Arabidopsis mRNA polyadenylation machinery: comprehensive analysis of protein-protein interactions and gene expression profiling

Hunt, Arthur G.; Xu, Ruqiang; Addepalli, Balasubrahmanyam; Rao, Suguna; Forbes, Kevin P.; Meeks, Lisa R.; Xing, Denghui; Mo, Min; Zhao, Hongwei; Bandyopadhyay, Amrita; Dampanaboina, Lavanya; Marion, Amanda; Lanken, Carol Von; Li, Qingshun Quinn

doi:10.1186/1471-2164-9-220

Cited by 96 publications

(149 citation statements)

References 43 publications

Supporting

Mentioning

139

Contrasting

Unclassified

Order By: Relevance

“…4, lane 1). As shown in lane 1, both the TAP-tagged and native AtCPSF30 were identified at similar strength, suggesting that AtCPSF30 may exist as a dimer in CPSF (Hunt et al, 2008). AtFIPS5 was not confirmed by immunoblotting because of the lack of a specific antibody.…”

Section: Components Of the Arabidopsis Cpsf Complex Revealed By Protementioning

confidence: 96%

“…It has been observed that some Arabidopsis CPSF orthologs, such as AtCPSF160, AtCPSF100, AtCPSF73-I, AtCPSF73-II, and AtCPSF30, are all localized in the nucleus (Delaney et al, 2006;Xu et al, 2006), which indicates that they might coexist in the same complex. Y2H assay data show some pairwise interactions between CPSF factors as well (Hunt et al, 2008). However, whether or not these proteins form a protein complex in vivo is not clear.…”

Section: Components Of the Arabidopsis Cpsf Complex Revealed By Protementioning

confidence: 99%

“…(1) In this study, AtCPSF100 is one of the most frequently occurring proteins from different TAP purifications: AtCPSF100 appeared in all of the TAP purifications, except that of AtCPSF30 (Table I; Hunt et al, 2008). (3) AtCPSF100 has been observed interacting with other Arabidopsis CPSF factors, such as AtCPSF160, AtCPSF73-I, and AtCPSF73-II in vitro pull-down assays .…”

Section: An Arabidopsis Cpsf Modelmentioning

confidence: 99%

“…In the protein pool copurified with AtCPSF73-I, several Arabidopsis polyadenylation factors whose orthologs in yeast or mammals have known polyadenylation-related functions were discovered (Hunt et al, 2008). These proteins include AtCPSF73-I, AtCPSF100, and AtCLPS3 (Supplemental Table S3).…”

Section: Components Of the Arabidopsis Cpsf Complex Revealed By Protementioning

confidence: 99%

“…The identities of the subunits of plant CPSF have been previously predicted using bioinformatics approaches, and their pair-wise interactions have been shown by yeast two-hybrid (Y2H) and in vitro pulldown assays Hunt et al, 2008). However, direct evidence that these proteins exist and interact as a complex in vivo would be best studied by isolating the protein complex through immunoprecipitation or affinity purification.…”

Section: Expression Of Arabidopsis Cpsf By Tap Taggingmentioning

confidence: 99%

See 4 more Smart Citations

Unique Features of Plant Cleavage and Polyadenylation Specificity Factor Revealed by Proteomic Studies

Zhao

Xing

2009

Plant Physiology

Self Cite

View full text Add to dashboard Cite

Cleavage and polyadenylation of precursor mRNA is an essential process for mRNA maturation. Among the 15 to 20 protein factors required for this process, a subgroup of proteins is needed for both cleavage and polyadenylation in plants and animals. This subgroup of proteins is known as the cleavage and polyadenylation specificity factor (CPSF). To explore the in vivo structural features of plant CPSF, we used tandem affinity purification methods to isolate the interacting protein complexes for each component of the CPSF subunits using Arabidopsis (Arabidopsis thaliana ecotype Landsberg erecta) suspension culture cells. The proteins in these complexes were identified by mass spectrometry and western immunoblots. By compiling the in vivo interaction data from tandem affinity purification tagging as well as other available yeast two-hybrid data, we propose an in vivo plant CPSF model in which the Arabidopsis CPSF possesses AtCPSF30, AtCPSF73-I, AtCPSF73-II, AtCPSF100, AtCPSF160, AtFY, and AtFIPS5. Among them, AtCPSF100 serves as a core with which all other factors, except AtFIPS5, are associated. These results show that plant CPSF possesses distinct features, such as AtCPSF73-II and AtFY, while sharing other ortholog components with its yeast and mammalian counterparts. Interestingly, these two unique plant CPSF components have been associated with embryo development and flowering time controls, both of which involve plant-specific biological processes.

