Drosophila yakuba

Summary

Alias:

Top Publications

  1. ncbi The mitochondrial DNA molecular of Drosophila yakuba: nucleotide sequence, gene organization, and genetic code
    D O Clary
    J Mol Evol 22:252-71. 1985
  2. ncbi Molecular phylogeny and divergence times of drosophilid species
    C A Russo
    Institute of Molecular Evolutionary Genetics, Pennsylvania State University, University Park 16802, USA
    Mol Biol Evol 12:391-404. 1995
  3. ncbi Functional analysis of eve stripe 2 enhancer evolution in Drosophila: rules governing conservation and change
    M Z Ludwig
    Department of Ecology and Evolution, University of Chicago, Chicago, IL 60637, USA
    Development 125:949-58. 1998
  4. pmc Large number of replacement polymorphisms in rapidly evolving genes of Drosophila. Implications for genome-wide surveys of DNA polymorphism
    K J Schmid
    Zoologisches Institut, Universitat Munchen, 80333 München, Germany
    Genetics 153:1717-29. 1999
  5. pmc Alternative splicing of the Drosophila Dscam pre-mRNA is both temporally and spatially regulated
    A M Celotto
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, Farmington, Connecticut 06030, USA
    Genetics 159:599-608. 2001
  6. ncbi Anterior repression of a Drosophila stripe enhancer requires three position-specific mechanisms
    Luiz Paulo Moura Andrioli
    Department of Biology, New York University, 1009 Main Building, 100 Washington Square East, New York 10003 6688, USA
    Development 129:4931-40. 2002
  7. ncbi Genetics of a difference in pigmentation between Drosophila yakuba and Drosophila santomea
    Ana Llopart
    Department of Ecology and Evolution, The University of Chicago, 1101 East 57 Street, Chicago, Illinois 60637, USA
    Evolution 56:2262-77. 2002
  8. ncbi Microevolutionary divergence pattern of the segmentation gene hunchback in Drosophila
    D Tautz
    Zoologisches Institut der Universität München, Munich, Germany
    Mol Biol Evol 15:1403-11. 1998
  9. pmc Evolving protein functional diversity in new genes of Drosophila
    Jianming Zhang
    Department of Ecology and Evolution, University of Chicago, Chicago, IL 60637, USA
    Proc Natl Acad Sci U S A 101:16246-50. 2004
  10. pmc Organelle-specific control of intracellular transport: distinctly targeted isoforms of the regulator Klar
    Yi Guo
    Rosenstiel Biomedical Research Center, Brandeis University, Waltham, MA 02454, USA
    Mol Biol Cell 16:1406-16. 2005

Patents

  1. METHODS OF DIFFERENTIATING STEM CELLS BY MODULATING MIR-124
  2. Method of identifying eukaryotic species
  3. SNORNA, COMPOSITIONS AND USES
  4. Process for the production of lutein
  5. Plants with increased yield (nue)
  6. Process for the control of production of fine chemicals
  7. Proteins associated with abiotic stress response and homologs
  8. Proteins associated with abiotic stress response and homologs
  9. Method of identifying eukaryotic species

Detail Information

Publications148 found, 100 shown here

  1. ncbi The mitochondrial DNA molecular of Drosophila yakuba: nucleotide sequence, gene organization, and genetic code
    D O Clary
    J Mol Evol 22:252-71. 1985
    The sequence of the 16,019 nucleotide-pair mitochondrial DNA (mtDNA) molecule of Drosophila yakuba is presented...
  2. ncbi Molecular phylogeny and divergence times of drosophilid species
    C A Russo
    Institute of Molecular Evolutionary Genetics, Pennsylvania State University, University Park 16802, USA
    Mol Biol Evol 12:391-404. 1995
    ..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...
  3. ncbi Functional analysis of eve stripe 2 enhancer evolution in Drosophila: rules governing conservation and change
    M Z Ludwig
    Department of Ecology and Evolution, University of Chicago, Chicago, IL 60637, USA
    Development 125:949-58. 1998
    ..This view allows for a slow but continual turnover of functionally important changes in the stripe 2 enhancer...
  4. pmc Large number of replacement polymorphisms in rapidly evolving genes of Drosophila. Implications for genome-wide surveys of DNA polymorphism
    K J Schmid
    Zoologisches Institut, Universitat Munchen, 80333 München, Germany
    Genetics 153:1717-29. 1999
    ....
  5. pmc Alternative splicing of the Drosophila Dscam pre-mRNA is both temporally and spatially regulated
    A M Celotto
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, Farmington, Connecticut 06030, USA
    Genetics 159:599-608. 2001
    ..In addition, this work provides a framework to determine the mechanisms by which complex alternative splicing events are regulated...
  6. ncbi Anterior repression of a Drosophila stripe enhancer requires three position-specific mechanisms
    Luiz Paulo Moura Andrioli
    Department of Biology, New York University, 1009 Main Building, 100 Washington Square East, New York 10003 6688, USA
    Development 129:4931-40. 2002
    ..These results suggest a common mechanism for preventing anterior activation of three different eve enhancers...
  7. ncbi Genetics of a difference in pigmentation between Drosophila yakuba and Drosophila santomea
    Ana Llopart
    Department of Ecology and Evolution, The University of Chicago, 1101 East 57 Street, Chicago, Illinois 60637, USA
    Evolution 56:2262-77. 2002
    b>Drosophila yakuba is a species widespread in Africa, whereas D. santomea, its newly discovered sister species, is endemic to the volcanic island of São Tomé in the Gulf of Guinea...
  8. ncbi Microevolutionary divergence pattern of the segmentation gene hunchback in Drosophila
    D Tautz
    Zoologisches Institut der Universität München, Munich, Germany
    Mol Biol Evol 15:1403-11. 1998
    ..melanogaster, as well as from the closely related species Drosophila sechellia, Drosophila orena, and Drosophila yakuba. We find a relatively low degree of sequence variation in D. melanogaster (theta = 0...
