Genomes and Genes
Experts and Doctors on drosophila in Ithaca, New York, United States
Locale: Ithaca, New York, United States
- Wong A, Wolfner M. Sexual behavior: a seminal peptide stimulates appetites. Curr Biol. 2006;16:R256-7 pubmed..These findings contribute significantly to our understanding of mating behaviors and resource allocation, and may provide insights useful for controlling the reproduction of insect pests. ..
- Yu J, Wolfner M. The Drosophila nuclear lamina protein YA binds to DNA and histone H2B with four domains. Mol Biol Cell. 2002;13:558-69 pubmed..It also binds to histone H2B. YA's binding to DNA and histone H2B is mediated by four domains distributed along the length of the YA molecule. A model for YA function at the end of Drosophila female meiosis is proposed. ..
- Aquadro C. Insights into the evolutionary process from patterns of DNA sequence variability. Curr Opin Genet Dev. 1997;7:835-40 pubmed..The impact of both adaptive and deleterious mutations are evident. Extension of these types of studies to other organisms has begun in earnest. ..
- Hamblin M, Aquadro C. High nucleotide sequence variation in a region of low recombination in Drosophila simulans is consistent with the background selection model. Mol Biol Evol. 1996;13:1133-40 pubmed..melanogaster. Alternatively, the deleterious mutation rate may be smaller in D. simulans, or balancing selection may be acting nearby, thereby reducing the effect of background selection. ..
- Liu J, Song K, Wolfner M. Mutational analyses of fs(1)Ya, an essential, developmentally regulated, nuclear envelope protein in Drosophila. Genetics. 1995;141:1473-81 pubmed..Two leaky Ya alleles that partially complement have lesions at opposite ends of the YA protein, suggesting that the N- and C-termini are important for YA function and that YA might interact with itself either directly or indirectly. ..
- Begun D, Aquadro C. Molecular variation at the vermilion locus in geographically diverse populations of Drosophila melanogaster and D. simulans. Genetics. 1995;140:1019-32 pubmed..simulans populations, the vermilion data raise the possibility that both mtDNA and allozymes have been influenced by selection...
- Maheshwari S, Barbash D. An indel polymorphism in the hybrid incompatibility gene lethal hybrid rescue of Drosophila is functionally relevant. Genetics. 2012;192:683-91 pubmed publisher..Through a series of transgenic constructs we demonstrate that the ancestral deletion state contributes to the rescue activity of Lhr(2). This indel is thus a polymorphism that can affect the HI function of Lhr. ..
- Fuda N, Buckley M, Wei W, Core L, Waters C, Reinberg D, et al. Fcp1 dephosphorylation of the RNA polymerase II C-terminal domain is required for efficient transcription of heat shock genes. Mol Cell Biol. 2012;32:3428-37 pubmed publisher..Our results indicate that Fcp1 is required to maintain the pool of initiation-competent unphosphorylated Pol II, and this function is particularly important for the highly transcribed heat shock genes. ..
- Wong A, Jensen J, Pool J, Aquadro C. Phylogenetic incongruence in the Drosophila melanogaster species group. Mol Phylogenet Evol. 2007;43:1138-50 pubmed publisher..Such lineage sorting may lead to biased estimation of tree topology and evolutionary rates, and may confound inferences of positive selection...
- Cui J, Sartain C, Pleiss J, Wolfner M. Cytoplasmic polyadenylation is a major mRNA regulator during oogenesis and egg activation in Drosophila. Dev Biol. 2013;383:121-31 pubmed publisher..Our study shows that cytoplasmic polyadenylation is a major regulatory mechanism during oocyte maturation and egg activation...
- Ferree P, Barbash D. Species-specific heterochromatin prevents mitotic chromosome segregation to cause hybrid lethality in Drosophila. PLoS Biol. 2009;7:e1000234 pubmed publisher..These findings demonstrate how divergence of noncoding repetitive sequences between species can directly cause reproductive isolation by altering chromosome segregation. ..
