TITLE

Biological function of unannotated transcription during the early development of Drosophila melanogaster

AUTHOR(S)
Manak, J. Robert; Dike, Sujit; Sementchenko, Victor; Kapranov, Philipp; Biemar, Frederic; Long, Jeff; Cheng, Jill; Bell, Ian; Ghosh, Srinka; Piccolboni, Antonio; Gingeras, Thomas R.
PUB. DATE
October 2006
SOURCE
Nature Genetics;Oct2006, Vol. 38 Issue 10, p1151
SOURCE TYPE
Academic Journal
DOC. TYPE
Article
ABSTRACT
Many animal and plant genomes are transcribed much more extensively than current annotations predict. However, the biological function of these unannotated transcribed regions is largely unknown. Approximately 7% and 23% of the detected transcribed nucleotides during D. melanogaster embryogenesis map to unannotated intergenic and intronic regions, respectively. Based on computational analysis of coordinated transcription, we conservatively estimate that 29% of all unannotated transcribed sequences function as missed or alternative exons of well-characterized protein-coding genes. We estimate that 15.6% of intergenic transcribed regions function as missed or alternative transcription start sites (TSS) used by 11.4% of the expressed protein-coding genes. Identification of P element mutations within or near newly identified 5′ exons provides a strategy for mapping previously uncharacterized mutations to their respective genes. Collectively, these data indicate that at least 85% of the fly genome is transcribed and processed into mature transcripts representing at least 30% of the fly genome.
ACCESSION #
22542873

 

Related Articles

  • Creation of a new system to study insulators in Drosophila melanogaster. Erokhin, M. M.; Georgiev, P. G.; Chetverina, D. A. // Doklady Biochemistry & Biophysics;Oct2009, Vol. 428 Issue 1, p229 

    The article presents the results of a study on the characteristics of transcription activators, repressors and insulators in Drosophila melanogaster (D. melanogaster). D. melanogaster contains polycomb responsible element (PRE) that affects the transcription level. Results of the research show...

  • Hit and run: X marks the spot! Weake, Vikki M.; Workman, Jerry L. // Nature Structural & Molecular Biology;Aug2009, Vol. 16 Issue 8, p801 

    The article discusses the study by M. E. Galbert and colleagues on the distribution of histone acetylation mark associated in the upregulation of male fruitflies with single X chromosome to equalize with two X chromosomes in females. It notes that dosage compensation enables the transcription of...

  • Pleiotropic consequences of misexpression of the developmentally active and stress-inducible non-coding hsrω gene in Drosophila. Mallik, Moushami; Lakhotia, Subhash // Journal of Biosciences;Jun2011, Vol. 36 Issue 2, p265 

    The non-coding hsrω gene of Drosophila melanogaster is expressed in nearly all cell types and developmental stages. However, in the absence of conventional mutant alleles of this gene, its developmental functions remain largely unknown. In the present study, we used a variety of GAL4 drivers...

  • Transcription factor Comr acts as a direct activator in the genetic program controlling spermatogenesis in D. melanogaster. Laktionov, P.; White-Cooper, H.; Maksimov, D.; Belyakin, S. // Molecular Biology;Jan2014, Vol. 48 Issue 1, p130 

    In Drosophila melanogaster differentiation of the male germ cells is accompanied by chromatin rearrangement and activation of the specific genes. These processes are regulated by few transcription factors that belong to two classes, can and aly that form distinct functional complexes. Mechanisms...

  • Diversity and dynamics of the Drosophila transcriptome. Brown, James B.; Boley, Nathan; Eisman, Robert; May, Gemma E.; Stoiber, Marcus H.; Duff, Michael O.; Booth, Ben W.; Wen, Jiayu; Park, Soo; Suzuki, Ana Maria; Wan, Kenneth H.; Yu, Charles; Zhang, Dayu; Carlson, Joseph W.; Cherbas, Lucy; Eads, Brian D.; Miller, David; Mockaitis, Keithanne; Roberts, Johnny; Davis, Carrie A. // Nature;8/28/2014, Vol. 512 Issue 7515, p393 

    Animal transcriptomes are dynamic, with each cell type, tissue and organ system expressing an ensemble of transcript isoforms that give rise to substantial diversity. Here we have identified new genes, transcripts and proteins using poly(A)+ RNA sequencing from Drosophila melanogaster in...

  • Dynamics of hnRNPs and omega speckles in normal and heat shocked live cell nuclei of Drosophila melanogaster. Singh, Anand; Lakhotia, Subhash // Chromosoma;Sep2015, Vol. 124 Issue 3, p367 

    The nucleus limited long-noncoding hsrω-n transcripts, hnRNPs, and some other RNA processing proteins organize nucleoplasmic omega speckles in Drosophila. Unlike other nuclear speckles, omega speckles rapidly disappear following cell stress, while hnRNPs and other associated proteins move...

  • Genome-scale functional characterization of Drosophila developmental enhancers in vivo. Kvon, Evgeny Z.; Kazmar, Tomas; Stampfel, Gerald; Yáñez-Cuna, J. Omar; Pagani, Michaela; Schernhuber, Katharina; Dickson, Barry J.; Stark, Alexander // Nature;8/6/2014, Vol. 512 Issue 7512, p91 

    Transcriptional enhancers are crucial regulators of gene expression and animal development and the characterization of their genomic organization, spatiotemporal activities and sequence properties is a key goal in modern biology. Here we characterize the in vivo activity of 7,705 Drosophila...

  • Structural basis for the assembly of the Sxl-Unr translation regulatory complex. Hennig, Janosch; Popowicz, Grzegorz M.; Wang, Iren; Sonntag, Miriam; Sattler, Michael; Militti, Cristina; Gebauer, Fátima; Geerlof, Arie; Gabel, Frank // Nature;11/13/2014, Vol. 515 Issue 7526, p287 

    Genetic equality between males and females is established by chromosome-wide dosage-compensation mechanisms. In the fruitfly Drosophila melanogaster, the dosage-compensation complex promotes twofold hypertranscription of the single male X-chromosome and is silenced in females by inhibition of...

  • Expression of hp1 family genes and their plausible role in formation of flamenco phenotype in D. melanogaster. Lavrenov, A.; Nefedova, L.; Romanova, N.; Kim, A. // Biochemistry (00062979);Nov2014, Vol. 79 Issue 11, p1267 

    Results of expression analysis of transcription of the flamenco locus that controls transposition of the mobile genetic element gypsy, RNA interference system genes ago3, zuc, aub, and HP1 heterochromatin protein family genes hp1a, hp1b, hp1c, hp1d ( rhino), and hp1e in D. melanogaster SS strain...

Share

Read the Article

Courtesy of THE LIBRARY OF VIRGINIA

Sorry, but this item is not currently available from your library.

Try another library?
Sign out of this library

Other Topics