  9. pmc Evolving protein functional diversity in new genes of Drosophila
    Jianming Zhang
    Department of Ecology and Evolution, University of Chicago, Chicago, IL 60637, USA
    Proc Natl Acad Sci U S A 101:16246-50. 2004
    ..These data suggest that protein functional diversity can expand rapidly under the joint forces of exon shuffling, gene duplication, and natural selection...
  10. pmc Organelle-specific control of intracellular transport: distinctly targeted isoforms of the regulator Klar
    Yi Guo
    Rosenstiel Biomedical Research Center, Brandeis University, Waltham, MA 02454, USA
    Mol Biol Cell 16:1406-16. 2005
    ..Such isoform variation may be a general strategy for adapting a common regulatory mechanism to specifically control motion and positioning of multiple organelles...
  11. ncbi Origin and neofunctionalization of a Drosophila paternal effect gene essential for zygote viability
    Benjamin Loppin
    Department of Biology and Biochemistry, University of Bath, 4 South Building, Claverton Down, Bath BA2 7AY, United Kingdom
    Curr Biol 15:87-93. 2005
    ..A special class of genes affecting male fertility, the paternal effect genes, have also become a focus of study to geneticists and reproductive biologists interested in fertilization and sperm-egg interactions...
  12. pmc Functional evolution of a cis-regulatory module
    Michael Z Ludwig
    Department of Ecology and Evolution, University of Chicago, Illinois, USA
    PLoS Biol 3:e93. 2005
    ..Our findings have implications for understanding enhancer structure-function, mechanisms of speciation and computational identification of regulatory modules...
  13. pmc Mutually exclusive splicing of the insect Dscam pre-mRNA directed by competing intronic RNA secondary structures
    Brenton R Graveley
    Department of Genetics and Developmental Biology, University of Connecticut Health Center, Famington, CT 06030, USA
    Cell 123:65-73. 2005
    ....
  14. pmc Recently evolved genes identified from Drosophila yakuba and D. erecta accessory gland expressed sequence tags
    David J Begun
    Section of Evolution and Ecology, University of California, Davis, California 95616, USA
    Genetics 172:1675-81. 2006
    ..We found no evidence that these novel genes are attributable primarily to duplication and divergence, which suggests the possibility that Acp's or other genes coding for small proteins may originate from ancestrally noncoding DNA...
  15. ncbi Natural selection drives extremely rapid evolution in antiviral RNAi genes
    Darren J Obbard
    Institute of Evolutionary Biology, University of Edinburgh, Kings Buildings, West Mains Road, Edinburgh EH9 3JT, United Kingdom
    Curr Biol 16:580-5. 2006
    ..This is a signature of host-pathogen arms races and implies that the ancient battle between RNA viruses and host antiviral RNAi genes is active and significant in shaping RNAi function...
  16. ncbi The TAGteam DNA motif controls the timing of Drosophila pre-blastoderm transcription
    John R ten Bosch
    Department of Molecular and Cell Biology, University of California, Berkeley, CA 94720 3204, USA
    Development 133:1967-77. 2006
    ....
  17. pmc Overlapping functions of argonaute proteins in patterning and morphogenesis of Drosophila embryos
    Wibke J Meyer
    Institut fur Genetik, Heinrich Heine Universitat, Dusseldorf, Germany
    PLoS Genet 2:e134. 2006
    ..Our findings argue against a strict separation of Ago1 and Ago2 functions and suggest that these proteins act in concert to control key steps of the midblastula transition and of segmental patterning...
  18. pmc Drosophila mojoless, a retroposed GSK-3, has functionally diverged to acquire an essential role in male fertility
    Rasika Kalamegham
    Laboratory of Cellular and Developmental Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, Maryland, USA
    Mol Biol Evol 24:732-42. 2007
    ..We postulate that mjl has undergone functional diversification and is now under stabilizing selection in the Drosophila genus...
  19. pmc Evidence for de novo evolution of testis-expressed genes in the Drosophila yakuba/Drosophila erecta clade
    David J Begun
    Section of Evolution and Ecology, University of California, Davis, California 95616, USA
    Genetics 176:1131-7. 2007
    ..Here we use testis-derived expressed sequence tags (ESTs) from Drosophila yakuba to identify genes that have likely arisen either in D. yakuba or in the D. yakuba/D. erecta ancestor...
  20. pmc Adaptive evolution of newly emerged micro-RNA genes in Drosophila
    Jian Lu
    Department of Ecology and Evolution, University of Chicago, USA
    Mol Biol Evol 25:929-38. 2008
    ..melanogaster is indicative of hitchhiking under positive selection. Thus, a large number of adaptive changes over a long period of time may be essential for the evolution of newly emerged miRNA genes...
  21. pmc Binding site turnover produces pervasive quantitative changes in transcription factor binding between closely related Drosophila species
    Robert K Bradley
    Department of Mathematics, University of California Berkeley, Berkeley, California, United States of America
    PLoS Biol 8:e1000343. 2010
    ..along the anterior-posterior axis in embryos of two closely related species: Drosophila melanogaster and Drosophila yakuba. Where we observe binding by a factor in one species, we almost always observe binding by that factor to the ..
  22. pmc A young Drosophila duplicate gene plays essential roles in spermatogenesis by regulating several Y-linked male fertility genes
    Yun Ding
    State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China
    PLoS Genet 6:e1001255. 2010
    ..of the corresponding cis-regulatory elements of the parental gene kep1 in the pre-duplication species Drosophila yakuba indicate that kep1 might not be ancestrally required for male functions and that nsr possibly has ..
  23. pmc A conserved developmental patterning network produces quantitatively different output in multiple species of Drosophila
    Charless C Fowlkes
    Department of Computer Science, University of California Irvine, Irvine, California, USA
    PLoS Genet 7:e1002346. 2011
    ..of such changes, we used high-resolution imaging methods to measure mRNA expression in blastoderm embryos of Drosophila yakuba and Drosophila pseudoobscura and assembled these data into cellular resolution atlases, where expression ..
