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Engineering an anaerobic metabolic regime in Pseudomonas putida KT2440 for the anoxic biodegradation of 1,3-dichloroprop-1-ene
Metab Eng. 2013 Jan;15:98-112 Nikel PI, de Lorenzo V . Pseudomonas putida KT2440, a microbial cell factory of reference for industrial whole-cell biocatalysis, is unable to support biochemical reactions that occur under anoxic conditions, limiting its...
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Early steps of double-strand break repair in Bacillus subtilis
DNA Repair (Amst). 2013 Mar 1;12(3):162-76 Alonso JC , Cardenas PP, Sanchez H, Hejna J, Suzuki Y, Takeyasu K. All organisms rely on integrated networks to repair DNA double-strand breaks (DSBs) in order to preserve the integrity of the genetic...
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WRKY6 transcription factor restricts arsenate uptake and transposon activation in Arabidopsis
Plant Cell. 2013 Aug 6 Castrillo G, Sánchez-Bermejo E, de Lorenzo L, Crevillén P, Fraile-Escanciano A, Tc M, Mouriz A, Catarecha P, Sobrino-Plata J, Olsson S, Leo Del Puerto Y, Mateos I, Rojo E , Hernández LE, Jarillo JA, Piñeiro M, Paz-Ares J , Leyva...
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In the beginning, Escherichia coli assembled the proto-ring: an initial phase of division
J Biol Chem. 2013 Jul 19;288(29):20830-6 Rico AI, Krupka M, Vicente M . Cell division in Escherichia coli begins by assembling three proteins, FtsZ, FtsA, and ZipA, to form a proto-ring at midcell. These proteins nucleate an assembly of at least 35...
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The mzQuantML data standard for mass spectrometry-based quantitative studies in proteomics
Mol Cell Proteomics. 2013 Aug;12(8):2332-40 Walzer M, Qi D, Mayer G, Uszkoreit J, Eisenacher M, Sachsenberg T, Gonzalez-Galarza FF, Fan J, Bessant C, Deutsch EW, Reisinger F, Vizcaíno JA, Medina-Aunon JA, Albar JP , Kohlbacher O, Jones AR. The range of...
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Vinculin arrests motile B cells by stabilizing integrin clustering at the immune synapse
J Immunol. 2013 191:2742-2751 Saez de Guinoa J, Barrio L, Carrasco YR . Lymphocytes use integrin-based platforms to move and adhere firmly to the surface of other cells. The molecular mechanisms governing lymphocyte adhesion dynamics are however poorly...
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Brazilian Fungi diversity for biomass degradation
Fungal Genet Biol. 2013 Jul 18. pii: S1087-1845(13)00126-6 Valencia EY, Chambergo FS. Brazil houses over 10% of the total number of known species on Earth, with a great diversity of plants and fungi. The collection, isolation, identification and...
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FASTDEF: fast defocus and astigmatism estimation for high-throughput transmission electron microscopy
J Struct Biol. 2013 Feb;181(2):136-48 Vargas J, Otón J, Marabini R, Jonic S, de la Rosa-Trevín JM, Carazo JM , Sorzano CO. In this work we present a fast and automated algorithm for estimating the contrast transfer function (CTF) of a transmission...
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High yield purification of nanobodies from the periplasm of E. coli as fusions with the maltose binding protein
Protein Expr Purif. 2013 Jul 12. pii: S1046-5928(13)00120-4 Salema V, Fernández LA . Nanobodies (Nbs) are single domain antibodies based on the variable domains of heavy chain only antibodies (HCAbs) found in camelids, also referred to as VHHs. Their...
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Diverse amino acid changes at specific positions in the N-terminal region of the coat protein allow Plum pox virus to adapt to new hosts
Mol Plant Microbe Interact. 2013 Jun 7 Carbonell A, Maliogka VI, Pérez JD, Salvador Esteban B, San León D, Garcia JA, Simón-Mateo C . PPV-D and PPV-R are two isolates from strain D of Plum pox virus (PPV) that differ in host specificity. Previous...
