Browsing by Author "Lluch-Senar, Maria 1982-"

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  • Lloréns Rico, Verónica, 1989-; Serrano Pubull, Luis, 1982-; Lluch-Senar, Maria 1982- (BioMed Central, 2014)
    Background: RNA sequencing methods have already altered our view of the extent and complexity of bacterial and eukaryotic transcriptomes, revealing rare transcript isoforms (circular RNAs, RNA chimeras) that could play an ...
  • Lloréns Rico, Verónica, 1989-; Cano, Jaime; Kamminga, Tjerko; Gil, Rosario; Latorre, Amparo; Chen, Wei-Hua; Bork, Peer; Glass, John I.; Serrano Pubull, Luis, 1982-; Lluch-Senar, Maria 1982- (American Association for the Advancement of Science (AAAS), 2016)
    cis-Encoded antisense RNAs (asRNAs) are widespread along bacterial transcriptomes. However, the role of most of these RNAs remains unknown, and there is an ongoing discussion as to what extent these transcripts are the ...
  • Lluch-Senar, Maria 1982-; Cozzuto, Luca; Cano, Jaime; Delgado, Javier; Lloréns Rico, Verónica, 1989-; Pereyre, Sabine; Bebear, Cécile; Serrano Pubull, Luis, 1982- (Public Library of Science (PLoS), 2015)
    The human respiratory tract pathogen M. pneumoniae is one of the best characterized minimal bacterium. Until now, two main groups of clinical isolates of this bacterium have been described (types 1 and 2), differing in the ...
  • Lluch-Senar, Maria 1982-; Luong, Khai; Lloréns Rico, Verónica, 1989-; Delgado, Javier; Fang, Gang; Spittle, Kristi; Clark, Tyson A.; Schadt, Eric; Turner, Stephen W.; Korlach, Jonas; Serrano Pubull, Luis, 1982- (Public Library of Science (PLoS), 2013)
    In the bacterial world, methylation is most commonly associated with restriction-modification systems that provide a defense mechanism against invading foreign genomes. In addition, it is known that methylation plays ...
  • Trussart, Marie, 1985-; Yus, Eva; Martínez, Sira; Baù, Davide; Tahara, Yuhei O.; Pengo, Thomas; Widjaja, Michael; Kretschmer, Simon; Swoger, Jim; Djordjevic, Steven P.; Turnbull, Lynne; Whitchurch, Cynthia B.; Miyata, Makoto; Martí Renom, Marc A.; Lluch-Senar, Maria 1982-; Serrano Pubull, Luis, 1982- (Nature Publishing Group, 2017)
    DNA-binding proteins are central regulators of chromosome organization; however, in genome-reduced bacteria their diversity is largely diminished. Whether the chromosomes of such bacteria adopt defined three-dimensional ...
  • Lluch-Senar, Maria 1982-; Delgado, Javier; Chen, Wei-Hua; Lloréns Rico, Verónica, 1989-; O’Reilly, Francis J.; Wodke, Judith A.H.; Unal, E. Besray; Yus, Eva; Martínez, Sira; Nichols, Robert J.; Ferrar, Tony; Vivancos Prellezo, Ana; Schmeisky, Arne; Stülke, Jörg; Noort, Vera van; Gavin, Anne-Claude; Bork, Peer; Serrano Pubull, Luis, 1982- (Wiley Blackwell, 2015)
    Identifying all essential genomic components is critical for the assembly of minimal artificial life. In the genome-reduced bacterium Mycoplasma pneumoniae, we found that small ORFs (smORFs; < 100 residues), accounting for ...
  • Gallo López, Carolina, 1984- (Universitat Pompeu Fabra, 2018-01-11)
    Understanding how the growth rate is regulated in bacteria is an ongoing challenge in biology and its controlled regulation would have a great impact in the biotechnological industry. Growth rates may be regulated by several ...
  • Wodke, Judith A.H.; Puchalka, Jacek; Lluch-Senar, Maria 1982-; Marcos del Águila, Josep, 1971-; Yus, Eva; Godinho, Miguel; Gutiérrez Gallego, Ricardo, 1968-; Martins dos Santos, Vitor; Serrano Pubull, Luis, 1982-; Klipp, E., 1965-; Maier, Tobias (Nature Publishing Group, 2013)
    Mycoplasma pneumoniae, a threatening pathogen with a minimal genome, is a model organism for bacterial systems biology for which substantial experimental information is available. With the goal of understanding the complex ...