  24. ncbi Evidence for stabilizing selection in a eukaryotic enhancer element
    M Z Ludwig
    Department of Ecology and Evolution, University of Chicago, Illinois 60637, USA
    Nature 403:564-7. 2000
    ..Sequence differences between species have functional consequences, therefore, but they are masked by other co-evolved differences. On the basis of these results, we present a model for the evolution of eukaryotic regulatory sequences...
  25. pmc The mitochondrial genome of the honeybee Apis mellifera: complete sequence and genome organization
    R H Crozier
    Department of Genetics and Human Variation, La Trobe University, Bundoora, Victoria, Australia
    Genetics 133:97-117. 1993
    ..The base composition shows extreme bias, being 84.9% AT (cf. 78.6% in Drosophila yakuba)...
  26. pmc Phylogenetic incongruence in the Drosophila melanogaster species group
    Alex Wong
    Department of Molecular Biology and Genetics, Biotechnology Building, Cornell University, Ithaca, NY 14853, USA
    Mol Phylogenet Evol 43:1138-50. 2007
    ..the node joining the Drosophila erecta-Drosophila orena, Drosophila melanogaster-Drosophila simulans, and Drosophila yakuba-Drosophila teissieri lineages, and (2) the node joining the lineages leading to the melanogaster, takahashii,..
  27. ncbi Sequence turnover and tandem repeats in cis-regulatory modules in drosophila
    Saurabh Sinha
    Center for Studies in Physics and Biology, The Rockefeller University, USA
    Mol Biol Evol 22:874-85. 2005
    ..indels account for more base pairs (bp) of change than substitutions (between Drosophila melanogaster and Drosophila yakuba), though they are fewer in number...
  28. pmc Genomewide comparative analysis of the highly abundant transposable element DINE-1 suggests a recent transpositional burst in Drosophila yakuba
    Hsiao Pei Yang
    Faculty of Life Sciences and Institute of Genome Sciences, National Yang Ming University, Peitou, Taipei 112, Taiwan, Republic of China
    Genetics 173:189-96. 2006
    ..yakuba. Unlike the highly diverged copies in the DMG (pairwise distance approximately 15%), DINE-1's in the Drosophila yakuba genome (DYG) have diverged by only 3.4%...
  29. doi An intron loss of Dfak gene in species of the Drosophila melanogaster subgroup and phylogenetic analysis
    Lei Lei Zhan
    College of Life Science, Hubei University, Wuhan 430062, People s Republic of China
    J Hered 99:417-20. 2008
    ..In the current study, homologous sequences of Drosophila sechellia, Drosophila mauritiana, Drosophila yakuba, Drosophila teissieri, Drosophila santomea, and Drosophila erecta were amplified by polymerase chain ..
  30. ncbi Patterns of mutation and selection at synonymous sites in Drosophila
    Nadia D Singh
    Department of Molecular Biology and Genetics, Cornell University, Ithaca, USA
    Mol Biol Evol 24:2687-97. 2007
    ..melanogaster, Drosophila sechellia, and Drosophila yakuba. Our analyses reveal intragenomic and interspecific variation in mutational patterns as well as in patterns ..
  31. pmc Comparative and phylogenomic studies on the mitochondrial genomes of Pentatomomorpha (Insecta: Hemiptera: Heteroptera)
    Jimeng Hua
    Department of Zoology and Developmental Biology, Institute of Entomology, College of Life Sciences, Nankai University, Tianjin 300071, PR China
    BMC Genomics 9:610. 2008
    ....
  32. ncbi Complete mitochondrial DNA sequence of the swimming crab, Portunus trituberculatus (Crustacea: Decapoda: Brachyura)
    Mitsugu M Yamauchi
    Ocean Research Institute, University of Tokyo, 1 15 1 Minamidai, Nakano Ku, Tokyo 164 8639, Japan
    Gene 311:129-35. 2003
    ..trituberculatus was largely identical to those so far obtained for other arthropods such as Drosophila yakuba, although the relative position of the tRNA(His) gene differed from all other arthropods studied so far...
  33. ncbi The sequence, organization, and evolution of the Locusta migratoria mitochondrial genome
    P K Flook
    Zoologisches Institut, Universitat Basel, Switzerland
    J Mol Evol 41:928-41. 1995
    ..The gene content and organization are the same as in Drosophila yakuba except for a rearrangement of the two tRNA genes tRNAlys and tRNAasp...
  34. doi Molecular characterization and phylogenesis of Steganinae (Diptera, Drosophilidae) inferred by the mitochondrial cytochrome c oxidase subunit 1
    D Otranto
    Department of Veterinary Public Health, Faculty of Veterinary Medicine, University of Bari, Bari, Italy
    Med Vet Entomol 22:37-47. 2008
    ..Gitona distigma was placed in an unresolved position adjacent to the outgroup taxa, Drosophila yakuba and Drosophila melanogaster...
  35. ncbi Mitochondrial sequence evolution in spiders: intraspecific variation in tRNAs lacking the TPsiC Arm
    S E Masta
    Department of Ecology and Evolutionary Biology, University of Arizona, Arizona, USA
    Mol Biol Evol 17:1091-100. 2000
    ..sequence at the 5' end is extremely divergent, and the entire gene is truncated about 300 nt with respect to Drosophila yakuba. Third, initiation codons appear to consist of ATY (ATT and ATC) and TTG for ND1 and COII, respectively...
  36. pmc Multilocus analysis of introgression between two sympatric sister species of Drosophila: Drosophila yakuba and D. santomea
    Ana Llopart
    Department of Ecology and Evolution, University of Chicago, Illinois 60637, USA
    Genetics 171:197-210. 2005
    b>Drosophila yakuba is widely distributed in sub-Saharan Africa, while D. santomea is endemic to the volcanic island of São Tomé in the Atlantic Ocean, 280 km west of Gabon. On São Tomé, D...
  37. ncbi What maintains noncytoplasmic incompatibility inducing Wolbachia in their hosts: a case study from a natural Drosophila yakuba population
    S Charlat
    Institut Jacques Monod, CNRS Universités Paris 627, Laboratoire Dynamique du Genome et Evolution, Jussieu, Paris, France
    J Evol Biol 17:322-30. 2004
    ..The present study aims to test this view by investigating a population of Drosophila yakuba from Gabon, West Africa. We did not find any evidence for CI using wild caught females...
