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      Evidence for a hierarchical transcriptional circuit in Drosophila male germline involving testis-specific TAF and two gene-specific transcription factors, Mod and Acj6

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          Abstract

          To analyse transcription factors involved in gene regulation by testis-specific TAF (tTAF), tTAF-dependent promoters were mapped and analysed in silico. Core promoters show decreased AT content, paucity of classical promoter motifs, and enrichment with translation control element CAAAATTY. Scanning of putative regulatory regions for known position frequency matrices identified nineteen transcription regulators possibly contributing to tTAF-driven gene expression. Decreased male fertility associated with mutation in one of the regulators, Acj6, indicates its involvement in male reproduction. Transcriptome study of testes from male mutants for tTAF, Acj6, and previously characterized tTAF-interacting factor Modulo implies the existence of a regulatory hierarchy of tTAF, Modulo and Acj6, in which Modulo and/or Acj6 regulate one-third of tTAF-dependent genes.

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          Most cited references42

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          Gene Ontology: tool for the unification of biology

          Genomic sequencing has made it clear that a large fraction of the genes specifying the core biological functions are shared by all eukaryotes. Knowledge of the biological role of such shared proteins in one organism can often be transferred to other organisms. The goal of the Gene Ontology Consortium is to produce a dynamic, controlled vocabulary that can be applied to all eukaryotes even as knowledge of gene and protein roles in cells is accumulating and changing. To this end, three independent ontologies accessible on the World-Wide Web (http://www.geneontology.org) are being constructed: biological process, molecular function and cellular component.
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            JASPAR: an open-access database for eukaryotic transcription factor binding profiles.

            The analysis of regulatory regions in genome sequences is strongly based on the detection of potential transcription factor binding sites. The preferred models for representation of transcription factor binding specificity have been termed position-specific scoring matrices. JASPAR is an open-access database of annotated, high-quality, matrix-based transcription factor binding site profiles for multicellular eukaryotes. The profiles were derived exclusively from sets of nucleotide sequences experimentally demonstrated to bind transcription factors. The database is complemented by a web interface for browsing, searching and subset selection, an online sequence analysis utility and a suite of programming tools for genome-wide and comparative genomic analysis of regulatory regions. JASPAR is available at http://jaspar. cgb.ki.se.
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              Using FlyAtlas to identify better Drosophila melanogaster models of human disease.

              FlyAtlas, a new online resource, provides the most comprehensive view yet of expression in multiple tissues of Drosophila melanogaster. Meta-analysis of the data shows that a significant fraction of the genome is expressed with great tissue specificity in the adult, demonstrating the need for the functional genomic community to embrace a wide range of functional phenotypes. Well-known developmental genes are often reused in surprising tissues in the adult, suggesting new functions. The homologs of many human genetic disease loci show selective expression in the Drosophila tissues analogous to the affected human tissues, providing a useful filter for potential candidate genes. Additionally, the contributions of each tissue to the whole-fly array signal can be calculated, demonstrating the limitations of whole-organism approaches to functional genomics and allowing modeling of a simple tissue fractionation procedure that should improve detection of weak or tissue-specific signals.
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                Author and article information

                Journal
                0155157
                3696
                FEBS Lett
                FEBS Lett.
                FEBS letters
                0014-5793
                1873-3468
                13 December 2017
                27 December 2017
                January 2018
                01 January 2019
                : 592
                : 1
                : 46-59
                Affiliations
                [1 ]Shanghai Tenth People's Hospital, Tongji University School of Medicine, Shanghai, China
                [2 ]Advanced Institute of Translational Medicine, Tongji University School of Medicine, Shanghai, China
                [3 ]Key Laboratory of Aquaculture Resources and Utilization, Ministry of Education, College of Fisheries and Life Science, Shanghai Ocean University, Shanghai, China
                [4 ]Department of Biochemistry and Molecular Biology, School of Medicine, University of Maryland, Baltimore, MD, USA
                Author notes
                Correspondence: Mei Jiang, Shanghai Tenth People's Hospital, Tongji University School of Medicine, 301 Yanchangzhong Road, Shanghai 200072, China. Tel: +86(21) 55897392, Fax: +86(21) 55897392, 042023070@ 123456fudan.edu.cn
                Article
                PMC5785934 PMC5785934 5785934 nihpa926864
                10.1002/1873-3468.12937
                5785934
                29235675
                542a0a6e-9157-431c-8899-2918e0a5abaa
                History
                Categories
                Article

                testis-specific TAF,gene-specific transcription regulator,spermatogenesis,hierarchical transcriptional circuit, Drosophila

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