- Champlin D, Frasch M, Saumweber H, Lis J. Characterization of a Drosophila protein associated with boundaries of transcriptionally active chromatin. Genes Dev. 1991;5:1611-21 pubmed..The predicted primary amino acid sequence of B52 reveals two regions with similarities to a number of other proteins known to interact with nucleic acids. ..
- Kelleher E, Edelman N, Barbash D. Drosophila interspecific hybrids phenocopy piRNA-pathway mutants. PLoS Biol. 2012;10:e1001428 pubmed publisher..We suggest that TE derepression in interspecific hybrids largely reflects adaptive divergence of piRNA pathway genes rather than species-specific differences in TE-derived piRNAs. ..
- Lopez J, Wolfner M. The developmentally regulated Drosophila embryonic nuclear lamina protein 'Young Arrest' (fs(1)Ya) is capable of associating with chromatin. J Cell Sci. 1997;110 ( Pt 5):643-51 pubmed..These observations suggest that YA may be required for the interaction between chromatin and the nuclear envelope during early embryogenesis. ..
- Dean D, Maroja L, Cottrill S, Bomkamp B, Westervelt K, Deitcher D. The wavy Mutation Maps to the Inositol 1,4,5-Trisphosphate 3-Kinase 2 (IP3K2) Gene of Drosophila and Interacts with IP3R to Affect Wing Development. G3 (Bethesda). 2015;6:299-310 pubmed publisher..In proof of concept, a dominant modifier screen revealed that mutations in IP3R strongly suppress the wy phenotype, suggesting that the wy phenotype results from reduced IP4 levels, and/or excessive IP3R signaling. ..
- Yao J, Ardehali M, Fecko C, Webb W, Lis J. Intranuclear distribution and local dynamics of RNA polymerase II during transcription activation. Mol Cell. 2007;28:978-90 pubmed..Pol II at highly transcribed developmental loci exhibits dynamics resembling combinations of these Hsp70 transcription modes. ..
- Ram K, Wolfner M. A network of interactions among seminal proteins underlies the long-term postmating response in Drosophila. Proc Natl Acad Sci U S A. 2009;106:15384-9 pubmed publisher..The requirements for manifestation of the LTR in Drosophila establish the paradigm that multiple seminal proteins can exert their actions through a multistep, multicomponent network of interactions. ..
- Giardina C, Pérez Riba M, Lis J. Promoter melting and TFIID complexes on Drosophila genes in vivo. Genes Dev. 1992;6:2190-200 pubmed..This protection appears to be a consequence of TFIID binding, as a similar protection pattern could be produced in vitro with purified protein. ..
- Ring H, Lis J. The SR protein B52/SRp55 is essential for Drosophila development. Mol Cell Biol. 1994;14:7499-506 pubmed..Therefore, B52 is not required for all splicing in vivo. This is the first in vivo deficiency analysis of a member of the SR protein family. ..
- Shopland L, Lis J. HSF recruitment and loss at most Drosophila heat shock loci is coordinated and depends on proximal promoter sequences. Chromosoma. 1996;105:158-71 pubmed..Finally, the distribution of the heat shock protein HSP70 is examined for its role in regulating the attenuated response of HSF to heat shock. ..
- Sooksa nguan T, Yakubov B, Kozlovskyy V, Barkume C, Howe K, Thannhauser T, et al. Drosophila ABC transporter, DmHMT-1, confers tolerance to cadmium. DmHMT-1 and its yeast homolog, SpHMT-1, are not essential for vacuolar phytochelatin sequestration. J Biol Chem. 2009;284:354-62 pubmed publisher..These findings significantly change our current understanding of the function of HMT-1 proteins and invoke a PC-independent role for these transporters in Cd2+ detoxification...
- O BRIEN T, Wilkins R, Giardina C, Lis J. Distribution of GAGA protein on Drosophila genes in vivo. Genes Dev. 1995;9:1098-110 pubmed..We propose that GAGA protein may function in vivo both by binding constitutively to its high-affinity binding sites and by spreading through the induced gene opening the chromatin structure allowing polymerase to elongate efficiently. ..
- Giardina C, Lis J. Polymerase processivity and termination on Drosophila heat shock genes. J Biol Chem. 1993;268:23806-11 pubmed..The data obtained are consistent with polymerases terminating at multiple sites downstream of the polyadenylation site. ..