  38. ncbi Mitochondrial DNA of Chlamydomonas reinhardtii: the gene for apocytochrome b and the complete functional map of the 15.8 kb DNA
    G Michaelis
    Botanisches Institut der Universität Düsseldorf, Federal Republic of Germany
    Mol Gen Genet 223:211-6. 1990
    ..6% and 48% identity with the apocytochrome b proteins of maize, Drosophila yakuba and mouse, respectively. RNA analysis reveals a transcript of about 1250 nucleotides...
  39. ncbi Numerous gene rearrangements in the mitochondrial genome of the wallaby louse, Heterodoxus macropus (Phthiraptera)
    R Shao
    Department of Microbiology and Parasitology, and Institute for Molecular Bioscience, University of Queensland, Brisbane, Queensland, Australia
    Mol Biol Evol 18:858-65. 2001
    ..and/or inverted relative to the ancestral gene arrangement of insects, which is present in the fruit fly Drosophila yakuba. At least nine protein-coding genes (atp6, atp8, cox2, cob, nad1-nad3, nad5, and nad6) have moved; moreover, ..
  40. doi The complete mitogenome of the Chinese bush cricket, Gampsocleis gratiosa (Orthoptera: Tettigonioidea)
    Zhijun Zhou
    College of Life Science, Shaanxi Normal University, Xi an, China
    J Genet Genomics 35:341-8. 2008
    ..The anticodons of all tRNAs are identical to those observed in Drosophila yakuba and Locusta migratoria, and can be folded in the form of a typical clover leaf structure except for trnS (..
  41. pmc Quantitative trait loci affecting the difference in pigmentation between Drosophila yakuba and D. santomea
    Mary Anna Carbone
    Department of Genetics, North Carolina State University, Raleigh 27695, USA
    Genetics 171:211-25. 2005
    ..we studied the genetic basis of the difference in pigmentation between two sister species of Drosophila: Drosophila yakuba, which, like other members of the D...
  42. pmc Reinforcement of gametic isolation in Drosophila
    Daniel R Matute
    Department of Ecology and Evolution, The University of Chicago, Chicago, Illinois, United States of America
    PLoS Biol 8:e1000341. 2010
    ..On the slopes of the African island of São Tomé, Drosophila yakuba and its endemic sister species D. santomea hybridize within a well-demarcated hybrid zone. I find that D...
  43. ncbi Mesoderm-specific B104 expression in the Drosophila embryo is mediated by internal cis-acting elements of the transposon
    G Bronner
    Abteilung Molekulare Entwicklungsbiologie, Max Planck Institut fur biophysikalische Chemie, Postfach 2841, D 37018 Göttingen, Germany
    Chromosoma 103:669-75. 1995
    ..Virtually the same expression patterns were observed in Drosophila yakuba, a species that a separated from D. melanogaster by some 15 million years of evolution...
  44. pmc Reproductive isolation and morphogenetic evolution in Drosophila analyzed by breakage of ethological barriers
    L Sanchez
    Centro de Investigaciones Biologicas, Velazquez, Madrid, Spain
    Genetics 147:231-42. 1997
    ..Female Drosophila yakuba and D. teissieri germ cells in a D...
  45. ncbi Insect mitochondrial genomics: the complete mitochondrial genome sequence of the meadow spittlebug Philaenus spumarius (Hemiptera: Auchenorrhyncha: Cercopoidae)
    James Bruce Stewart
    Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, BC, Canada
    Genome 48:46-54. 2005
    ..0% and 76.7% for coding regions only. The gene content, order, and structure are consistent with the Drosophila yakuba genome structure (Clary and Wolstenholme 1985) and the hypothesized ancestral arthropod genome arrangement (..
  46. ncbi Partial sequence of the mitochondrial genome of the crustacean Daphnia pulex
    T J Crease
    Department of Zoology, University of Guelph, Guelph, Ontario N1G 2W1, Canada
    Curr Genet 31:48-54. 1997
    ..The gene order in this half of the genome is identical to that of Drosophila yakuba which differs from that of the other completely sequenced crustacean mitochondrial genome, Artemia ..
  47. pmc Unraveling selection in the mitochondrial genome of Drosophila
    J W Ballard
    Department of Ecology and Evolution, University of Chicago, Illinois 60637
    Genetics 138:757-72. 1994
    ..locus was sequenced in 16 lines of Drosophila melanogaster, 18 lines of Drosophila simulans and 13 lines of Drosophila yakuba. Patterns of variation depart from neutrality by several test criteria...
  48. pmc Local recombination and mutation effects on molecular evolution in Drosophila
    T Takano-Shimizu
    Department of Population Genetics, National Institute of Genetics, Mishima, Shizuoka ken 411 8540, Japan
    Genetics 153:1285-96. 1999
    ..pattern found in the achaete-scute complex genes in two Drosophila lineages, higher codon bias in Drosophila yakuba, and lower bias in D. melanogaster...
  49. ncbi Conspecific sperm precedence in sister species of Drosophila with overlapping ranges
    Audrey S Chang
    Department of Ecology and Evolution, The University of Chicago, 1101 E 57 Street, Chicago, Illinois 60637, USA
    Evolution 58:781-9. 2004
    ..b>Drosophila yakuba and its sister species D...
  50. pmc Natural Wolbachia infections in the Drosophila yakuba species complex do not induce cytoplasmic incompatibility but fully rescue the wRi modification
    Sofia Zabalou
    Medical School, University of Crete, Heraklion 711 10, Crete, Greece
    Genetics 167:827-34. 2004
    In this study, we report data about the presence of Wolbachia in Drosophila yakuba, D. teissieri, and D. santomea. Wolbachia strains were characterized using their wsp gene sequence and cytoplasmic incompatibility assays...
  51. ncbi An anomalous hybrid zone in Drosophila
    Ana Llopart
    Department of Biological Sciences, University of Iowa, 215 Biology Building BB, Iowa City, Iowa 52242, USA
    Evolution 59:2602-7. 2005
    ..Here we describe a classic hybrid zone in Drosophila that involves two sister species, Drosophila yakuba and D. santomea, on the island of São Tomé...
