Genomic organization, expression of the human CBFA1 gene, and evidence for an alternative splicing event affecting protein function

1998 ◽  
Vol 9 (1) ◽  
pp. 54-57 ◽  
Author(s):  
V. Geoffroy ◽  
D. A. Corral ◽  
L. Zhou ◽  
B. Lee ◽  
G. Karsenty
Keyword(s):  
Alternative Splicing ◽  
Protein Function ◽  
Genomic Organization

scholarly journals PPM1G promotes the progression of hepatocellular carcinoma via phosphorylation regulation of alternative splicing protein SRSF3

2021 ◽  
Vol 12 (8) ◽  
Author(s):  
Dawei Chen ◽  
Zhenguo Zhao ◽  
Lu Chen ◽  
Qinghua Li ◽  
Jixue Zou ◽  
...  
Keyword(s):  
Hepatocellular Carcinoma ◽  
Alternative Splicing ◽  
Protein Function ◽  
Vital Role ◽  
Normal Tissues ◽  
Mechanistic Analysis ◽  
Highly Correlated ◽  
Splicing Patterns

AbstractEmerging evidence has demonstrated that alternative splicing has a vital role in regulating protein function, but how alternative splicing factors can be regulated remains unclear. We showed that the PPM1G, a protein phosphatase, regulated the phosphorylation of SRSF3 in hepatocellular carcinoma (HCC) and contributed to the proliferation, invasion, and metastasis of HCC. PPM1G was highly expressed in HCC tissues compared to adjacent normal tissues, and higher levels of PPM1G were observed in adverse staged HCCs. The higher levels of PPM1G were highly correlated with poor prognosis, which was further validated in the TCGA cohort. The knockdown of PPM1G inhibited the cell growth and invasion of HCC cell lines. Further studies showed that the knockdown of PPM1G inhibited tumor growth in vivo. The mechanistic analysis showed that the PPM1G interacted with proteins related to alternative splicing, including SRSF3. Overexpression of PPM1G promoted the dephosphorylation of SRSF3 and changed the alternative splicing patterns of genes related to the cell cycle, the transcriptional regulation in HCC cells. In addition, we also demonstrated that the promoter of PPM1G was activated by multiple transcription factors and co-activators, including MYC/MAX and EP300, MED1, and ELF1. Our study highlighted the essential role of PPM1G in HCC and shed new light on unveiling the regulation of alternative splicing in malignant transformation.

Genomic organization, alternative splicing, and expression of human and mouseN-RAP, a nebulin-related LIM protein of striated muscle

2003 ◽  
Vol 55 (3) ◽  
pp. 200-212 ◽  
Author(s):  
Saidi A. Mohiddin ◽  
Shajia Lu ◽  
John-Paul Cardoso ◽  
Stefanie Carroll ◽  
Sanjaya Jha ◽  
...  
Keyword(s):  
Alternative Splicing ◽  
Genomic Organization ◽  
Striated Muscle ◽  
Lim Protein

scholarly journals Neurogenesis: Regulation by Alternative Splicing and Related Posttranscriptional Processes

2016 ◽  
Vol 23 (5) ◽  
pp. 466-477 ◽  
Author(s):  
Enrique Lara-Pezzi ◽  
Manuel Desco ◽  
Alberto Gatto ◽  
María Victoria Gómez-Gaviro
Keyword(s):  
Alternative Splicing ◽  
Protein Function ◽  
Posttranscriptional Regulation ◽  
Molecular Mechanisms ◽  
Rna Binding ◽  
Rna Binding Proteins ◽  
Rna Degradation ◽  
Protein Isoforms ◽  
Mammalian Brain ◽  
Nonsense Mediated Decay

The complexity of the mammalian brain requires highly specialized protein function and diversity. As neurons differentiate and the neuronal circuitry is established, several mRNAs undergo alternative splicing and other posttranscriptional changes that expand the variety of protein isoforms produced. Recent advances are beginning to shed light on the molecular mechanisms that regulate isoform switching during neurogenesis and the role played by specific RNA binding proteins in this process. Neurogenesis and neuronal wiring were recently shown to also be regulated by RNA degradation through nonsense-mediated decay. An additional layer of regulatory complexity in these biological processes is the interplay between alternative splicing and long noncoding RNAs. Dysregulation of posttranscriptional regulation results in defective neuronal differentiation and/or synaptic connections that lead to neurodevelopmental and psychiatric disorders.