- Larracuente A, Noor M, Clark A. Translocation of Y-linked genes to the dot chromosome in Drosophila pseudoobscura. Mol Biol Evol. 2010;27:1612-20 pubmed publisher..We postulate that the nascent D. pseudoobscura Y chromosome acquired and amplified copies of the IGS, suggesting a potential mechanism for X-Y pairing in D. pseudoobscura. ..
- Fernandes M, Xiao H, Lis J. Binding of heat shock factor to and transcriptional activation of heat shock genes in Drosophila. Nucleic Acids Res. 1995;23:4799-804 pubmed..This last result suggests that close proximity of HSEs for cooperative binding of HSF is a result of protein-protein interactions near the point of DNA contact. ..
- Core L, Waterfall J, Gilchrist D, Fargo D, Kwak H, Adelman K, et al. Defining the status of RNA polymerase at promoters. Cell Rep. 2012;2:1025-35 pubmed publisher..Finally, the divergent elongation complexes seen at mammalian promoters are far less prevalent in Drosophila, and this specificity in orientation correlates with directional core promoter elements, which are abundant in Drosophila. ..
- Saunders A, Werner J, Andrulis E, Nakayama T, Hirose S, Reinberg D, et al. Tracking FACT and the RNA polymerase II elongation complex through chromatin in vivo. Science. 2003;301:1094-6 pubmed..Our observations are consistent with FACT being restricted to transcription that involves nucleosome disassembly mechanisms. ..
- Swanson W, Clark A, Waldrip Dail H, Wolfner M, Aquadro C. Evolutionary EST analysis identifies rapidly evolving male reproductive proteins in Drosophila. Proc Natl Acad Sci U S A. 2001;98:7375-9 pubmed..The evolutionary EST approach applied here to identify putative targets of adaptive evolution is readily applicable to other tissues and organisms. ..
- Brideau N, Flores H, Wang J, Maheshwari S, Wang X, Barbash D. Two Dobzhansky-Muller genes interact to cause hybrid lethality in Drosophila. Science. 2006;314:1292-5 pubmed..Rapidly evolving heterochromatic DNA sequences may be driving the evolution of this incompatibility gene. ..
- Delpuech J, Aquadro C, Roush R. Noninvolvement of the long terminal repeat of transposable element 17.6 in insecticide resistance in Drosophila. Proc Natl Acad Sci U S A. 1993;90:5643-7 pubmed..melanogaster and Drosophila simulans. Thus we must reject the hypothesis that the insertion of a long terminal repeat leads to DDT susceptibility in Drosophila. ..
- Schlenke T, Begun D. Linkage disequilibrium and recent selection at three immunity receptor loci in Drosophila simulans. Genetics. 2005;169:2013-22 pubmed publisher..simulans population sample and may be a result of novel pathogen-mediated selection pressures encountered during establishment of non-African populations...
- Fernandes M, Xiao H, Lis J. Fine structure analyses of the Drosophila and Saccharomyces heat shock factor--heat shock element interactions. Nucleic Acids Res. 1994;22:167-73 pubmed..Finally, based on these observations and a re-evaluation of the base frequencies and criteria for consensus sequence assignment, we propose that the sequence AGAAN more accurately represents the consensus HSE motif. ..
- Yao J, Munson K, Webb W, Lis J. Dynamics of heat shock factor association with native gene loci in living cells. Nature. 2006;442:1050-3 pubmed..Our method can be applied to study the dynamics of many factors involved in transcription and RNA processing, and in their regulation at native heat shock genes in vivo. ..
- Brideau N, Barbash D. Functional conservation of the Drosophila hybrid incompatibility gene Lhr. BMC Evol Biol. 2011;11:57 pubmed publisher..We conclude that evolution of the hybrid lethality properties of Lhr between D. melanogaster and D. simulans did not involve extensive loss or gain of functions associated with protein interactions or localization to heterochromatin...