  52. ncbi Intron length evolution in Drosophila
    Daven C Presgraves
    Department of Molecular Biology and Genetics, Cornell University, NY, USA
    Mol Biol Evol 23:2203-13. 2006
    ..melanogaster, Drosophila simulans, and Drosophila yakuba. Using D...
  53. ncbi Variation of success of Leptopilina boulardi in Drosophila yakuba: the mechanisms explored
    Aurore Dubuffet
    Universite Francois Rabelais, IRBI, Parc Grandmont, 37200 Tours, France
    Dev Comp Immunol 32:597-602. 2008
    ..this point using two lines of the parasitoid wasp Leptopilina boulardi that differ in virulence towards Drosophila yakuba. By injecting oil drops in D...
  54. pmc On the origin of new genes in Drosophila
    Qi Zhou
    CAS Max Planck Junior Research Group, State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan 650223, China
    Genome Res 18:1446-55. 2008
    ..melanogaster or Drosophila yakuba); (2) the most abundant new genes shared by multiple species (44...
  55. pmc Slip-sliding away: serial changes and homoplasy in repeat number in the Drosophila yakuba homolog of human cancer susceptibility gene BRCA2
    Sarah M Bennett
    Biology Department, Duke University, Durham, North Carolina, USA
    PLoS ONE 5:e11006. 2010
    ..identified what appeared to be a recent expansion in the RAD51-binding BRC-repeat array in the ancestor of Drosophila yakuba. In this study, we examine patterns of variation and evolution of the dmbrca2 BRC-repeat array within D...
  56. pmc Drosophila melanogaster mitochondrial DNA: gene organization and evolutionary considerations
    R Garesse
    Departamento de Bioquimica, Facultad de Medicina, Universidad Autonoma de Madrid, Spain
    Genetics 118:649-63. 1988
    ..The gene organization is strictly conserved with respect to the Drosophila yakuba mitochondrial genome, and different from that found in mammals and Xenopus. The high A + T content of D...
  57. doi The evolution of gene regulation underlies a morphological difference between two Drosophila sister species
    Sangyun Jeong
    Howard Hughes Medical Institute and Laboratory of Molecular Biology, University of Wisconsin, 1525 Linden Drive, Madison, WI 53706, USA
    Cell 132:783-93. 2008
    ..Here, we analyze the genetic and molecular bases of the divergence of body pigmentation patterns between Drosophila yakuba and its sister species Drosophila santomea. We found that loss of pigmentation in D...
  58. pmc Identification of nucleotide substitutions necessary for trans-activation of mariner transposable elements in Drosophila: analysis of naturally occurring elements
    K Maruyama
    Department of Genetics, Washington University School of Medicine, St Louis, Missouri 63110 1095
    Genetics 128:777-84. 1991
    ..Use of the sequences from the more distantly related species, Drosophila yakuba and Drosophila teissieri, as outside reference species, indicates that functional mariner elements are ..
  59. pmc Rate variation of DNA sequence evolution in the Drosophila lineages
    T S Takano
    Department of Population Genetics, National Institute of Genetics, Mishima, Shizuoka ken 411 8540, Japan
    Genetics 149:959-70. 1998
    ..The higher codon bias in Drosophila yakuba as compared with D. melanogaster and D...
  60. doi A serpin from the parasitoid wasp Leptopilina boulardi targets the Drosophila phenoloxidase cascade
    Dominique Colinet
    Institut National de la Recherche Agronomique, INRA, UMR 1301, France
    Dev Comp Immunol 33:681-9. 2009
    ..and we show that either the venom or the recombinant LbSPNy inhibit the PO cascade in the hemolymph of Drosophila yakuba host larva...
  61. ncbi Evidence for interspecific transfer of the transposable element mariner between Drosophila and Zaprionus
    K Maruyama
    Department of Genetics, Washington University School of Medicine, St Louis, MO 63110 1095
    J Mol Evol 33:514-24. 1991
    ..gene phylogeny is in the placement of the Zaprionus mariner sequence, which clusters with mariner from Drosophila teissieri and Drosophila yakuba in the melanogaster species subgroup. These results strongly suggest horizontal transfer.
  62. pmc Transfer RNA genes in Drosophila mitochondrial DNA: related 5' flanking sequences and comparisons to mammalian mitochondrial tRNA genes
    D O Clary
    Nucleic Acids Res 11:2411-25. 1983
    Genes for tRNAgly and tRNAserUCN have been identified within sequences of mtDNA of Drosophila yakuba. The tRNAgly gene lies between the genes for cytochrome c oxidase subunit III and URF3, and all three of these genes are contained in ..
  63. pmc Genes for cytochrome c oxidase subunit I, URF2, and three tRNAs in Drosophila mitochondrial DNA
    D O Clary
    Nucleic Acids Res 11:6859-72. 1983
    ..tRNAtyr and cytochrome c oxidase subunit I (COI) have been identified within a sequenced segment of the Drosophila yakuba mtDNA molecule. The five genes are arranged in the order given...
  64. ncbi Molecular evolution. Retroposon revivals
    J F Brookfield
    Department of Genetics, University of Nottingham, Queens Medical Centre, UK
    Curr Biol 5:255-6. 1995
    ..Phylogenetic studies of the mouse L1 retroposon family show that the elements evolve through successively active subfamilies, which differ from each other by complete replacements of their promoter sequences...
  65. ncbi Molecular drift of the bride of sevenless (boss) gene in Drosophila
    F J Ayala
    Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts 02138
    Mol Biol Evol 10:1030-40. 1993
    ..The data also imply that random genetic drift has been responsible for virtually all of the observed differences in the portion of the boss gene analyzed among the four species...
  66. ncbi Positive selection and the molecular evolution of a gene of male reproduction, Acp26Aa of Drosophila
    S C Tsaur
    Department of Ecology and Evolution, University of Chicago, IIIinois 60637, USA
    Mol Biol Evol 14:544-9. 1997
    ..This suggests that positive selection may be operating at this locus of male reproduction...
