Literature DB >> 18930792

Rapid generation of splicing reporters with pSpliceExpress.

Shivendra Kishore1, Amit Khanna, Stefan Stamm.   

Abstract

Almost all human protein-coding transcripts undergo pre-mRNA splicing and a majority of them is alternatively spliced. The most common technique used to analyze the regulation of an alternative exon is through reporter minigene constructs. However, their construction is time-consuming and is often complicated by the limited availability of appropriate restriction sites. Here, we report a fast and simple recombination-based method to generate splicing reporter genes, using a new vector, pSpliceExpress. The system allows generation of minigenes within one week. Minigenes generated with pSpliceExpress show the same regulation as displayed by conventionally cloned reporter constructs and provide an alternate avenue to study splice site selection in vivo.

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Year:  2008        PMID: 18930792      PMCID: PMC2821805          DOI: 10.1016/j.gene.2008.09.021

Source DB:  PubMed          Journal:  Gene        ISSN: 0378-1119            Impact factor:   3.688


  10 in total

Review 1.  Alternative pre-mRNA splicing: the logic of combinatorial control.

Authors:  C W Smith; J Valcárcel
Journal:  Trends Biochem Sci       Date:  2000-08       Impact factor: 13.807

2.  The snoRNA HBII-52 regulates alternative splicing of the serotonin receptor 2C.

Authors:  Shivendra Kishore; Stefan Stamm
Journal:  Science       Date:  2005-12-15       Impact factor: 47.728

Review 3.  Alternative splicing: new insights from global analyses.

Authors:  Benjamin J Blencowe
Journal:  Cell       Date:  2006-07-14       Impact factor: 41.582

4.  The alternative splicing of tau exon 10 and its regulatory proteins CLK2 and TRA2-BETA1 changes in sporadic Alzheimer's disease.

Authors:  Daniela C Glatz; Dan Rujescu; Yesheng Tang; Frank J Berendt; Annette M Hartmann; Frank Faltraco; Carlyn Rosenberg; Christine Hulette; Kurt Jellinger; Harald Hampel; Peter Riederer; Hans-J Möller; Athena Andreadis; Kerstin Henkel; Stefan Stamm
Journal:  J Neurochem       Date:  2005-12-20       Impact factor: 5.372

5.  Seemingly neutral polymorphic variants may confer immunity to splicing-inactivating mutations: a synonymous SNP in exon 5 of MCAD protects from deleterious mutations in a flanking exonic splicing enhancer.

Authors:  Karsten Bork Nielsen; Suzette Sørensen; Luca Cartegni; Thomas Juhl Corydon; Thomas Koed Doktor; Lisbeth Dahl Schroeder; Line Sinnathamby Reinert; Orly Elpeleg; Adrian R Krainer; Niels Gregersen; Jørgen Kjems; Brage Storstein Andresen
Journal:  Am J Hum Genet       Date:  2007-01-18       Impact factor: 11.025

Review 6.  Pre-mRNA missplicing as a cause of human disease.

Authors:  Tatyana Novoyatleva; Yesheng Tang; Ilona Rafalska; Stefan Stamm
Journal:  Prog Mol Subcell Biol       Date:  2006

7.  Regulation of alternative splicing in vivo by overexpression of antagonistic splicing factors.

Authors:  J F Cáceres; S Stamm; D M Helfman; A R Krainer
Journal:  Science       Date:  1994-09-16       Impact factor: 47.728

8.  Role for DNA homology in site-specific recombination. The isolation and characterization of a site affinity mutant of coliphage lambda.

Authors:  R A Weisberg; L W Enquist; C Foeller; A Landy
Journal:  J Mol Biol       Date:  1983-10-25       Impact factor: 5.469

9.  New type of disease causing mutations: the example of the composite exonic regulatory elements of splicing in CFTR exon 12.

Authors:  Franco Pagani; Cristiana Stuani; Maria Tzetis; Emmanuel Kanavakis; Alexandra Efthymiadou; Stavros Doudounakis; Teresa Casals; Francisco E Baralle
Journal:  Hum Mol Genet       Date:  2003-05-15       Impact factor: 6.150

Review 10.  Defective splicing, disease and therapy: searching for master checkpoints in exon definition.

Authors:  Emanuele Buratti; Marco Baralle; Francisco E Baralle
Journal:  Nucleic Acids Res       Date:  2006-07-19       Impact factor: 16.971

  10 in total
  29 in total

1.  Functional analysis of synonymous substitutions predicted to affect splicing of the CFTR gene.

Authors:  Alexandra Scott; Hanna M Petrykowska; Timothy Hefferon; Valer Gotea; Laura Elnitski
Journal:  J Cyst Fibros       Date:  2012-05-14       Impact factor: 5.482

Review 2.  Missed threads. The impact of pre-mRNA splicing defects on clinical practice.

