The observations are inconsistent with the predictions made by various subsidiary hypotheses proposed to account for the overdispersion of the molecular clock...
  47. Andersen S. Studies on resilin-like gene products in insects. Insect Biochem Mol Biol. 2010;40:541-51 pubmed publisher
    ..Gene products which are predicted to possess long-range elasticity, but do not contain a chitin-binding region, should not be classified as pro-resilin-like proteins until it has been established that they are cuticular proteins...
  48. Cao J, Wu X, Jin Y. Lower GC-content in editing exons: implications for regulation by molecular characteristics maintained by selection. Gene. 2008;421:14-9 pubmed publisher
    ..Thus, relations between molecular characteristics of DNA, RNA editing and purifying selection might be present...
  49. Zolfaghari Emameh R, Barker H, Tolvanen M, Ortutay C, Parkkila S. Bioinformatic analysis of beta carbonic anhydrase sequences from protozoans and metazoans. Parasit Vectors. 2014;7:38 pubmed publisher
    ..Our results will not only change the current information in proteomics and genomics databases, but will also suggest novel targets for drugs against parasites...
  50. Tarrio R, Rodr guez Trelles F, Ayala F. A new Drosophila spliceosomal intron position is common in plants. Proc Natl Acad Sci U S A. 2003;100:6580-3 pubmed publisher
    ..If the observed phylogenetic pattern had resulted from recurrent loss, all observational support previously gathered for the introns-late theory of intron origins based on the phylogenetic distribution of introns would be invalidated...
  51. Casola C, Lawing A, Betr n E, Feschotte C. PIF-like transposons are common in drosophila and have been repeatedly domesticated to generate new host genes. Mol Biol Evol. 2007;24:1872-88 pubmed publisher
    ..We conclude that PIF transposons are common in the Drosophila lineage and have been a recurrent source of new genes during Drosophila evolution...
  52. Mu oz Descalzo S, Belacortu Y, Paricio N. Identification and analysis of cabut orthologs in invertebrates and vertebrates. Dev Genes Evol. 2007;217:289-98 pubmed publisher
    ..Because we were not able to identify cbt orthologous genes neither in yeast nor in plants, our results suggest that this gene has been probably conserved throughout metazoans and that it may play a fundamental role in animal biology...
  53. J ger H, Herzig B, Herzig A, Sticht H, Lehner C, Heidmann S. Structure predictions and interaction studies indicate homology of separase N-terminal regulatory domains and Drosophila THR. Cell Cycle. 2004;3:182-8 pubmed
    ..The compatibility of these folds with a wide range of primary sequences has likely allowed the rapid divergence of THR/N-terminal separase sequences and securins, which contact this region...
  54. Peixoto A, Campesan S, Costa R, Kyriacou C. Molecular evolution of a repetitive region within the per gene of Drosophila. Mol Biol Evol. 1993;10:127-39 pubmed publisher
    ..Furthermore, analysis of the data suggests that changes in the length of this variable region might be associated with amino acid replacements in the more conserved flanking sequences...
  55. Tarr o R, Rodr guez Trelles F, Ayala F. Tree rooting with outgroups when they differ in their nucleotide composition from the ingroup: the Drosophila saltans and willistoni groups, a case study. Mol Phylogenet Evol. 2000;16:344-9 pubmed publisher
  56. Takezaki N, Rzhetsky A, Nei M. Phylogenetic test of the molecular clock and linearized trees. Mol Biol Evol. 1995;12:823-33 pubmed publisher
    ..A linearized tree will then be constructed for a given topology for the remaining sequences under the assumption of rate constancy. We have used these methods to analyze hominoid mitochondrial DNA and drosophilid Adh gene sequences...
  57. Crocker J, Potter N, Erives A. Dynamic evolution of precise regulatory encodings creates the clustered site signature of enhancers. Nat Commun. 2010;1:99 pubmed publisher
  58. Atrian S, S nchez Pulido L, Gonz lez Duarte R, Valencia A. Shaping of Drosophila alcohol dehydrogenase through evolution: relationship with enzyme functionality. J Mol Evol. 1998;47:211-21 pubmed
    ..Our results define three regions whose shaping has been crucial for ADH differentiation and would be compatible with a contribution of ADH to Drosophila speciation...
  59. McDonnell C, King D, Comeron J, Li H, Sun W, Berenbaum M, et al. Evolutionary toxicogenomics: diversification of the Cyp12d1 and Cyp12d3 genes in Drosophila species. J Mol Evol. 2012;74:281-96 pubmed publisher
  60. Carvalho A, Clark A. Efficient identification of Y chromosome sequences in the human and Drosophila genomes. Genome Res. 2013;23:1894-907 pubmed publisher
    ..Hence, this method works in large and complex genomes and can be applied to any species with sex chromosomes...