  67. ncbi Clines and adaptive evolution in the methuselah gene region in Drosophila melanogaster
    David D Duvernell
    State University of New York at Stony Brook, Department of Ecology and Evolution, Stony Brook, NY 11794 5245, USA
    Mol Ecol 12:1277-85. 2003
    ..However, Ka : Ks ratios indicate a difference in levels of functional constraint at the two methuselah, loci with mth2 exhibiting a five- to six-fold reduction in levels of amino acid divergence relative to mth...
  68. pmc Dntf-2r, a young Drosophila retroposed gene with specific male expression under positive Darwinian selection
    ESTHER BETRAN
    Department of Ecology and Evolution, University of Chicago, Chicago, Illinois 60637, USA
    Genetics 164:977-88. 2003
    ..We discuss the possibility that the action of positive selection in Dntf-2r is related to its putative male-specific functions...
  69. ncbi Structure predictions and interaction studies indicate homology of separase N-terminal regulatory domains and Drosophila THR
    Hubert Jäger
    Lehrstuhl fur Genetik, University of Bayreuth, Bayreuth, Germany
    Cell Cycle 3:182-8. 2004
    ..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...
  70. ncbi The complete nucleotide sequence and gene organization of the mitochondrial genome of the oriental mole cricket, Gryllotalpa orientalis (Orthoptera: Gryllotalpidae)
    Iksoo Kim
    Department of Agricultural Biology, The National Institute of Agricultural Science and Technology, Suwon 441 100, Republic of Korea
    Gene 353:155-68. 2005
    ..All anticodons of G. orientalis tRNAs were identical to Drosophila yakuba and L. migratoria...
  71. pmc The amino-terminal region of Drosophila MSL1 contains basic, glycine-rich, and leucine zipper-like motifs that promote X chromosome binding, self-association, and MSL2 binding, respectively
    Fang Li
    Centre for Functional Genomics, Institute of Molecular Biosciences, Massey University, Palmerston North, New Zealand
    Mol Cell Biol 25:8913-24. 2005
    ..We propose that the basic region may mediate DNA binding and that the glycine-rich region may promote the association of MSL complexes to closely adjacent sites on the X chromosome...
  72. ncbi Evolutionary pattern of the gtwin retrotransposon in the Drosophila melanogaster subgroup
    A Ludwig
    Programa de Pos Graduacao em Genetica e Biologia Molecular, Departamento de Genetica, Universidade Federal do Rio Grande do Sul, Porto Alegre, Rio Grande do Sul, Brazil
    Genetica 130:161-8. 2007
    ..melanogaster. The results suggest that the gtwin element may be an infectious retrovirus able to invade the genome of new species, supporting the gtwin evolutionary picture shown in this work...
  73. ncbi Genome scans of variation and adaptive change: extended analysis of a candidate locus close to the phantom gene region in Drosophila melanogaster
    Dorcas J Orengo
    Departament de Genetica, Facultat de Biologia, Universitat de Barcelona, Barcelona, Spain
    Mol Biol Evol 24:1122-9. 2007
    ....
  74. ncbi The drosulfakinin 0 (DSK 0) peptide encoded in the conserved Dsk gene affects adult Drosophila melanogaster crop contractions
    Gregory C Palmer
    Biological Chemistry Department, University of Michigan Medical School, Medical Science Research Building III, Ann Arbor, MI 48109 0606, USA
    J Insect Physiol 53:1125-33. 2007
    ..Drosophila erecta, Drosophila sechellia, Drosophila simulans, and Drosophila yakuba shared 62.5-87.5% identity to Drosophila melanogaster DSK 0; Drosophila pseudoobscura shared 37...
  75. pmc Recurrent positive selection of the Drosophila hybrid incompatibility gene Hmr
    Shamoni Maheshwari
    Department of Molecular Biology and Genetics, Cornell University, USA
    Mol Biol Evol 25:2421-30. 2008
    ..simulans and Drosophila mauritiana and along the lineage leading to the melanogaster subgroup species pair Drosophila yakuba and Drosophila santomea...
  76. pmc Positive selection at the binding sites of the male-specific lethal complex involved in dosage compensation in Drosophila
    Doris Bachtrog
    Department of Integrative Biology, University of California, Berkeley, California 94720, USA
    Genetics 180:1123-9. 2008
    ....
  77. doi A multispecies approach for comparing sequence evolution of X-linked and autosomal sites in Drosophila
    Beatriz Vicoso
    Institute of Evolutionary Biology, School of Biological Sciences, University of Edinburgh, Edinburgh, UK
    Genet Res (Camb) 90:421-31. 2008
    ..pseudoobscura/D. affinis comparison) than when they were autosomal (in Drosophila melanogaster/Drosophila yakuba)...
  78. pmc Molecular evolution of a Drosophila homolog of human BRCA2
    Sarah M Bennett
    Biology Department, Duke University, Durham, NC 27708, USA
    Genetica 137:213-9. 2009
    ..Overall, we have documented patterns and modes of evolution in a new model system of a gene which is important to human health...
  79. pmc Conservation of domain structure in a fast-evolving heterochromatic SUUR protein in drosophilids
    Anna A Yurlova
    Department of Molecular and Cellular Biology, Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of the Russian Academy of Sciences, 630090 Novosibirsk, Russia
    Genetics 183:119-29. 2009
    ..The C terminus contains interlacing conserved and variable motifs. Our results suggest that SUUR domains evolve with different rates and patterns but maintain their features...
  80. pmc Turnover and lineage-specific broadening of the transcription start site in a testis-specific retrogene
    Mehran Sorourian
    Department of Biology, University of Texas at Arlington, TX, USA
    Fly (Austin) 4:3-11. 2010
    ..e., "TSS turnover"); or (3) the transcription start site can be broad or narrow depending on the species. This work reveals the difficulties of studying gene regulation in one species and extrapolating those findings to close relatives...
