Raquel Tobes

Summary

Publications

  1. pmc ExtraTrain: a database of Extragenic regions and Transcriptional information in prokaryotic organisms
    Eduardo Pareja
    Bioinformatics Unit, Era7 Information Technologies SL, BIC Granada CEEI, Parque Tecnológico de Ciencias de la Salud, Armilla Granada 18100, Spain
    BMC Microbiol 6:29. 2006
  2. pmc Bacterial repetitive extragenic palindromic sequences are DNA targets for Insertion Sequence elements
    Raquel Tobes
    Bioinformatics Unit, Era7 Information Technologies SL, BIC Granada CEEI, Parque Tecnológico de Ciencias de la Salud Armilla Granada 18100, Spain
    BMC Genomics 7:62. 2006
  3. ncbi request reprint Repetitive extragenic palindromic sequences in the Pseudomonas syringae pv. tomato DC3000 genome: extragenic signals for genome reannotation
    Raquel Tobes
    Bioinformatics Unit, Era7 Information Technologies, C Río Tajo 49, Las Gabias, Granada 18110, Spain
    Res Microbiol 156:424-33. 2005
  4. pmc AraC-XylS database: a family of positive transcriptional regulators in bacteria
    Raquel Tobes
    Department of Biochemistry and Molecular and Cellular Biology of Plants, Estacion Experimental del Zaidin, Consejo Superior de Investigaciones Cientificas, 18008 Granada, Spain
    Nucleic Acids Res 30:318-21. 2002
  5. pmc The TetR family of transcriptional repressors
    Juan L Ramos
    Department of Plant Biochemistry and Molecular and Cellular Biology, Estacion Experimental del Zaidin, Consejo Superior de Investigaciones Cientificas, Granada, Spain
    Microbiol Mol Biol Rev 69:326-56. 2005
  6. ncbi request reprint REP code: defining bacterial identity in extragenic space
    Raquel Tobes
    Consejo Superior de Investigaciones Cientificas, Estación Experimental del Zaidín Department of Plant Biochemistry and Molecular and Cellular Biology Profesor Albareda number 1, E 18008 Granada, Spain
    Environ Microbiol 7:225-8. 2005
  7. ncbi request reprint BacTregulators: a database of transcriptional regulators in bacteria and archaea
    Manuel Martínez-Bueno
    Department of Plant Biochemistry and Molecular and Cellular Biology, Estacion Experimental del Zaidin, Consejo Superior de Investigaciones Cientificas, E 18008 Granada, Spain
    Bioinformatics 20:2787-91. 2004
  8. ncbi request reprint Detection of multiple extracytoplasmic function (ECF) sigma factors in the genome of Pseudomonas putida KT2440 and their counterparts in Pseudomonas aeruginosa PA01
    Manuel A Martínez-Bueno
    Department of Biochemistry and Molecular and Cellular Biology of Plants, Estacion Experimental del Zaidin, Consejo Superior de Investigaciones Cientificas, C Prof Albareda, 1, 18008 Granada, Spain
    Environ Microbiol 4:842-55. 2002
  9. pmc Species-specific repetitive extragenic palindromic (REP) sequences in Pseudomonas putida
    Isabel Aranda-Olmedo
    Consejo Superior de Investigaciones Cientificas, Estacion Experimental del Zaidin, Departamento de Bioquímica y Biología Molecular y Celular de Plantas, Apdo de Correos 419, E 18080 Granada, Spain
    Nucleic Acids Res 30:1826-33. 2002
  10. ncbi request reprint Growth phase-dependent expression of the Pseudomonas putida KT2440 transcriptional machinery analysed with a genome-wide DNA microarray
    Luis Yuste
    Departamento de Biotecnologia Microbiana, Centro Nacional de Biotecnologia, CSIC, Campus de la Universidad Autonoma de Madrid, Cantoblanco, 28049 Madrid, Spain
    Environ Microbiol 8:165-77. 2006

Collaborators

  • Eduardo Pareja
  • Juan Luis Ramos
  • Kazuya Watanabe
  • Victor De Lorenzo
  • Carmen Alvarez Dominguez
  • Carmen Alvarez-Dominguez
  • Mattias Magnusson
  • Luis Yuste
  • Manuel Martínez-Bueno
  • Isabel Aranda-Olmedo
  • Manuel A Martínez-Bueno
  • Francisco Leyva-Cobián
  • Fidel Madrazo-Toca
  • Maria Teresa Gomez-Lopez
  • Eugenio Carrasco-Marin
  • Joel Vandekerckhove
  • Elida Del Cerro-Vadillo
  • Manuel Fresno
  • Lorena Fernandez-Prieto
  • Jaime Sancho
  • Eduardo Santero
  • Inés Canosa
  • José Ignacio Jiménez
  • Juan Nogales
  • Fernando Rojo
  • Ana B Hervás
  • Manuel M Perez-Perez
  • Eduardo Diaz
  • Antonio J Molina-Henares
  • Manuel Rey
  • Maximino Manzanera
  • Silvia Marques