  61. Tarr o R, Rodr guez Trelles F, Ayala F. New Drosophila introns originate by duplication. Proc Natl Acad Sci U S A. 1998;95:1658-62 pubmed
  62. Harrop T, Sztal T, Lumb C, Good R, Daborn P, Batterham P, et al. Evolutionary changes in gene expression, coding sequence and copy-number at the Cyp6g1 locus contribute to resistance to multiple insecticides in Drosophila. PLoS ONE. 2014;9:e84879 pubmed publisher
    ..melanogaster and D. simulans but not in Drosophila willistoni or Drosophila virilis. In D...
  63. Chakir M, Peridy O, Capy P, Pla E, David J. Adaptation to alcoholic fermentation in Drosophila: a parallel selection imposed by environmental ethanol and acetic acid. Proc Natl Acad Sci U S A. 1993;90:3621-5 pubmed
    ..Future investigations on the adaptation of Drosophila to fermenting resources should consider selective effects of both ethanol and acetic acid...
  64. Quezada Díaz J, Muliyil T, Río J, BETRAN E. Drcd-1 related: a positively selected spermatogenesis retrogene in Drosophila. Genetica. 2010;138:925-37 pubmed publisher
    ..Analysis of this strain reveals the difficulties that can be encountered in studying the functions of genes with overlapping transcripts. Avenues for studying of the function of this gene are proposed. ..
  65. Tarr o R, Rodr guez Trelles F, Ayala F. Shared nucleotide composition biases among species and their impact on phylogenetic reconstructions of the Drosophilidae. Mol Biol Evol. 2001;18:1464-73 pubmed publisher
    ..Our analyses confidently place the Chymomyza genus as an outgroup closer than the genus Scaptodrosophila to the Drosophila genus and conclusively support the monophyly of the Sophophora subgenus...
  66. Amador A, Juan E. Nonfixed duplication containing the Adh gene and a truncated form of the Adhr gene in the Drosophila funebris species group: different modes of evolution of Adh relative to Adhr in Drosophila. Mol Biol Evol. 1999;16:1439-56 pubmed publisher
    ..funebris from the virilis-repleta-Hawaiian clade was estimated as 34.3 Myr, and the divergence time of D. funebris and D. immigrans was estimated as 23.5 Myr...
  67. Satija R, Nov k A, Mikl s I, Lyngs R, Hein J. BigFoot: Bayesian alignment and phylogenetic footprinting with MCMC. BMC Evol Biol. 2009;9:217 pubmed publisher
    ..Our approach is robust to alignment error and uncertainty and can be applied to a variety of biological datasets. The source code and documentation are publicly available for download from http://www.stats.ox.ac.uk/~satija/BigFoot/..
  68. Begun D, Whitley P. Molecular population genetics of Xdh and the evolution of base composition in Drosophila. Genetics. 2002;162:1725-35 pubmed
    ..Finally, we found no convincing evidence that levels of silent heterozygosity are associated with rates of protein evolution...
  69. Liberman L, Stathopoulos A. Design flexibility in cis-regulatory control of gene expression: synthetic and comparative evidence. Dev Biol. 2009;327:578-89 pubmed publisher
    ..We propose a model for neurogenic ectoderm specification in which gene regulation occurs at the intersection of temporal and spatial transcription factor inputs...
  70. Bullock S, Zicha D, Ish Horowicz D. The Drosophila hairy RNA localization signal modulates the kinetics of cytoplasmic mRNA transport. EMBO J. 2003;22:2484-94 pubmed publisher
    ..These findings, and those from co-injecting wild-type and mutant RNAs, suggest that the efficiency of molecular motors is modulated by the character of their cargoes...
  71. Rodr guez Trelles F, Tarr o R, Ayala F. Fluctuating mutation bias and the evolution of base composition in Drosophila. J Mol Evol. 2000;50:1-10 pubmed
    ..The shift in mutation bias has affected the extent of the rate variation among sites in Xdh...
  72. Rodr guez Trelles F, Tarr o R, Ayala F. Disparate evolution of paralogous introns in the Xdh gene of Drosophila. J Mol Evol. 2000;50:123-30 pubmed publisher
    ..The observed differences cannot be attributed to selection acting differently at the level of the secondary structure of the pre-mRNA. Rather, they are better accounted for by locally heterogeneous patterns of mutation...