  81. doi Evolution of enzymatic activities of testis-specific short-chain dehydrogenase/reductase in Drosophila
    Jianming Zhang
    Department of Ecology and Evolution, The University of Chicago, Chicago, IL 60637, USA
    J Mol Evol 71:241-9. 2010
    ..Our results lend support to a general mechanism for the evolution of a new enzyme, in which catalytic chemistry evolves first followed by diversification of substrate utilization...
  82. doi The rapid evolution of X-linked male-biased gene expression and the large-X effect in Drosophila yakuba, D. santomea, and their hybrids
    Ana Llopart
    Department of Biology, University of Iowa, USA
    Mol Biol Evol 29:3873-86. 2012
    ..Here, I study genome-wide variation in transcript abundance between Drosophila yakuba and D...
  83. pmc Dissecting sources of quantitative gene expression pattern divergence between Drosophila species
    Zeba Wunderlich
    Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA
    Mol Syst Biol 8:604. 2012
    ....
  84. doi The complete mitochondrial genome of the Chinese peacock, Papilio bianor (Insecta: Lepidoptera: Papilionidae)
    Yan Dong
    College of Biology and Food Engineering, Chuzhou University, Chuzhou 239000, People s Republic of China
    Mitochondrial DNA 24:636-8. 2013
    ..sequenced insect mitogenomes showed that the gene order and orientation are basically identical to that of Drosophila yakuba with the exception of the rearrangement of one tRNA gene...
  85. doi Complete mitochondrial genome of Neochauliodes bowringi (MacLachlan) (Megaloptera: Corydalidae)
    Qian Li
    State Key Laboratory of Rice Biology and Ministry of Agriculture Key Laboratory of Agricultural Entomology, Institute of Insect Sciences, Zhejiang University, Hangzhou, China and
    Mitochondrial DNA 26:112-3. 2015
    ..The gene arrangement is similar to that of Drosophila yakuba, the presumed ancestral insect mitochondrial gene arrangement...
  86. doi The role of founder effects on the evolution of reproductive isolation
    D R Matute
    Department of Human Genetics, The University of Chicago, Chicago, IL, USA The Chicago Fellows Program, The University of Chicago, Chicago, IL, USA
    J Evol Biol 26:2299-311. 2013
    ..extreme bottleneck and to study whether founder effects can lead to an increase in reproductive isolation in Drosophila yakuba. Even though the most common outcome of inbreeding is extinction, founder effects can lead to increased ..
  87. pmc Naturally occurring deletions of hunchback binding sites in the even-skipped stripe 3+7 enhancer
    Arnar Palsson
    Faculty of Life and Environmental Sciences, University of Iceland, Reykjavik, Iceland Institute of Biology, University of Iceland, Reykjavik, Iceland Biomedical Center, University of Iceland, Reykjavik, Iceland Department of Ecology and Evolution, University of Chicago, Chicago, Illinois, United States of America
    PLoS ONE 9:e91924. 2014
    ..The data reveal segregating variation in regulatory elements, which may reflect evolutionary turnover of characterized TFBS due to drift or co-evolution. ..
  88. doi The evolution of reproductive isolation in the Drosophila yakuba complex of species
    D A Turissini
    Biology Department, University of North Carolina, Chapel Hill, NC, USA
    J Evol Biol 28:557-75. 2015
    ..Our results open the possibility of studying the history of introgression in the yakuba species complex and dissecting the genetic basis of interspecific differences between these three species by genetic mapping. ..
  89. pmc The ribosomal RNA genes of Drosophila mitochondrial DNA
    D O Clary
    Nucleic Acids Res 13:4029-45. 1985
    The nucleotide sequence of a segment of the mtDNA molecule of Drosophila yakuba which contains the A+T-rich region and the small and large rRNA genes separated by the tRNAval gene has been determined...
  90. pmc A cluster of six tRNA genes in Drosophila mitochondrial DNA that includes a gene for an unusual tRNAserAGY
    D O Clary
    Nucleic Acids Res 12:2367-79. 1984
    ..terminal segment of the URF5 gene have been identified within a sequenced segment of the mtDNA molecule of Drosophila yakuba. The genes occur in the order given...
  91. doi The complete mitochondrial genome of the flesh fly, Sarcophaga impatiens Walker (Diptera: Sarcophagidae)
    Leigh A Nelson
    Australian National Insect Collection and Taxonomic Research and Information Network, CSIRO Ecosystem Sciences, Canberra, Australian Capital Territory 2601, Australia
    Mitochondrial DNA 23:42-3. 2012
    ..The 22 tRNA anticodons of S. impatiens are consistent with those observed in Drosophila yakuba, and all form the typical cloverleaf structure, except for tRNA-Ser((AGN)) that lacks the DHU arm...
  92. doi Phylogeny, integration and expression of sigma virus-like genes in Drosophila
    Matthew J Ballinger
    Department of Biological Sciences, The State University of New York at Buffalo, Buffalo, NY 14260, USA
    Mol Phylogenet Evol 65:251-8. 2012
    ..P-like NIRV is present in multiple retroelement fused open reading frames on the X and 3R chromosomes of Drosophila yakuba - the X-linked copy is transcribed to produce an RNA product in adult flies...
  93. pmc Comparative motif discovery combined with comparative transcriptomics yields accurate targetome and enhancer predictions
    Marina Naval-Sánchez
    Laboratory of Computational Biology, Department of Human Genetics, University of Leuven, 3000 Leuven, Belgium
    Genome Res 23:74-88. 2013
    ..a set of genes with conserved expression during retinal determination across Drosophila melanogaster, Drosophila yakuba, and Drosophila virilis...
  94. doi The influence of abdominal pigmentation on desiccation and ultraviolet resistance in two species of Drosophila
    Daniel R Matute
    Department of Human Genetics, The University of Chicago, 1101 East 57th Street, Chicago, Illinois 60637, USA
    Evolution 67:2451-60. 2013
    b>Drosophila yakuba and D. santomea are sister species that differ in their levels of abdominal pigmentation; D. yakuba shows heavily pigmented posterior abdominal segments in both sexes, whereas D...
