Abstract: This present disclosure relates to methods for improved production of proteins from a cell culture, particularly to culture components and conditions that can preferentially increase the expression of proteins produced from genes under the control of xylanase gene promoter sequences. The improved methods can be used for the production of enzyme compositions with enhanced xylanase and hemicellulolytic activity.

Abstract: The subject matter of the invention is a method for decontaminating starch hydrolysates from which glucose polymers for producing peritoneal dialysis solutions will be prepared.

Abstract: Methods for obtaining concentrated sugar solution from polysaccharide enriched biomass by contacting biomass with water and at least one nucleophilic base to produce a polysaccharide enriched biomass comprising a solid fraction and a liquid fraction and then contacting the solid fraction with saccharification enzyme consortium to produce a saccharification product comprising at least about 7 percent by weight sugars in 24 hours. The methods include optionally adding at least one additive selected from the group consisting of polyethylene glycols, fatty acid esters, fatty acid ethoxylates, nonionic surfactants derived from polyethoxylated sorbitan and a fatty acid, sodium lauriminodipropionate, sodium cocoamphoacetate, sodium tridecyl ether sulfate and a combination of these, such that enzyme loading of the saccharification enzyme consortium can be reduced.

Abstract: The present invention relates to polypeptide having cellulolytic enhancing activity variants. The present invention also relates to polynucleotides encoding the variants; nucleic acid constructs, vectors, and host cells comprising the polynucleotides; and methods of using the variants.

Abstract: Materials and methods are described to produce xylitol from a mixture of hemicellulosic sugars by several routes. Examples include either as a direct co-product of a biorefinery or ethanol facility, or as a stand-alone product produced from an agricultural or forestry biomass feedstock including using, e.g. ethanol waste streams.

Abstract: A system including an apparatus is presented for treatment of biomass that allows successful biomass treatment at a high solids dry weight of biomass in the biomass mixture. The design of the system provides extensive distribution of a reactant by spreading the reactant over the biomass as the reactant is introduced through an injection lance, while the biomass is rotated using baffles. The apparatus system to provide extensive assimilation of the reactant into biomass using baffles to lift and drop the biomass, as well as attrition media which fall onto the biomass, to enhance the treatment process.

Abstract: The present invention relates to polypeptides comprising a carbohydrate-binding module amino acid sequence and an alpha-amylase amino acid sequence as well as to the application of such polypeptides.

Abstract: The invention provides a method of degrading or hydrolyzing a polysaccharide, preferably cellulose or chitin, comprising contacting said polysaccharide with one or more oxidohydrolytic enzymes, preferably a CBM33 family protein (preferably CBP21) or a GH61 family protein, wherein said degradation or hydrolysis is carried out in the presence of at least one reducing agent and at least one divalent metal ion. A method of producing an organic substance comprising said method is also provided.

Abstract: Isolated and/or purified polypeptides and nucleic acid sequences encoding polypeptides from Alicyclobacillus acidocaldarius are provided. Further provided are methods of at least partially degrading, cleaving, or removing polysaccharides, lignocellulose, cellulose, hemicellulose, lignin, starch, chitin, polyhydroxybutyrate, heteroxylans, glycosides, xylan-, glucan-, galactan-, or mannan-decorating groups using isolated and/or purified polypeptides and nucleic acid sequences encoding polypeptides from Alicyclobacillus acidocaldarius.

Abstract: A method produces a sugar liquid by repeating a sugar liquid production process including (1) to (3): (1) adding a filamentous fungus-derived cellulase to cellulose to perform primary hydrolysis; (2) adding a fresh filamentous fungus-derived cellulase to the hydrolysate in Step (1) to perform secondary hydrolysis; and (3) subjecting the hydrolysate in Step (2) to solid-liquid separation to obtain a sugar liquid, from which a recovered enzyme is obtained; wherein the recovered enzyme obtained in Step (3) is used for Step (1) of the next and later sugar liquid production processes.

Abstract: Polymeric sequence probes and methods are described that enhance the speed and sensitivity of detection of target analytes by combining a multiplicity of binding moieties specific for analyte, at least two of which are linearly arranged and optionally a multiplicity of detectable labels.