  73. Katoh T, Tamura K, Aotsuka T. Phylogenetic position of the subgenus Lordiphosa of the genus Drosophila (Diptera: Drosophilidae) inferred from alcohol dehydrogenase (Adh) gene sequences. J Mol Evol. 2000;51:122-30 pubmed publisher
  74. Jones C, Begun D. Parallel evolution of chimeric fusion genes. Proc Natl Acad Sci U S A. 2005;102:11373-8 pubmed publisher
    ..Our data indicate that shifting away from ancestral functions may be a critical step early in the evolution of chimeric fusion genes. We suggest that the patterns we observed are both general and predictive...
  75. Rodr guez Trelles F, Tarr o R, Ayala F. Evidence for a high ancestral GC content in Drosophila. Mol Biol Evol. 2000;17:1710-7 pubmed publisher
    ..The analysis of eight nuclear genes unambiguously corroborates that the common ancestor of Sophophora had an elevated GC content...
  76. Tatarenkov A, Zurovcov M, Ayala F. Ddc and amd sequences resolve phylogenetic relationships of Drosophila. Mol Phylogenet Evol. 2001;20:321-5 pubmed publisher
  77. Kwiatowski J, Skarecky D, Bailey K, Ayala F. Phylogeny of Drosophila and related genera inferred from the nucleotide sequence of the Cu,Zn Sod gene. J Mol Evol. 1994;38:443-54 pubmed
    ..The Sod results manifest how, in addition to the information derived from nucleotide sequences, structural features (i.e., the deletion of an intron) can help resolve phylogenetic issues...
  78. Moriyama E, Hartl D. Codon usage bias and base composition of nuclear genes in Drosophila. Genetics. 1993;134:847-58 pubmed
    ..Our analysis verifies these predictions and also identifies additional selective constraints at the translational level in Drosophila...
  79. ten Bosch J, Benavides J, Cline T. The TAGteam DNA motif controls the timing of Drosophila pre-blastoderm transcription. Development. 2006;133:1967-77 pubmed publisher
  80. Paquet E, Rey G, Naef F. Modeling an evolutionary conserved circadian cis-element. PLoS Comput Biol. 2008;4:e38 pubmed publisher
    ..Finally, a deeper phylogenetic analysis reveals that the link between the CLOCK/BMAL1 complex and the circadian cis-element dates back to before insects and vertebrates diverged...
  81. Powell J, Moriyama E. Evolution of codon usage bias in Drosophila. Proc Natl Acad Sci U S A. 1997;94:7784-90 pubmed
    ..Surprisingly, we find that genes with higher codon usage bias display higher levels of intraspecific synonymous polymorphism. This may be due to opposing effects of recombination...
  82. Zhu B, Pennack J, McQuilton P, Forero M, Mizuguchi K, Sutcliffe B, et al. Drosophila neurotrophins reveal a common mechanism for nervous system formation. PLoS Biol. 2008;6:e284 pubmed publisher
    ..This work provides a missing link between aspects of neuronal function in flies and vertebrates, and it opens the opportunity to use Drosophila to investigate further aspects of neurotrophin function and to model related diseases...
  83. Amarneh B, Matthews K, Rawson R. Activation of sterol regulatory element-binding protein by the caspase Drice in Drosophila larvae. J Biol Chem. 2009;284:9674-82 pubmed publisher
    ..Drice-dependent activation of dSREBP explains why flies lacking dS2P are viable, and flies lacking dSREBP itself are not...
  84. Alvi Z, Chu T, Schawaroch V, Klaus A. Protamine-like proteins in 12 sequenced species of Drosophila. Protein Pept Lett. 2013;20:17-35 pubmed
    ..This study represents the first large-scale, single-genus dataset for protamine-like proteins and provides the basis for a fine-grained analysis of their evolution...
  85. Yenerall P, Krupa B, Zhou L. Mechanisms of intron gain and loss in Drosophila. BMC Evol Biol. 2011;11:364 pubmed publisher
    ..Furthermore, our data suggest that intron gain may be enabled by or due to transcription, and we shed further light on the exact mechanism of mRNA-mediated intron loss...
  86. Jung I, Kim T, Kim Ha J. Identification of Drosophila SOD3 and its protective role against phototoxic damage to cells. FEBS Lett. 2011;585:1973-8 pubmed publisher
    ..In addition, the dSod3 protein alleviates ultraviolet-induced cellular damage. These results suggest that dSod3 functions as an extracellular SOD3...
  87. Mota N, Ludwig A, Valente V, Loreto E. Harrow: new Drosophila hAT transposons involved in horizontal transfer. Insect Mol Biol. 2010;19:217-28 pubmed publisher
    ..tripuncatata, D. mojavensis (Subgenus Drosophila) and several species of the willistoni and saltans groups (subgenus Sophophora)...