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COVER: a priori estimation of coverage for metagenomic sequencing
Environ Microbiol Rep. 2012 Jun;4(3):335-41 Tamames J , de la Peña S, de Lorenzo V . In any metagenomic project, the coverage obtained for each particular species depends on its abundance. This makes it difficult to determine a priori the amount of DNA...
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The Pseudomonas putida HskA hybrid sensor kinase controls the composition of the electron transport chain
Environ Microbiol Rep. 2013 Apr;5(2):291-300 Sevilla E, Silva-Jiménez H, Duque E, Krell T, Rojo F . Sensor kinases play a key role in sensing and responding to environmental and physiological signals in bacteria. In this study we characterized a...
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MTV1 and MTV4 encode plant-specific ENTH and ARF GAP proteins that mediate clathrin-dependent trafficking of vacuolar cargo from the trans-Golgi network
Plant Cell. 2013 Jun 14 Sauer M, Delgadillo MO, Zouhar J, Reynolds GD, Pennington JG, Jiang L, Liljegren SJ, Stierhof YD, De Jaeger G, Otegui MS, Bednarek SY, Rojo E . Many soluble proteins transit through the trans -Golgi network (TGN) and the...
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Multicellular computing using conjugation for wiring
PLoS One. 2013 Jun 20;8(6):e65986 Goñi-Moreno A , Amos M, de la Cruz F. Recent efforts in synthetic biology have focussed on the implementation of logical functions within living cells. One aim is to facilitate both internal "re-programming" and...
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Interferon-β production via Dectin-1-Syk-IRF5 signaling in Dendritic Cells is crucial for immunity to C. albicans
Immunity. 2013 Jun 27;38(6):1176-86 Del Fresno C, Soulat D, Roth S, Blazek K, Udalova I, Sancho D, Ruland J, Ardavín C . Type I interferon (IFN) is crucial during infection through its antiviral properties and by coordinating the immunocompetent cells...
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Dido3 PHD modulates cell differentiation and division
Cell Rep. 2013 Jul 2. pii: S2211-1247(13)00292-1 Gatchalian J, Fütterer A, Rothbart SB, Tong Q, Rincon-Arano H, Sánchez de Diego A, Groudine M, Strahl BD, Martínez-A C, van Wely KH , Kutateladze TG. Death Inducer Obliterator 3 (Dido3) is implicated in...
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Improving adaptive and memory immune responses of an HIV/AIDS vaccine candidate MVA-B by deletion of Vaccinia Virus genes (C6L and K7R) blocking interferon signaling pathways
PLoS One. 2013 Jun 27;8(6):e66894 García-Arriaza J, Arnáez P, Gómez CE, Sorzano CO, Esteban M . Poxvirus vector Modified Vaccinia Virus Ankara (MVA) expressing HIV-1 Env, Gag, Pol and Nef antigens from clade B (termed MVA-B) is a promising HIV/AIDS...
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Multilamellar structures and filament bundles are found on the cell surface during Bunyavirus egress
PLoS One. 2013 Jun 14;8(6):e65526 Sanz-Sánchez L, Risco C . Inside cells, viruses build specialized compartments for replication and morphogenesis. We observed that virus release associates with specific structures found on the surface of mammalian...
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On the mechanism of recombination hotspot scanning during double-stranded DNA break resection
PNAS June 24, 2013 Carrasco C, Gilhooly NS, Dillingham MS, Moreno-Herrero F . We report the use of the magnetic tweezers approach to monitor the dynamics of double-stranded DNA break resection at single-molecule resolution. In this work, we unveil the...
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Interaction of p53 with the CCT complex promotes protein folding and wild-type p53 activity
Mol Cell. 2013 Jun 4. pii: S1097-2765(13)00365-1 Trinidad AG, Muller PA, Cuellar J, Klejnot M, Nobis M, Valpuesta JM , Vousden KH. p53 is a transcription factor that mediates tumor suppressor responses. Correct folding of the p53 protein is essential...