  • Lloréns Rico, Verónica, 1989-; Lluch-Senar, Maria 1982-; Serrano Pubull, Luis, 1982- (Oxford University Press, 2015)
    Distinguishing between promoter-like sequences in bacteria that belong to true or abortive promoters, or to those that do not initiate transcription at all, is one of the important challenges in transcriptomics. To address ...
  • Chen, Wei-Hua; van Noort, Vera; Lluch-Senar, Maria 1982-; Hennrich, Marco L.; Wodke, Judith A.H.; Yus, Eva; Alibés, Andreu; Roma, Guglielmo; Mende, Daniel R.; Pesavento, Christina; Typas, Athanasios; Gavin, Anne-Claude; Serrano Pubull, Luis, 1982- (Oxford University Press, 2016)
    We developed a comprehensive resource for the genome-reduced bacterium Mycoplasma pneumoniae comprising 1748 consistently generated '-omics' data sets, and used it to quantify the power of antisense non-coding RNAs (ncRNAs), ...
  • Lloréns Rico, Verónica, 1989- (Universitat Pompeu Fabra, 2016-09-15)
    One of the major challenges of biology is to understand how entire cells or organisms behave in homeostasis and in response to perturbations. Whole-cell modeling promotes this understanding by integrating different cellular ...
  • Wodke, Judith A.H.; Alibés, Andreu; Cozzuto, Luca; Hermoso Pulido, Antonio; Yus, Eva; Lluch-Senar, Maria 1982-; Serrano Pubull, Luis, 1982-; Roma, Guglielmo (Oxford University Press, 2015)
    MyMpn (http://mympn.crg.eu) is an online resource devoted to studying the human pathogen Mycoplasma pneumoniae, a minimal bacterium causing lower respiratory tract infections. Due to its small size, its ability to grow in ...
  • Lluch-Senar, Maria 1982-; Mancuso, Francesco M.; Climente González, Héctor; Peña Paz, Marcia I.; Sabidó Aguadé, Eduard, 1981-; Serrano Pubull, Luis, 1982- (Wiley-VCH Verlag, 2016)
    A common problem encountered when performing large-scale MS proteome analysis is the loss of information due to the high percentage of unassigned spectra. To determine the causes behind this loss we have analyzed the ...
  • Paetzold, Bernhard, 1981- (Universitat Pompeu Fabra, 2013-12-02)
    M. pneumoniae is one of the smallest self-replicating organisms. Many organism wide studies have been performed on M. pneumoniae and provide a wealth of information on the bacteria. However, the genetic tools to manipulate ...
  • Yus, Eva; Güell Cargol, Marc; Vivancos Prellezo, Ana; Chen, Wei-Hua; Lluch-Senar, Maria 1982-; Delgado, Javier; Gavin, Anne-Claude; Bork, Peer; Serrano Pubull, Luis, 1982- (Nature Publishing Group, 2012)
    Here, we report the genome-wide identification of small RNAs associated with transcription start sites (TSSs), termed tssRNAs, in Mycoplasma pneumoniae. tssRNAs were also found to be present in a different bacterial phyla, ...
  • Mariscal, Ana M.; Broto, Alicia; Lluch-Senar, Maria 1982-; Piñero-Lambea, Carlos; Suzuki, Yo (American Chemical Society (ACS), 2018)
    Functional genomics studies in minimal mycoplasma cells enable unobstructed access to some of the most fundamental processes in biology. Conventional transposon bombardment and gene knockout approaches often fail to reveal ...
  • Miravet Verde, Samuel; Ferrar, Tony; Espadas, Guadalupe; Mazzolini, Rocco; Gharrab, Anas; Sabidó Aguadé, Eduard, 1981-; Serrano Pubull, Luis, 1982-; Lluch-Senar, Maria 1982- (Wiley Open Access, 2019)
    Identification of small open reading frames (smORFs) encoding small proteins (≤ 100 amino acids; SEPs) is a challenge in the fields of genome annotation and protein discovery. Here, by combining a novel bioinformatics tool ...