Inducible gene expression: diverse regulatory mechanisms

Weake, Vikki M.; Workman, Jerry L.

doi:10.1038/nrg2781

Cited by 329 publications

(277 citation statements)

References 113 publications

Supporting

Mentioning

273

Contrasting

Unclassified

Order By: Relevance

“…In general, activators are sequence-specific DNA-binding proteins whose recognition sites are typically present upstream of the core promoter. Activators work in large part by increasing PIC formation but can also act through other mechanisms, such as accelerating the rate of transcriptional elongation, promoting multiple rounds of transcription and directing chromatin modifications (reviewed in Green, 2005; Fuda et al, 2009; Weake and Workman, 2010). …”

Section: Introductionmentioning

confidence: 99%

Non-canonical TAF complexes regulate active promoters in human embryonic stem cells

Maston

Zhu

Chamberlain

et al. 2012

eLife

View full text Add to dashboard Cite

The general transcription factor TFIID comprises the TATA-box-binding protein (TBP) and approximately 14 TBP-associated factors (TAFs). Here we find, unexpectedly, that undifferentiated human embryonic stem cells (hESCs) contain only six TAFs (TAFs 2, 3, 5, 6, 7 and 11), whereas following differentiation all TAFs are expressed. Directed and global chromatin immunoprecipitation analyses reveal an unprecedented promoter occupancy pattern: most active genes are bound by only TAFs 3 and 5 along with TBP, whereas the remaining active genes are bound by TBP and all six hESC TAFs. Consistent with these results, hESCs contain a previously undescribed complex comprising TAFs 2, 6, 7, 11 and TBP. Altering the composition of hESC TAFs, either by depleting TAFs that are present or ectopically expressing TAFs that are absent, results in misregulated expression of pluripotency genes and induction of differentiation. Thus, the selective expression and use of TAFs underlies the ability of hESCs to self-renew.DOI: http://dx.doi.org/10.7554/eLife.00068.001

show abstract

Section: Introductionmentioning

confidence: 99%

Non-canonical TAF complexes regulate active promoters in human embryonic stem cells

Maston

Zhu

Chamberlain

et al. 2012

eLife

View full text Add to dashboard Cite

show abstract

“…Using the model plant Arabidopsis, two ER membrane-associated transcription factors, bZIP28 and bZIP60, were identified as the plant counterparts of mamalian ATF6 and XBP1, which are activated through the regulated intramembrane proteolysis and unconventional splicing in response to ER stress, respectively (31)(32)(33). In general, when the membrane-associated transcription factors are activated, they recruit general transcription factors (GTFs) and RNA polymerase II (RNAPII) machinery (34) to the promoters of ER stress-responsive genes during transcription activation. For these protein factors to access the promoter DNA, physical barriers formed by chromatin must be altered through histone modifiers or chromatin remodeling factors .…”

Section: Significancementioning

confidence: 99%

Transcription factor interaction with COMPASS-like complex regulates histone H3K4 trimethylation for specific gene expression in plants

Song

Sun

et al. 2015

Proc. Natl. Acad. Sci. U.S.A.

102

View full text Add to dashboard Cite

Accumulation of unfolded or misfolded proteins causes endoplasmic reticulum (ER) stress, which activates a set of ER membraneassociated transcription factors for protein homeostasis regulation. Previous genome-wide chromatin immunoprecipitation analysis shows a strong correlation between histone H3K4 trimethylation (H3K4me3) and active gene expression. However, how the histone modification complex is specifically and timely recruited to the active promoters remains unknown. Using ER stress responsive gene expression as a model system, we demonstrate that sequencespecific transcription factors interact with COMPASS-like components and affect H3K4me3 formation at specific target sites in Arabidopsis. Gene profiling analysis reveals that membrane-associated basic leucine zipper (bZIP) transcription factors bZIP28 and bZIP60 regulate most of the ER stress responsive genes. Loss-offunctions of bZIP28 and bZIP60 impair the occupancy of H3K4me3 on promoter regions of ER stress responsive genes. Further, in vitro pull-down assays and in vivo bimolecular fluorescence complementation (BiFC) experiments show that bZIP28 and bZIP60 interact with Ash2 and WDR5a, both of which are core COMPASS-like components. Knockdown expression of either Ash2 or WDR5a decreased the expression of several ER stress responsive genes. The COMPASSlike complex is known to interact with histone methyltransferase to facilitate preinitiation complex (PIC) assembly and generate H3K4me3 during transcription elongation. Thus, our data shows that the ER stress stimulus causes the formation of PIC and deposition of H3K4me3 mark at specific promoters through the interaction between transcription factor and COMPASS-like components.COMPASS-like | ER stress | H3K4 trimethylation | transcription factor | unfolded protein response

show abstract

“…RNAPII is responsible for transcribing protein-coding genes, whereas RNAPI and III are responsible for synthesizing rRNA and tRNA, respectively. Here we focus on transcription by RNAPII (referred to as RNAP from now on), which has been subject to intensive investigations (Kadonaga, 2004;Sims et al, 2004b;Malik and Roeder, 2010;Weake and Workman, 2010;Nechaev and Adelman, 2011). We will discuss mechanisms leading to increased levels of transcription, a process called activation.…”

Section: Introductionmentioning

confidence: 99%

“…It also contains co-factors and chromatin modifying/remodeling factors that are part of the RNAP holoenzyme. Many of these additional factors play important roles in mediating transcription regulation by responding to regulatory proteins (Naar et al, 2001;Narlikar et al, 2002;Levine and Tjian, 2003;Roeder, 2000, 2010;Weake and Workman, 2010).…”

Section: Introductionmentioning

confidence: 99%

Transcriptional activators and activation mechanisms

2011

Protein Cell

View full text Add to dashboard Cite

show abstract

Inducible gene expression: diverse regulatory mechanisms

Cited by 329 publications

References 113 publications

Non-canonical TAF complexes regulate active promoters in human embryonic stem cells

Non-canonical TAF complexes regulate active promoters in human embryonic stem cells

Transcription factor interaction with COMPASS-like complex regulates histone H3K4 trimethylation for specific gene expression in plants

Transcriptional activators and activation mechanisms

Contact Info

Product

Resources

About