show abstract

Section: Components Of the Arabidopsis Cpsf Complex Revealed By Protementioning

confidence: 96%

Section: Components Of the Arabidopsis Cpsf Complex Revealed By Protementioning

confidence: 99%

Section: An Arabidopsis Cpsf Modelmentioning

confidence: 99%

Section: Components Of the Arabidopsis Cpsf Complex Revealed By Protementioning

confidence: 99%

Section: Expression Of Arabidopsis Cpsf By Tap Taggingmentioning

confidence: 99%

See 3 more Smart Citations

Unique Features of Plant Cleavage and Polyadenylation Specificity Factor Revealed by Proteomic Studies

Zhao

Xing

2009

Plant Physiology

Self Cite

View full text Add to dashboard Cite

show abstract

Tissue‐specific mechanisms of alternative polyadenylation: Testis, brain, and beyond (2018 update)

MacDonald

2019

WIREs RNA

View full text Add to dashboard Cite

Alternative polyadenylation (APA) is how genes choose different sites for 3′ end formation for mRNAs during transcription. APA often occurs in a tissue‐ or developmental stage‐specific manner that can significantly affect gene activity by changing the protein product generated, the stability of the transcript, its localization within the cell, or its translatability. Despite the important regulatory effects that APA has on tissue‐specific gene expression, only a few examples have been characterized mechanistically. In this 2018 update to our 2010 review, we examine mechanisms for the control of APA and update our understanding of the older mechanisms since 2010. We once postulated the existence of tissue‐specific factors in APA. However, while a few tissue‐specific polyadenylation factors are known, the emerging conclusion is that the majority of APA is accomplished by altering levels of core polyadenylation proteins. Examples of those core proteins include CSTF2, CPSF1, and subunits of mammalian cleavage factor I. But despite support for these mechanisms, no one has yet documented any of these proteins changing in either a tissue‐specific or developmental manner. Given the profound effect that APA can have on gene expression and human health, improved understanding of tissue‐specific APA could lead to numerous advances in gene activity control. This article is categorized under: RNA Processing > 3′ End Processing RNA in Disease and Development > RNA in Development

show abstract

mRNA 3′ end formation in plants: Novel connections to growth, development and environmental responses

Hunt

2019

WIREs RNA

View full text Add to dashboard Cite

3′ end processing and mRNA polyadenylation is a vital aspect of gene expression in eukaryotes, and also a step at which expression may be regulated. A spate of recent research in plants links different subunits of the polyadenylation complex with growth and development. These reports provide insight into mechanisms by which APA may be regulated, and perhaps into mechanisms by which pre‐mRNAs are processed and polyadenylated. In this review, several of these recent reports are discussed, with the purpose of highlighting novel features of mRNA 3′ end formation in plants and also developing broad themes that connect APA with plant growth, development, and responses to the environment. This article is categorized under: RNA Processing > 3′ End Processing RNA in Disease and Development > RNA in Development

show abstract

Arabidopsis mRNA polyadenylation machinery: comprehensive analysis of protein-protein interactions and gene expression profiling

Cited by 96 publications

References 43 publications

Unique Features of Plant Cleavage and Polyadenylation Specificity Factor Revealed by Proteomic Studies

Unique Features of Plant Cleavage and Polyadenylation Specificity Factor Revealed by Proteomic Studies

Tissue‐specific mechanisms of alternative polyadenylation: Testis, brain, and beyond (2018 update)

mRNA 3′ end formation in plants: Novel connections to growth, development and environmental responses

Contact Info

Product

Resources

About