Abstract: Isolated and/or purified polypeptides and nucleic acid sequences encoding polypeptides from Alicyclobacillus acidocaldarius are provided. Further provided are methods of at least partially degrading, cleaving, or removing polysaccharides, lignocellulose, cellulose, hemicellulose, lignin, starch, chitin, polyhydroxybutyrate, heteroxylans, glycosides, xylan-, glucan-, galactan-, or mannan-decorating groups using isolated and/or purified polypeptides and nucleic acid sequences encoding polypeptides from Alicyclobacillus acidocaldarius.

Abstract: Fibrous materials, compositions that include fibrous materials, and uses of the fibrous materials and compositions are disclosed. For example, the fibrous materials can be operated on by a microorganism to produce ethanol or a by-product, such as a protein or lignin.

Abstract: Methods and systems to achieve clean fuel processing systems in which carbon dioxide emissions (1) from sources (2) may be processed in at least one processing reactor (4) containing a plurality of chemoautotrophic bacteria (5) which can convert the carbon dioxide emissions into biomass (6) which may then be used for various products (21) such as biofuels, fertilizer, feedstock, or the like. Sulfate reducing bacteria (13) may be used to supply sulfur containing compounds to the chemoautotrophic bacteria (5).

Abstract: Fructosylated puerarin being converted from puerarin by a bioconversion method conducted in an aqueous phase or nonaqueous phase system, including monofructosyl-(2,6)-puerarin, bifructosyl-(2,6)-puerarin, trifructosyl-(2,6)-puerarin, tetrafructosyl-(2,6)-puerarin and pentafructosyl-(2,6)-puerarin. Tests have shown that the oligosaccharylated puerarin is effective to treat acute myocardial ischemia, and can markedly suppress in vitro the proliferation of human breast cancer cell strain MDA-MB-23 and human chronmyelogenors leukemia cell strain K562, and it has a low toxicity.

Abstract: A genetically modified organism comprising: at least one nucleic acid sequence and/or at least one recombinant nucleic acid isolated from Alicyclobacillus acidocaldarius and encoding a polypeptide involved in at least partially degrading, cleaving, transporting, metabolizing, or removing polysaccharides, cellulose, lignocellulose, hemicellulose, lignin, starch, sugars, sugar oligomers, carbohydrates, complex carbohydrates, chitin, heteroxylans, glycosides, xylan-, glucan-, galactan-, or mannan-decorating groups; and at least one nucleic acid sequence and/or at least one recombinant nucleic acid encoding a polypeptide involved in fermenting sugar molecules to a product. Additionally, enzymatic and/or proteinaceous extracts may be isolated from one or more genetically modified organisms. The extracts are utilized to convert biomass into a product.

Abstract: An apparatus and method for producing methane gas, synthetic hydrocarbon gas, and fertilizer is provided. The apparatus includes a mix tank for mixing cellulosic material with a solvent into a slurry and a generator having an exhaust. The apparatus further includes a stir tank reactor for converting the slurry to a solution containing lignin-like carbon and liquid, and a separator for separating the lignin-like carbon and liquid. An anaerobic digester decomposes the received liquid received from the stir tank into methane and liquid components. A carbon dioxide scrubber scrubs the methane component of carbon dioxide. The method includes mixing cellulosic material with a solvent into a slurry, and converting the slurry to a solution containing lignin-like carbon and liquid. It also includes separating the lignin-like carbon and liquid and decomposing the liquid into methane and liquid components, and scrubbing the methane component of carbon dioxide.

Abstract: Provided are modified beta-glucosidase enzymes, derived from the Trichoderma reesei Cel3A beta-glucosidase, that exhibit improvements in one or more kinetic parameters (KG, KG2, kcat) comprising amino acid substitutions at one or more of positions 43, 101, 260 and 543. Also provided are genetic constructs comprising nucleotide sequences encoding for modified beta-glucosidase enzymes, methods for the production of modified beta-glucosidase enzymes from host strains and the use of the modified beta-glucosidase enzymes in the hydrolysis of cellulose.

Abstract: Functionalized substrate materials, for example inorganic particles and/or synthetic polymeric particles, are used to enhance bioprocesses such as saccharification and fermentation.

Abstract: Biomass is pretreated using an organic solvent solution under alkaline conditions in the presence of ammonia and optionally an additional nucleophile to fragment and extract lignin without loss of hemicellulose. Pretreated biomass is further hydrolyzed with a saccharification enzyme consortium. Fermentable sugars released by saccharification may be utilized for the production of target chemicals by fermentation.

