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  • 1
    Publication Date: 2008-10-22
    Description: In all animals, the initial events of embryogenesis are controlled by maternal gene products that are deposited into the developing oocyte. At some point after fertilization, control of embryogenesis is transferred to the zygotic genome in a process called the maternal-to-zygotic transition. During this time, many maternal RNAs are degraded and transcription of zygotic RNAs ensues. There is a long-standing question as to which factors regulate these events. The recent findings that microRNAs and Smaug mediate maternal transcript degradation have shed new light on this aspect of the problem. However, the transcription factor(s) that activate the zygotic genome remain elusive. The discovery that many of the early transcribed genes in Drosophila share a cis-regulatory heptamer motif, CAGGTAG and related sequences, collectively referred to as TAGteam sites raised the possibility that a dedicated transcription factor could interact with these sites to activate transcription. Here we report that the zinc-finger protein Zelda (Zld; Zinc-finger early Drosophila activator) binds specifically to these sites and is capable of activating transcription in transient transfection assays. Mutant embryos lacking zld are defective in cellular blastoderm formation, and fail to activate many genes essential for cellularization, sex determination and pattern formation. Global expression profiling confirmed that Zld has an important role in the activation of the early zygotic genome and suggests that Zld may also regulate maternal RNA degradation during the maternal-to-zygotic transition.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2597674/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2597674/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Liang, Hsiao-Lan -- Nien, Chung-Yi -- Liu, Hsiao-Yun -- Metzstein, Mark M -- Kirov, Nikolai -- Rushlow, Christine -- GM63024/GM/NIGMS NIH HHS/ -- R01 GM063024/GM/NIGMS NIH HHS/ -- R01 GM063024-01A1/GM/NIGMS NIH HHS/ -- R01 GM063024-02/GM/NIGMS NIH HHS/ -- R01 GM063024-03/GM/NIGMS NIH HHS/ -- R01 GM063024-04/GM/NIGMS NIH HHS/ -- R01 GM063024-05/GM/NIGMS NIH HHS/ -- England -- Nature. 2008 Nov 20;456(7220):400-3. doi: 10.1038/nature07388. Epub 2008 Oct 19.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Biology, New York University, 100 Washington Square East, New York, New York 10003, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/18931655" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Blastoderm/cytology/embryology/metabolism ; Body Patterning/genetics ; Drosophila Proteins/deficiency/genetics/*metabolism ; Drosophila melanogaster/cytology/*embryology/*genetics ; Female ; Gene Deletion ; Gene Expression Profiling ; *Gene Expression Regulation, Developmental ; Genome, Insect/*genetics ; Male ; RNA Stability ; RNA, Messenger, Stored/genetics/metabolism ; Sex Determination Processes ; Transcription Factors/deficiency/genetics/*metabolism ; Transcriptional Activation ; *Zinc Fingers ; Zygote/cytology/growth & development/*metabolism
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 2
    Publication Date: 2012-08-04
    Description: Faithful annotation of tissue-specific transcript isoforms is important not only to understand how genes are organized and regulated but also to identify potential novel, unannotated exons of genes, which may be additional targets of mutation in disease states or while performing mutagenic screens. We have developed a microarray enrichment methodology followed by long-read, next-generation sequencing for identification of unannotated transcript isoforms expressed in two Drosophila tissues, the ovary and the testis. Even with limited sequencing, these studies have identified a large number of novel transcription units, including 5' exons and extensions, 3' exons and extensions, internal exons and exon extensions, gene fusions, and both germline-specific splicing events and promoters. Additionally, comparing our capture dataset with tiling array and traditional RNA-seq analysis, we demonstrate that our enrichment strategy is able to capture low-abundance transcripts that cannot readily be identified by the other strategies. Finally, we show that our methodology can help identify transcriptional signatures of minority cell types within the ovary that would otherwise be difficult to reveal without the CoNECT enrichment strategy. These studies introduce an efficient methodology for cataloging tissue-specific transcriptomes in which specific classes of genes or transcripts can be targeted for capture and sequence, thus reducing the significant sequencing depth normally required for accurate annotation.
    Electronic ISSN: 2160-1836
    Topics: Biology
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