  95. ncbi GEBF-I in Drosophila species and hybrids: the co-evolution of an enhancer and its cognate factor
    P Georgel
    Laboratoire de Genetique Moleculaire des Eucaryotes, Centre National de la Recherche Scientifique, Faculte de Medecine, Strasbourg, France
    Mol Gen Genet 235:104-12. 1992
    ..In these hybrid larvae, which carry one D. melanogaster and one D. simulans Sgs-3 gene, the hybrid GEBF-I protein appears equally effective in the induction of both target genes...
  96. pmc Population genetics of polymorphism and divergence
    S A Sawyer
    Department of Mathematics, Washington University, St Louis, Missouri 63130
    Genetics 132:1161-76. 1992
    ..the sample configurations of nucleotides in the alcohol dehydrogenase gene (Adh) in Drosophila simulans and Drosophila yakuba. Assuming a synonymous mutation rate of 1...
  97. pmc The evolution of duplicate glyceraldehyde-3-phosphate dehydrogenase genes in Drosophila
    K M Wojtas
    Department of Biology, Syracuse University, New York 13244
    Genetics 132:789-97. 1992
    ..Species of the subgenus Drosophila have a single Gapdh gene with an intron. Species of the willistoni and saltans groups have a single Gapdh gene that does not contain an intron.(ABSTRACT TRUNCATED AT 250 WORDS)..
  98. ncbi Evolution of the threonine-glycine repeat region of the period gene in the melanogaster species subgroup of Drosophila
    A A Peixoto
    Department of Genetics, University of Leicester, UK
    J Mol Evol 35:411-9. 1992
    ..A phylogeny based on the more conserved flanking sequences was produced. The results highlighted some of the problems which are encountered when highly polymorphic genes are used to infer phylogenies of closely related species...
  99. ncbi Processed pseudogenes in Drosophila
    P Jeffs
    Department of Anatomy, University of Cambridge, U K
    Proc Biol Sci 244:151-9. 1991
    ..Remarkably, the pattern of base substitution in the pseudogenes differs between sites that correspond to degenerate and non-degenerate codon positions in their functional paralogs...
  100. ncbi Evolution of the dec-1 eggshell locus in Drosophila. I. Restriction site mapping and limited sequence comparison in the melanogaster species subgroup
    S Andersson
    Department of Genetics, University of Umea, Sweden
    J Mol Evol 33:321-31. 1991
    ..teissieri and D. yakuba...
  101. ncbi Cloning of the mitochondrial genome of Anopheles quadrimaculatus
    A F Cockburn
    Insects Affecting Man and Animals Research Laboratory, USDA, ARS, Gainesville, Florida
    Arch Insect Biochem Physiol 14:31-6. 1990
    ..These portions of the genetic map were identical in gene order to those of Drosophila yakuba. The predicted amino acid sequence of the protein coding regions that were sequenced were between 72% and 98%..

Research Grants10

  1. Natural variation in Drosophila female postmating traits
    DAVID BEGUN; Fiscal Year: 2008
    ..abstract_text> ..
  2. Evolutionary genomics of new Drosophila genes
    DAVEN PRESGRAVES; Fiscal Year: 2004
    ..The methods developed will be applicable in comparative analysis of other genomes, including those of humans and their primate relatives. ..
  3. Variation of D. melanogaster chromosome 4
    Manyuan Long; Fiscal Year: 2006
    ..These studies should add significantly to the understanding of the evolutionary genetics of the Drosophila fourth chromosome. ..
  4. Detection of Distribution of New Genes in Drosophila Phylogeny
    MANYUAN NO LONG; Fiscal Year: 2010
    ..The results from these four categories of studies will generate the first phylogenetic distribution of new genes and provide the fresh-insight into the rates and patterns of new gene originations in genomes. ..
  5. Evolutionary Genomics of Anti-Malaria Genes in Mosquito
    Brian P Lazzaro; Fiscal Year: 2010
    ..Evolutionary patterns in mosquito defense genes will be used to identify proteins that coevolve with malaria parasites. This work may suggest genetic targets that could be manipulated to limit malaria transmission. ..
  6. Immunity to a Parasitoid Wasp in Drosophila melanogaster
    Todd Schlenke; Fiscal Year: 2005
    ....
  7. METABOLIC CONTROL AND MOLECULAR ADAPTATION IN DROSOPHILA
    WALTER EANES; Fiscal Year: 2005
    ..Studies will begin to identify the genes responsible for the variation in this suite of traits that have cascading effects into the metabolic pathways. ..
  8. Identification of circadian clock output genes
    Mark Drapeau; Fiscal Year: 2006
    ..Then, some of these genes will be studied molecularly to determine how they are regulated by the central clock. ..
  9. GENETIC BASIS OF SPECIES DIFFERENCES IN DROSOPHILA
    Jerry Coyne; Fiscal Year: 2009
    ..We will perform laboratory studies of tolerance and preference to understand these anomalies. Our results may be relevant to understanding the origin of species in other animal groups, including humans. ..
  10. The Mechanisms and Regulatory Networks of Alternative Splicing in Drosophila
    BRENTON GRAVELEY; Fiscal Year: 2009
    ....

Patents9

  1. METHODS OF DIFFERENTIATING STEM CELLS BY MODULATING MIR-124
    Patent Number: JP2016507218-A; Date:2016-03-10
  2. Method of identifying eukaryotic species
    Patent Number: JP2014155500-A; Date:2014-08-28
  3. SNORNA, COMPOSITIONS AND USES
    Patent Number: WO2015067727-A1; Date:2015-05-14
  4. Process for the production of lutein
    Patent Number: EP2096177-A2; Date:2009-09-02
  5. Plants with increased yield (nue)
    Patent Number: WO2010046221-A1; Date:2010-04-29
  6. Process for the control of production of fine chemicals
    Patent Number: EP2199304-A1; Date:2010-06-23
  7. Proteins associated with abiotic stress response and homologs
    Patent Number: EP2221382-A2; Date:2010-08-25
  8. Proteins associated with abiotic stress response and homologs
    Patent Number: WO2007110314-A; Date:2007-10-04
  9. Method of identifying eukaryotic species
    Patent Number: JP2010088398-A; Date:2010-04-22