Authors:  Diana Baralle; Anneke Lucassen; Emanuele Buratti
Journal:  EMBO Rep       Date:  2009-08       Impact factor: 8.807

3.  RNA splicing meets genetic testing: detection and interpretation of splicing defects in genetic diseases.

Authors:  Mario Tosi; Stefan Stamm; Diana Baralle
Journal:  Eur J Hum Genet       Date:  2010-02-24       Impact factor: 4.246

4.  CHARGE syndrome: a recurrent hotspot of mutations in CHD7 IVS25 analyzed by bioinformatic tools and minigene assays.

Authors:  Marine Legendre; Montserrat Rodriguez-Ballesteros; Massimiliano Rossi; Véronique Abadie; Jeanne Amiel; Nicole Revencu; Patricia Blanchet; Frédéric Brioude; Marie-Ange Delrue; Yassamine Doubaj; Abdelaziz Sefiani; Christine Francannet; Muriel Holder-Espinasse; Pierre-Simon Jouk; Sophie Julia; Judith Melki; Sébastien Mur; Sophie Naudion; Jennifer Fabre-Teste; Tiffany Busa; Stephen Stamm; Stanislas Lyonnet; Tania Attie-Bitach; Alain Kitzis; Brigitte Gilbert-Dussardier; Frédéric Bilan
Journal:  Eur J Hum Genet       Date:  2017-12-18       Impact factor: 4.246

5.  The snoRNA MBII-52 (SNORD 115) is processed into smaller RNAs and regulates alternative splicing.

Authors:  Shivendra Kishore; Amit Khanna; Zhaiyi Zhang; Jingyi Hui; Piotr J Balwierz; Mihaela Stefan; Carol Beach; Robert D Nicholls; Mihaela Zavolan; Stefan Stamm
Journal:  Hum Mol Genet       Date:  2010-01-06       Impact factor: 6.150

6.  The major reverse transcriptase-incompetent splice variant of the human telomerase protein inhibits telomerase activity but protects from apoptosis.

Authors:  Imke Listerman; Jie Sun; Francesca S Gazzaniga; Jason L Lukas; Elizabeth H Blackburn
Journal:  Cancer Res       Date:  2013-04-22       Impact factor: 12.701

7.  Bi-allelic ADARB1 Variants Associated with Microcephaly, Intellectual Disability, and Seizures.

Authors:  Tiong Yang Tan; Jiří Sedmík; Mark P Fitzgerald; Rivka Sukenik Halevy; Liam P Keegan; Ingo Helbig; Lina Basel-Salmon; Lior Cohen; Rachel Straussberg; Wendy K Chung; Mayada Helal; Reza Maroofian; Henry Houlden; Jane Juusola; Simon Sadedin; Lynn Pais; Katherine B Howell; Susan M White; John Christodoulou; Mary A O'Connell
Journal:  Am J Hum Genet       Date:  2020-03-26       Impact factor: 11.025

8.  Mutations in Spliceosomal Genes PPIL1 and PRP17 Cause Neurodegenerative Pontocerebellar Hypoplasia with Microcephaly.

Authors:  Guoliang Chai; Alice Webb; Chen Li; Danny Antaki; Sangmoon Lee; Martin W Breuss; Nhi Lang; Valentina Stanley; Paula Anzenberg; Xiaoxu Yang; Trevor Marshall; Patrick Gaffney; Klaas J Wierenga; Brian Hon-Yin Chung; Mandy Ho-Yin Tsang; Lynn S Pais; Alysia Kern Lovgren; Grace E VanNoy; Heidi L Rehm; Ghayda Mirzaa; Eyby Leon; Jullianne Diaz; Alexander Neumann; Arnout P Kalverda; Iain W Manfield; David A Parry; Clare V Logan; Colin A Johnson; David T Bonthron; Elizabeth M A Valleley; Mahmoud Y Issa; Sherif F Abdel-Ghafar; Mohamed S Abdel-Hamid; Patricia Jennings; Maha S Zaki; Eamonn Sheridan; Joseph G Gleeson
Journal:  Neuron       Date:  2020-11-20       Impact factor: 17.173

9.  A Novel Non-Coding Variant in DCLRE1C Results in Deregulated Splicing and Induces SCID Through the Generation of a Truncated ARTEMIS Protein That Fails to Support V(D)J Recombination and DNA Damage Repair.

Authors:  Steven Strubbe; Marieke De Bruyne; Ulrich Pannicke; Elien Beyls; Bart Vandekerckhove; Georges Leclercq; Elfride De Baere; Victoria Bordon; Anne Vral; Klaus Schwarz; Filomeen Haerynck; Tom Taghon
Journal:  Front Immunol       Date:  2021-06-17       Impact factor: 7.561

10.  Biallelic variants in ADARB1, encoding a dsRNA-specific adenosine deaminase, cause a severe developmental and epileptic encephalopathy.

Authors:  Reza Maroofian; Jiří Sedmík; Neda Mazaheri; Marcello Scala; Maha S Zaki; Liam P Keegan; Reza Azizimalamiri; Mahmoud Issa; Gholamreza Shariati; Alireza Sedaghat; Christian Beetz; Peter Bauer; Hamid Galehdari; Mary A O'Connell; Henry Houlden
Journal:  J Med Genet       Date:  2020-07-27       Impact factor: 6.318

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