The CrebA/Creb3-like transcription factors are major and direct regulators of secretory capacity

Fox, Rebecca; Hanlon, Caitlin D.; Andrew, Deborah J.

doi:10.1083/jcb.201004062

Cited by 126 publications

(203 citation statements)

References 45 publications

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“…For qualitative evaluation, 16 interactions from the Drosophila Interactions Database (DROID) [13], version 2010 10, are considered gold-standard. Additional data types are also integrated: (i) knockout experiments for 8 genes, which were used to compute log-ratios against wild-type experiments [11,5,20,4,6], (ii) pair-wise correlation between gene expression patterns, (iii) Gene Ontology (GO) [14] annotations, which assign the function of transcriptional regulation to 17 of these genes and (iv) binding site affinities for 11 transcription factors (computed using known cis-regulatory modules and position specific weight matrices -PSWMs [15,2]). …”

Section: Datamentioning

confidence: 99%

EGIA – Evolutionary Optimisation of Gene Regulatory Networks, an Integrative Approach

2014

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Quantitative modelling of gene regulatory networks (GRNs) is still limited by data issues such as noise and the restricted length of available time series, creating an under-determination problem. However, large amounts of other types of biological data and knowledge are available, such as knockout experiments, annotations and so on, and it has been postulated that integration of these can improve model quality. However, integration has not been fully explored to date. Here, we present a novel integrative framework for different types of data that aims to enhance model inference. This is based on evolutionary computation and uses different types of knowledge to introduce a novel customised initialisation and mutation operator and complex evaluation criteria, used to distinguish between candidate models. Specifically, the algorithm uses information from (i) knockout experiments, (ii) annotations of transcription factors, (iii) binding site motifs (expressed as position weight matrices) and (iv) DNA sequence of gene promoters, to drive the algorithm towards more plausible network structures. Further, the evaluation basis is also extended to include structure information included in these additional data. This framework is applied to both synthetic and real gene expression data. Models obtained by data integration display both quantitative and qualitative improvement.

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Section: Datamentioning

confidence: 99%

EGIA – Evolutionary Optimisation of Gene Regulatory Networks, an Integrative Approach

2014

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“…CrebA can bind directly to the enhancers of genes encoding components in secretory pathways and upregulate the expression of genes encoding both the general protein machinery required for secretion and of cell type-specific secreted proteins (Fox et al, 2010). Consistent with the role of CrebA in salivary gland secretion, lumens of CrebA mutant embryos are smaller and have reduced secretory material (Fox et al, 2010).…”

Section: Mechanisms Of Lumen Development In Drosophila Tubular Organsmentioning

confidence: 66%

“…Fkh regulates the expression of sage, encoding a salivary gland specific basic helix-loop-helix (bHLH) protein, and functions with Sage to directly regulate the expression of PH4 SG2 and to indirectly regulate the expression of PH4 SG1 (Abrams et al, 2006). In addition to Fkh, secretory activity in the Drosophila salivary glands is controlled by CrebA which belongs to the CrebA/Creb3-like family of bZip transcription factors (Abrams and Andrew, 2005;Andrew et al, 1997;Fox et al, 2010). CrebA can bind directly to the enhancers of genes encoding components in secretory pathways and upregulate the expression of genes encoding both the general protein machinery required for secretion and of cell type-specific secreted proteins (Fox et al, 2010).…”

Section: Mechanisms Of Lumen Development In Drosophila Tubular Organsmentioning

confidence: 99%

“…In addition to Fkh, secretory activity in the Drosophila salivary glands is controlled by CrebA which belongs to the CrebA/Creb3-like family of bZip transcription factors (Abrams and Andrew, 2005;Andrew et al, 1997;Fox et al, 2010). CrebA can bind directly to the enhancers of genes encoding components in secretory pathways and upregulate the expression of genes encoding both the general protein machinery required for secretion and of cell type-specific secreted proteins (Fox et al, 2010). Consistent with the role of CrebA in salivary gland secretion, lumens of CrebA mutant embryos are smaller and have reduced secretory material (Fox et al, 2010).…”

Section: Mechanisms Of Lumen Development In Drosophila Tubular Organsmentioning

confidence: 99%

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Mechanisms of Lumen Development in Drosophila Tubular Organs

Xu¹,

Pirraglia²,

Patel³

et al. 2012

Embryogenesis

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“…C. elegans contains three bZIP transcription factors, and although the degree of homology is less than that within the mammalian family, these proteins are most closely related to ATF6, OASIS and Luman (23,24). In Drosophila, two bZIP transcription factors are most closely related to ATF6 and OASIS (23). In vertebrates, cells are diversely differentiated to play proper roles for various biological phenomena, and also adapt to environmental parameters.…”

Section: Transmembrane Bzip Transcription Factors Activated By Regulamentioning

confidence: 99%

Physiological unfolded protein response regulated by OASIS family members, transmembrane bZIP transcription factors

et al. 2011

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SummaryThe endoplasmic reticulum (ER) plays role in the maintenance of numerous aspects of cellular and organismal homeostasis by folding, modifying, and exporting nascent secretory and transmembrane proteins. Failure of the ER's adaptive capacity results in accumulation of unfolded or malfolded proteins in the ER lumen (ER stress). To avoid cellular damage, mammalian cells activate the specific signals from the ER to the cytosol or nucleus to enhance the capacity for protein folding, attenuate the synthesis of proteins, and degrade unfolded proteins. These signaling pathways are collectively known as the unfolded protein response (UPR). The canonical branches of the UPR are mediated by three ER membrane-bound proteins, PERK, IRE1, and ATF6. These ER stress transducers basically play important roles in cell survival after ER stress. Recently, novel types of ER stress transducers, OASIS family members that share a region of high sequence similarity with ATF6 have been identified. They have a transmembrane domain, which allows them to associate with the ER, and possess a transcription-activation domain and a bZIP domain. OASIS family proteins include OASIS, BBF2H7, CREBH, AIbZIP, and Luman. Despite the structural similarities among OASIS family proteins and ATF6, differences in activating stimuli, tissue distribution, and response element binding indicate specialized functions of each member on regulating the UPR in the specific organs and tissues. Here, we summarize our current understanding of biochemical characteristics and in vivo functions of OASIS family proteins, particularly focusing on OASIS and BBF2H7. A growing body of new works suggests that the UPR branches regulated by OASIS family members play essential roles in cell differentiation and maturation or maintenance of basal cellular homeostasis in mammals.

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The CrebA/Creb3-like transcription factors are major and direct regulators of secretory capacity

Abstract: CrebA up-regulates expression of both the general protein machinery required in all cells for secretion and genes encoding cell type–specific secreted components.

Cited by 126 publications

References 45 publications

EGIA – Evolutionary Optimisation of Gene Regulatory Networks, an Integrative Approach

EGIA – Evolutionary Optimisation of Gene Regulatory Networks, an Integrative Approach

Mechanisms of Lumen Development in Drosophila Tubular Organs

Physiological unfolded protein response regulated by OASIS family members, transmembrane bZIP transcription factors

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