Biotechnology and Bioengineering

Cover image for Vol. 111 Issue 12

Edited By: Douglas S. Clark

Impact Factor: 4.164

ISI Journal Citation Reports © Ranking: 2013: 26/165 (Biotechnology & Applied Microbiology)

Online ISSN: 1097-0290

Featured

  • CHOPPI: A web tool for the analysis of immunogenicity risk from host cell proteins in CHO-based protein production

    CHOPPI: A web tool for the analysis of immunogenicity risk from host cell proteins in CHO‐based protein production

    The CHOPPI web tool. CHOPPI allows two types of searches, “CHOP query” and “genome filter,” along with the ability to browse a set of validated CHOPs. These all lead into individual protein reports. (a [RIGHTWARDS ARROW] b) CHOP query. In this example, a fragment of an amino acid sequence is used as a query and CHO homologs to the query protein are identified. (a [RIGHTWARDS ARROW] c) Genome filter. In this example, the CHO genome is filtered for proteins with homology matches to both a CHO transcriptome and a CHO proteome, along with presence of a predicted signal peptide. The analysis of the filtered proteins is presented in a table. As with the CHOP query, an individual protein can then be examined. (a [RIGHTWARDS ARROW] d) The dataset of experimentally identified CHOPs. (one of {b, c, or d} [RIGHTWARDS ARROW] e) Individual protein report linked from the previous panel (boxed in each). The page summarizes both predicted epitope content (EpiMatrix whole-protein immunogenicity score, along with number and density of epitopes and CHO-unique epitopes), and predicted presence in protein production (homology matches against a CHO transcriptome, a CHO proteome, a mouse secretome, a set of validated CHOPs, and/or appearance of a predicted signal peptide). Immunogenicity evaluations are plotted relative to distributions over the whole genome.

  • Regulation mechanisms in mixed and pure culture microbial fermentation

    Regulation mechanisms in mixed and pure culture microbial fermentation

    Overview of the glucose-based mixed-culture fermentation metabolism. Each section of the pathway is separated by a colored bubble. From the top and moving clockwise: (I) contains the energy generation pathways; (II) contains the alternate branches from glycolysis; (III) contains alternate pyruvate-derived branches; (IV) contains the acetyl-CoA branches; (V) contains the L-lactate branches; and (VI) contains the dicarboxylic acid cycle. The superscripts R, N, and O on the products indicate whether their redox state relative to glucose is reduced, neutral, or oxidized, respectively, based on their gCOD/C-mol value. The stoichiometry of all products and intermediates are shown with respect to glucose and EMP glycolysis.

  • Systems metabolic engineering of Escherichia coli for gram scale production of the antitumor drug deoxyviolacein from glycerol

    Systems metabolic engineering of Escherichia coli for gram scale production of the antitumor drug deoxyviolacein from glycerol

    Systems metabolic engineering strategy for deoxyviolacein production in E. coli dVio-8, using glycerol as carbon source and L-arabinose as inducer. Compound names: G6P (glucose 6-phosphate), F6P (fructose 6-phosphate), GAP (glyceraldehyde 3-phosphate), 3PG (3-phosphoglycerate), PEP (phosphoenolpyruvate), PYR (pyruvate), ACCOA (acetyl-CoA), OAA (oxaloacetate), IND (indole), Rul5P (ribulose 5-phosphate), Xyl5P (xylulose 5-phosphate), Rib5P (ribose 5-phosphate), Sed7P (sedoheptulose 7-phosphate), E4P (erythrose 4-phosphate), Ser (L-serine), DAHP (3-deoxy-D-arabino-heptulosonate-7-phosphate), CHO (chorismate), ANTH (anthranilate), Trp (L-tryptophan), IPA (indole-3-pyruvic acid imine), PDVA (protodeoxyviolaceinic acid), and AC (acetate). The illustration is adapted from previous work (Rodrigues et al., ).

  • Magnetostrictive particle based biosensors for in situ and real-time detection of pathogens in water

    Magnetostrictive particle based biosensors for in situ and real‐time detection of pathogens in water

    Schematic experimental setup for the characterization of the response of the MSP biosensor in liquid analyte, where the interrogation system is a network analyzer.

  • Insulin receptor antibody-iduronate 2-sulfatase fusion protein: Pharmacokinetics, anti-drug antibody, and safety pharmacology in Rhesus monkeys

    Insulin receptor antibody‐iduronate 2‐sulfatase fusion protein: Pharmacokinetics, anti‐drug antibody, and safety pharmacology in Rhesus monkeys

    Immunocytochemistry of Rhesus monkey brain stained with 15 μg/mL of either the biotinylated HIRMAb-IDS fusion protein (A) or the biotinylated human IgG1k isotype control antibody (B). The slides are counter-stained with hematoxylin. Both sections were developed under identical conditions. Magnification bar in panel B is 22 μm.

  • Defining an optimal stromal derived factor-1 presentation for effective recruitment of mesenchymal stem cells in 3D

    Defining an optimal stromal derived factor‐1 presentation for effective recruitment of mesenchymal stem cells in 3D

    Schematic of the system and culturing conditions used for the chemotactic experiment. a: Chemotaxis chamber. b: Control (no SDF-1) experiment; (c) homogeneous distribution (100 or 200 ng/mL) of SDF-1; (d) gradient of SDF-1 (the reservoir is filled with either 500 or 1,000 ng/mL of factor); (e) prestimulation of MSCs for 24 h with either 100 or 200 ng/mL of SDF-1 (e left) followed by the exposure of SDF-1 gradients (e right).

  • Exoelectrogenic biofilm as a template for sustainable formation of a catalytic mesoporous structure

    Exoelectrogenic biofilm as a template for sustainable formation of a catalytic mesoporous structure

    Schematic of the formation of a Pd mesoporous structure using a G. sulfurreducens biofilm as a biotemplate. Pd(II) is reduced to Pd nanoparticles by the biofilm in situ. The cell material is then removed by pyrolysis and oxidation leaving a mesoporous structure.

  • CHOPPI: A web tool for the analysis of immunogenicity risk from host cell proteins in CHO‐based protein production
  • Regulation mechanisms in mixed and pure culture microbial fermentation
  • Systems metabolic engineering of Escherichia coli for gram scale production of the antitumor drug deoxyviolacein from glycerol
  • Magnetostrictive particle based biosensors for in situ and real‐time detection of pathogens in water
  • Insulin receptor antibody‐iduronate 2‐sulfatase fusion protein: Pharmacokinetics, anti‐drug antibody, and safety pharmacology in Rhesus monkeys
  • Defining an optimal stromal derived factor‐1 presentation for effective recruitment of mesenchymal stem cells in 3D
  • Exoelectrogenic biofilm as a template for sustainable formation of a catalytic mesoporous structure

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