- O BRIEN T, Hardin S, Greenleaf A, Lis J. Phosphorylation of RNA polymerase II C-terminal domain and transcriptional elongation. Nature. 1994;370:75-7 pubmed..Also, the level of phosphorylation of the CTD of elongating polymerases is shown not to be related to the level of transcription, but is promoter specific. ..
- Williams B, Garrett Engele C, Li Z, Williams E, Rosenman E, Goldberg M. Two putative acetyltransferases, san and deco, are required for establishing sister chromatid cohesion in Drosophila. Curr Biol. 2003;13:2025-36 pubmed..At least two diverse acetyltransferases play vital roles in regulating sister chromatid cohesion during Drosophila mitosis. ..
- Lis J, Wu C. Protein traffic on the heat shock promoter: parking, stalling, and trucking along. Cell. 1993;74:1-4 pubmed
- Williams B, Li Z, Liu S, Williams E, Leung G, Yen T, et al. Zwilch, a new component of the ZW10/ROD complex required for kinetochore functions. Mol Biol Cell. 2003;14:1379-91 pubmed..Finally, we discuss immunoaffinity chromatography results that suggest the existence of a weak interaction between the ZW10/ROD/Zwilch complex and the kinesin-like kinetochore component CENP-meta. ..
- O BRIEN T, Lis J. Rapid changes in Drosophila transcription after an instantaneous heat shock. Mol Cell Biol. 1993;13:3456-63 pubmed..Both approaches also showed the in vivo rate of movement of the first wave of RNA polymerase through the hsp70 gene to be approximately 1.2 kb/min. ..
- Park M, Monsma S, Wolfner M. Two tightly-linked Drosophila male accessory gland transcripts with the same developmental expression derive from independent transcription units. Mech Dev. 1994;48:51-7 pubmed..We also show that the regulatory elements for Acp26Ab lie within a fragment containing the intergenic region and transcribed sequences of Acp26Aa and Acp26Ab. ..
- Lin H, Song K, Hutcheson G, Goutte C, Wolfner M. A maternally encoded nuclear envelope protein required for embryonic mitosis in Drosophila. Cold Spring Harb Symp Quant Biol. 1991;56:719-27 pubmed
- Williams B, Gatti M, Goldberg M. Bipolar spindle attachments affect redistributions of ZW10, a Drosophila centromere/kinetochore component required for accurate chromosome segregation. J Cell Biol. 1996;134:1127-40 pubmed..We propose that ZW10 acts as part of, or immediately downstream of, a tension-sensing mechanism that regulates chromosome separation or movement at anaphase onset. ..
- Wong A, Chaston J, Douglas A. The inconstant gut microbiota of Drosophila species revealed by 16S rRNA gene analysis. ISME J. 2013;7:1922-32 pubmed publisher..This is reminiscent of the patterns of bacterial composition in guts of some other animals, including humans. ..
- Barbash D. Nup96-dependent hybrid lethality occurs in a subset of species from the simulans clade of Drosophila. Genetics. 2007;176:543-52 pubmed..simulans and D. sechellia but not in D. mauritiana. The genetic properties of Nup96 are also discussed relative to other hybrid lethal genes. ..
- York T, Durrett R, Nielsen R. Dependence of paracentric inversion rate on tract length. BMC Bioinformatics. 2007;8:115 pubmed..Application of this method for a number of data sets may help elucidate the relationship between the length of an inversion and the chance that it will get accepted. ..
- Lazzaro B. Elevated polymorphism and divergence in the class C scavenger receptors of Drosophila melanogaster and D. simulans. Genetics. 2005;169:2023-34 pubmed publisher..Interestingly, Sr-CIII and Sr-CIV are polymorphic for premature stop codons. Sr-CIV is also polymorphic for an in-frame 101-codon deletion and for the absence of one intron...
- Schwartz B, Larochelle S, Suter B, Lis J. Cdk7 is required for full activation of Drosophila heat shock genes and RNA polymerase II phosphorylation in vivo. Mol Cell Biol. 2003;23:6876-86 pubmed..The requirement for Cdk7 occurs very early in the transcription cycle. Furthermore, we provide evidence that TFIIH associates with the elongation complex much longer than previously suspected. ..
