Functional characterization and high-throughput proteomic analysis of interrupted genes in the archaeon Sulfolobus solfataricus
| Autor: | Dario Benelli, Diem Tran, Emmanuel Perrodou, Lucia Guzzini, Eric J. Mathur, Jun Sun, Odile Lecompte, Beatrice Cobucci-Ponzano, Jing Wei, Mosè Rossi, Marco Moracci, Paola Londei |
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| Přispěvatelé: | Laboratoire des sciences de l'ingénieur, de l'informatique et de l'imagerie (ICube), École Nationale du Génie de l'Eau et de l'Environnement de Strasbourg (ENGEES)-Université de Strasbourg (UNISTRA)-Institut National des Sciences Appliquées - Strasbourg (INSA Strasbourg), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Institut National de Recherche en Informatique et en Automatique (Inria)-Les Hôpitaux Universitaires de Strasbourg (HUS)-Centre National de la Recherche Scientifique (CNRS)-Matériaux et Nanosciences Grand-Est (MNGE), Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Réseau nanophotonique et optique, Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Centre National de la Recherche Scientifique (CNRS), Cobucci Ponzano, Beatrice, Guzzini, Lucia, Benelli, Dario, Londei, Paola, Perrodou, Emmanuel, Lecompte, Odile, Tran, Diem, Sun, Jun, Wei, Jing, Mathur, Eric J, Rossi, Mose', Moracci, Marco |
| Rok vydání: | 2010 |
| Předmět: |
High-Throughput Screening Assay
Proteomics Proteome Pseudogene Archaeal Proteins ved/biology.organism_classification_rank.species Molecular Sequence Data Programmed frameshifting Biology Biochemistry Genome Peptide Mapping Genes Archaeal Tandem Mass Spectrometry Archaeal Protein Gene expression [SDV.BBM]Life Sciences [q-bio]/Biochemistry Molecular Biology Amino Acid Sequence Gene Genetics Base Sequence ved/biology Reverse Transcriptase Polymerase Chain Reaction Sulfolobus solfataricus Proteomic gene expression kae1/bud32 programmed frameshifting pseudogenes sui-1 translational recoding General Chemistry Sulfolobus solfataricu High-Throughput Screening Assays Transketolase Pseudogenes Chromatography Liquid |
| Zdroj: | J Proteome Res J Proteome Res, 2010, 9 (5), pp.2496-2507. ⟨10.1021/pr901166q⟩ Journal of proteome research 9 (2010): 2496–2507. doi:10.1021/pr901166q info:cnr-pdr/source/autori:Cobucci-Ponzano B.; Guzzini L.; Benelli D.; Londei P.; Perrodou E.; Lecompte O.; Tran D.; Sun J.; Wei J.; Mathur E.J.; Rossi M.; Moracci M./titolo:Functional characterization and high-throughput proteomic analysis of interrupted genes in the archaeon Sulfolobus solfataricus/doi:10.1021%2Fpr901166q/rivista:Journal of proteome research (Print)/anno:2010/pagina_da:2496/pagina_a:2507/intervallo_pagine:2496–2507/volume:9 |
| ISSN: | 1535-3907 |
| DOI: | 10.1021/pr901166q⟩ |
| Popis: | Sequenced genomes often reveal interrupted coding sequences that complicate the annotation process and the subsequent functional characterization of the genes. In the past, interrupted genes were generally considered to be the result of sequencing errors or pseudogenes, that is, gene remnants with little or no biological importance. However, recent lines of evidence support the hypothesis that these coding sequences can be functional; thus, it is crucial to understand whether interrupted genes are expressed in vivo. We addressed this issue by experimentally demonstrating the existence of functional disrupted genes in archaeal genomes. We discovered previously unknown disrupted genes that have interrupted homologues in distantly related species of archaea. The combination of a RT-PCR strategy with shotgun proteomics demonstrates that interrupted genes in the archaeon Sulfolobus solfataricus are expressed in vivo. In addition, the sequence of the peptides determined by LCMSMS and experiments of in vitro translation allows us to identify a gene expressed by programmed -1 frameshifting. Our findings will enable an accurate reinterpretation of archaeal interrupted genes shedding light on their function and on archaeal genome evolution. |
| Databáze: | OpenAIRE |
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