Alternative splicing in plants

2008 ◽  
Vol 36 (3) ◽  
pp. 508-510 ◽  
Author(s):  
Craig G. Simpson ◽  
Dominika Lewandowska ◽  
John Fuller ◽  
Monika Maronova ◽  
Maria Kalyna ◽  
...  
Keyword(s):  
Gene Expression ◽  
Alternative Splicing ◽  
Reverse Transcription ◽  
Protein Function ◽  
Mrna Levels ◽  
Reverse Transcription Pcr ◽  
Multiple Genes ◽  
The Impact

The impact of AS (alternative splicing) is well-recognized in animal systems as a key regulator of gene expression and proteome complexity. In plants, AS is of growing importance as more genes are found to undergo AS, but relatively little is known about the factors regulating AS or the consequences of AS on mRNA levels and protein function. We have established an accurate and reproducible RT (reverse transcription)–PCR system to analyse AS in multiple genes. Initial studies have identified new AS events confirming that current values for the frequency of AS in plants are likely to be underestimates.

scholarly journals Erratum to: Genomic organization and alternative splicing of the human and mouse RPTPρ genes: Correction

BMC Genomics ◽  
2001 ◽  
Vol 2 (1) ◽  
Author(s):  
Julie A Besco ◽  
Adrienne Frostholm ◽  
Magdalena C Popesco ◽  
Arthur HM Burghes ◽  
Andrej Rotter
Keyword(s):  
Alternative Splicing ◽  
Genomic Organization ◽  
Human And Mouse

scholarly journals Interactions between two fission yeast serine/arginine-rich proteins and their modulation by phosphorylation

2002 ◽  
Vol 368 (2) ◽  
pp. 527-534 ◽  
Author(s):  
Zhaohua TANG ◽  
Norbert F. KÄUFER ◽  
Ren-Jang LIN
Keyword(s):  
Alternative Splicing ◽  
Protein Phosphorylation ◽  
Fission Yeast ◽  
Protein Function ◽  
Sr Proteins ◽  
Specific Protein ◽  
Glutathione S Transferase ◽  
Sr Protein ◽  
Random Screen ◽  
Related Proteins

The unexpected low number of genes in the human genome has triggered increasing attention to alternative pre-mRNA splicing, and serine/arginine-rich (SR) proteins have been correlated with the complex alternative splicing that is a characteristic of metazoans. SR proteins interact with RNA and splicing protein factors, and they also undergo reversible phosphorylation, thereby regulating constitutive and alternative splicing in mammals and Drosophila. However, it is not clear whether the features of SR proteins and alternative splicing are present in simple and genetically tractable organisms, such as yeasts. In the present study, we show that the SR-like proteins Srp1 and Srp2, found in the fission yeast Schizosaccharomyces pombe, interact with each other and the interaction is modulated by protein phosphorylation. By using Srp1 as bait in a yeast two-hybrid analysis, we specifically isolated Srp2 from a random screen. This Srp interaction was confirmed by a glutathione-S-transferase pull-down assay. We also found that the Srp1—Srp2 complex was phosphorylated at a reduced efficiency by a fission yeast SR-specific kinase, Dis1-suppression kinase (Dsk1). Conversely, Dsk1-mediated phosphorylation inhibited the formation of the Srp complex. These findings offer the first example in fission yeast for interactions between SR-related proteins and the modulation of the interactions by specific protein phosphorylation, suggesting that a mammalian-like SR protein function may exist in fission yeast.

scholarly journals Analysis of alternative splicing events in the root tips and nodules of Pisum sativum L

2019 ◽  
Vol 17 (1) ◽  
pp. 53-63 ◽  
Author(s):  
Evgeny A. Zorin ◽  
Olga A. Kulaeva ◽  
Alexey M. Afonin ◽  
Vladimir A. Zhukov ◽  
Igor A. Tikhonovich
Keyword(s):  
Alternative Splicing ◽  
Functional Groups ◽  
Protein Function ◽  
Cellular Response ◽  
Target Genes ◽  
Intron Retention ◽  
Post Inoculation ◽  
Root Tips ◽  
Symbiotic Relationships ◽  
The Moment

Background. Legumes establish symbioses with nitrogen-fixing bacteria from the Rhizobium group. In exchange for nutrients, bacteria provide fixed nitrogen needed to support plant growth. At the moment, information about the involvement of alternative splicing (AS) in the establishment and maintenance this symbiotic relationships is almost absent, but, as it is a powerful mechanism for the regulation of proteome diversity of the cell, it therefore may participate in cellular response to microsymbionts. Materials and methods. Alternative splicing was analyzed using the assembly of supertranscripts and alignment of the reads from nodules and root tips to this reference. Target genes expression levels was estimated in tips of non-inoculated roots, and in nodules (2, 4, and 6 weeks post inoculation) with use of RT-qPCR. Results.In this study, the analysis of AS events in the nodules and root tips of the pea was carried out. The presence of isoforms of four pea genes (PsSIP1, PsIGN, PsWRKY40, PsPR-10) was confirmed and their expression level was estimated. Conclusion. Pea nodules were shown to be more enriched with AS events compared to root tips. Among the functional groups of genes that demonstrate AS events, one of the most enriched functional groups is the pathogens stress response. Intron retention probably leads to degradation of the transcript via NMD-system or to change of the protein function, that modulates the activity of genes in nodules.

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