- Lis J. Promoter-associated pausing in promoter architecture and postinitiation transcriptional regulation. Cold Spring Harb Symp Quant Biol. 1998;63:347-56 pubmed
- Sackton T, Clark A. Comparative profiling of the transcriptional response to infection in two species of Drosophila by short-read cDNA sequencing. BMC Genomics. 2009;10:259 pubmed publisher..virilis hemolymph and validate our transcriptional data. These results suggest that the acquisition of novel components of the immune system, and particularly novel effector proteins, may be a common evolutionary phenomenon. ..
- Lin G, Kozaki T, Scott J. Hormone receptor-like in 96 and Broad-Complex modulate phenobarbital induced transcription of cytochrome P450 CYP6D1 in Drosophila S2 cells. Insect Mol Biol. 2011;20:87-95 pubmed publisher..This represents new functional evidence that Drosophila HR96 and BR-C can act as an activator and repressor, respectively, in regulating PB induced transcription in insects. ..
- Christensen T, Tye B. Drosophila MCM10 interacts with members of the prereplication complex and is required for proper chromosome condensation. Mol Biol Cell. 2003;14:2206-15 pubmed..The condensation defects observed resemble previously published reports for Orc2, Orc5, and Mcm4 mutants. Our results strengthen and extend the argument that the processes of chromatin condensation and DNA replication are linked. ..
- Kim S, Shi H, Lee D, Lis J. Specific SR protein-dependent splicing substrates identified through genomic SELEX. Nucleic Acids Res. 2003;31:1955-61 pubmed..These results indicate that B52 has unique functions in the removal of some introns during development, and plays a critical role in cellular regulatory networks. ..
- Vilinsky I, Stewart B, Drummond J, Robinson I, Deitcher D. A Drosophila SNAP-25 null mutant reveals context-dependent redundancy with SNAP-24 in neurotransmission. Genetics. 2002;162:259-71 pubmed..These results suggest that the apparent redundancy between SNAP-25 and SNAP-24 is due to inappropriate genetic substitution. ..
- Andrulis E, Guzman E, Döring P, Werner J, Lis J. High-resolution localization of Drosophila Spt5 and Spt6 at heat shock genes in vivo: roles in promoter proximal pausing and transcription elongation. Genes Dev. 2000;14:2635-49 pubmed..These findings provide support for the roles of Spt5 in promoter-associated pausing and of Spt5 and Spt6 in transcriptional elongation in vivo. ..
- Watts J, Etemad Moghadam B, Guo S, Boyd L, Draper B, Mello C, et al. par-6, a gene involved in the establishment of asymmetry in early C. elegans embryos, mediates the asymmetric localization of PAR-3. Development. 1996;122:3133-40 pubmed..In addition, we find that loss-of-function par-6 mutations act as dominant bypass suppressors of loss-of-function mutations in par-2. ..
- Horner V, Czank A, Jang J, Singh N, Williams B, Puro J, et al. The Drosophila calcipressin sarah is required for several aspects of egg activation. Curr Biol. 2006;16:1441-6 pubmed..We also find the conversion of the sperm nucleus into a functional male pronucleus is compromised in sarah mutant eggs, indicating that the Drosophila egg's competence to support male pronuclear maturation is acquired during activation. ..
- Zhang M, Montooth K, Wells M, Clark A, Zhang D. Mapping multiple Quantitative Trait Loci by Bayesian classification. Genetics. 2005;169:2305-18 pubmed publisher..A simulation study demonstrated the power of this approach across levels of trait heritability and when marker data were sparse...
- Aquadro C, Lado K, Noon W. The rosy region of Drosophila melanogaster and Drosophila simulans. I. Contrasting levels of naturally occurring DNA restriction map variation and divergence. Genetics. 1988;119:875-88 pubmed
- Begun D, Aquadro C. Molecular population genetics of the distal portion of the X chromosome in Drosophila: evidence for genetic hitchhiking of the yellow-achaete region. Genetics. 1991;129:1147-58 pubmed..simulans and D. melanogaster. We conclude that recent hitchhiking associated with the selective fixation of one or more advantageous mutants in the y-ac region is the best explanation for reduced variation at y-ac...