Detail Information

Publications12

  1. pmc ExtraTrain: a database of Extragenic regions and Transcriptional information in prokaryotic organisms
    Eduardo Pareja
    Bioinformatics Unit, Era7 Information Technologies SL, BIC Granada CEEI, Parque Tecnológico de Ciencias de la Salud, Armilla Granada 18100, Spain
    BMC Microbiol 6:29. 2006
    ..As all extragenic spaces are putative regulatory regions, ExtraTrain covers all extragenic regions of available genomes and regulatory proteins from bacteria and archaea included in the UniProt database...
  2. pmc Bacterial repetitive extragenic palindromic sequences are DNA targets for Insertion Sequence elements
    Raquel Tobes
    Bioinformatics Unit, Era7 Information Technologies SL, BIC Granada CEEI, Parque Tecnológico de Ciencias de la Salud Armilla Granada 18100, Spain
    BMC Genomics 7:62. 2006
    ....
  3. ncbi request reprint Repetitive extragenic palindromic sequences in the Pseudomonas syringae pv. tomato DC3000 genome: extragenic signals for genome reannotation
    Raquel Tobes
    Bioinformatics Unit, Era7 Information Technologies, C Río Tajo 49, Las Gabias, Granada 18110, Spain
    Res Microbiol 156:424-33. 2005
    ..In addition, as the P. syringae REP sequence is species-specific with respect to the sequenced genomes, it is an exceptional candidate for use as a fingerprint in precise genotyping and epidemiological studies...
  4. pmc AraC-XylS database: a family of positive transcriptional regulators in bacteria
    Raquel Tobes
    Department of Biochemistry and Molecular and Cellular Biology of Plants, Estacion Experimental del Zaidin, Consejo Superior de Investigaciones Cientificas, 18008 Granada, Spain
    Nucleic Acids Res 30:318-21. 2002
    ..The AraC-XylS database is accessible on the World Wide Web at http://www.AraC-XylS.org...
  5. pmc The TetR family of transcriptional repressors
    Juan L Ramos
    Department of Plant Biochemistry and Molecular and Cellular Biology, Estacion Experimental del Zaidin, Consejo Superior de Investigaciones Cientificas, Granada, Spain
    Microbiol Mol Biol Rev 69:326-56. 2005
    ..Information related to the TetR family of regulators has been updated in a database that can be accessed at www.bactregulators.org...
  6. ncbi request reprint REP code: defining bacterial identity in extragenic space
    Raquel Tobes
    Consejo Superior de Investigaciones Cientificas, Estación Experimental del Zaidín Department of Plant Biochemistry and Molecular and Cellular Biology Profesor Albareda number 1, E 18008 Granada, Spain
    Environ Microbiol 7:225-8. 2005
    ....
  7. ncbi request reprint BacTregulators: a database of transcriptional regulators in bacteria and archaea
    Manuel Martínez-Bueno
    Department of Plant Biochemistry and Molecular and Cellular Biology, Estacion Experimental del Zaidin, Consejo Superior de Investigaciones Cientificas, E 18008 Granada, Spain
    Bioinformatics 20:2787-91. 2004
    ..The BacTregulators database is intended to collect and to integrate information on proteins belonging to defined families of transcriptional regulators in prokaryotes...
  8. ncbi request reprint Detection of multiple extracytoplasmic function (ECF) sigma factors in the genome of Pseudomonas putida KT2440 and their counterparts in Pseudomonas aeruginosa PA01
    Manuel A Martínez-Bueno
    Department of Biochemistry and Molecular and Cellular Biology of Plants, Estacion Experimental del Zaidin, Consejo Superior de Investigaciones Cientificas, C Prof Albareda, 1, 18008 Granada, Spain
    Environ Microbiol 4:842-55. 2002
    ..This may explain the ability of P. putida KT2440 to grow under low iron availability conditions. Five fecI/fecR/iron receptor gene clusters from P. putida were also identified in the human pathogen Pseudomonas aeruginosa...
  9. pmc Species-specific repetitive extragenic palindromic (REP) sequences in Pseudomonas putida
    Isabel Aranda-Olmedo
    Consejo Superior de Investigaciones Cientificas, Estacion Experimental del Zaidin, Departamento de Bioquímica y Biología Molecular y Celular de Plantas, Apdo de Correos 419, E 18080 Granada, Spain
    Nucleic Acids Res 30:1826-33. 2002
    ..putida. For this reason we suggest that the P.putida 35 bp element is a distinctive REP sequence in P.putida. This is the first time that REP sequences have been described and characterised in a group of non-enterobacteriaceae...
  10. ncbi request reprint Growth phase-dependent expression of the Pseudomonas putida KT2440 transcriptional machinery analysed with a genome-wide DNA microarray
    Luis Yuste
    Departamento de Biotecnologia Microbiana, Centro Nacional de Biotecnologia, CSIC, Campus de la Universidad Autonoma de Madrid, Cantoblanco, 28049 Madrid, Spain
    Environ Microbiol 8:165-77. 2006
    ..Expression of IHF was indicative of post-transcriptional control. These results provide the first global study of the expression of the transcriptional machinery through the exponential stationary-phase shift in P. putida...
  11. ncbi request reprint Cutting edge: natural DNA repetitive extragenic sequences from gram-negative pathogens strongly stimulate TLR9
    Mattias Magnusson
    Department of Rheumatology and Inflammation Research, Goteborg University, Goteborg, Sweden
    J Immunol 179:31-5. 2007
    ..Considering the involvement of TLRs in Gram-negative septic shock, it is conceivable that REPs play a role in its pathogenesis. This study highlights REPs as a potential novel target in septic shock treatment...
  12. ncbi request reprint Characterization of a Listeria monocytogenes protein interfering with Rab5a
    Carmen Alvarez-Dominguez
    Servicio de Inmunología and Instituto de Formación e Investigación Marqués de Valdecilla IFIMAV, Hospital Universitario Marques de Valdecilla, 39008 Santander, Spain
    Traffic 9:325-37. 2008
    ..Listeria GAPDH might be the first intracellular gram-positive enzyme targeted to Rab proteins with ADP-ribosylating ability and a putative novel virulence factor...