Abstract: The instant invention pertains to the use of formic acid in new processes for treating feedstocks comprising holocellulose, as well as, new compositions suitable for, for example, bioalcohol production. The processes may comprise first mixing the feedstock with an aqueous acid solution comprising formic acid and then producing a hydrolysis product comprising monosaccharides and water-soluble oligosaccharides. The compositions typically comprise a feedstock comprising holocellulose and an aqueous acid solution comprising formic acid. Advantageously, the processes and compositions of the present invention may be used in more environmentally friendly, cost-efficient production of fuels.

Abstract: The invention relates to poly-sialyltransferse polypeptides with enhanced solubility and activity and methods of using the poly-sialyltransferases for production of poly-sialylated end products, e.g., oligosaccharides, glycoproteins and glycolipids.

Abstract: The invention pertains to novel proteins corresponding to Chrysosporium glycosyl hydrolases of families 7 and 10, exhibiting a minimum aminoacid identity of 70 and 75%, respectively, with the amino acid sequence of SEQ ID No's 2 and 4, and to a protein corresponding to a Chrysosporium glyceraldehyde phosphate dehydrogenase, exhibiting at least 86% amino acid identity with the partial amino acid sequence of SEQ ID No. 6. The invention further relates to nucleic acid sequences encoding these proteins, and especially to promoter sequences regulating the expression of the corresponding genes. The preferred host for expressing these genes is a fungus, especially a Chrysosporium strain.

Abstract: Disclosed herein are materials useful for degrading plant biomass material. In exemplary embodiments, the plant material comprises one or more enzymes that are expressed in plants and/or bacteria. Specifically exemplified herein are plant degrading enzymes expressed in chloroplasts. The chloroplast expressed enzymes may be provided as cocktails for use in conjunction with conventional methods of converting biomass into biofuels, such as cellulosic ethanol. In other exemplary embodiments, methods and materials are disclosed for degrading mannans.

Abstract: A method is presented for the production of cellulosic ethanol, acetic acid and derivatives from the extract containing fibers and hemicelluloses after steam cooking of biomass in a host plant. The process is integrated with the host plant process to minimize the effect of loss of heat value from the extracted hemicelluloses and eliminate the need for the waste water treatment plant.

Abstract: A lignocellulosic biomass saccharification pre-treatment device for easily recovering ammonia water to be used in a pre-treatment for saccharification of a lignocellulosic biomass and recycle use. The device has a mixing unit 2 mixing lignocellulosic biomass and ammonia, a heating unit 3 heating the mixture, a separation unit 4 separating ammonia gas from the mixture to obtain a biomass-water mixture, and a transfer unit 6 transferring the biomass-water mixture to a later process. An ammonia water supply unit 8 supplies ammonia water to the mixing means 2. An ammonia recovery unit 20 recovers ammonia gas as ammonia water. A heat-of-dissolution recovery unit 24 recovers heat-of-dissolution generated when ammonia gas is dissolved in water. A heat pump unit 30 generates heat to be supplied to the heating unit 3 using at least the heat-of-dissolution as a heat source.

Abstract: A method is provided for producing an improved pretreated biomass product for use in saccharification followed by fermentation to produce a target chemical that includes removal of saccharification and or fermentation inhibitors from the pretreated biomass product. Specifically, the pretreated biomass product derived from using the present method has fewer inhibitors of saccharification and/or fermentation without a loss in sugar content.

Abstract: The present invention relates to an isolated mutant eubacterium comprising at least one mutation resulting in a substitution of at least one amino acid in the beta-subunit of the RNA-polymerase encoded for by the rpoB-gene providing an altered production of a product of interest when said production of a product of interest is compared to the production of the same product in an isogenic wild type strain grown at identical conditions, wherein the substitution of at least one amino acid occurs at any of positions 469, 478, 482, 485, or 487 of SEQ ID NO:2, or at the equivalent positions in any eubacterial RNA-polymererase beta-subunit family member. Another aspect of the invention relates to a process for producing at least one product of interest in a mutant eubacterium and to a use of the mutant eubacterium according to the invention for producing at least one product of interest.

Abstract: This invention relates to a process for producing a sugar nucleotide, in which a) a culture broth of a microorganism capable of producing NTP from a nucleotide precursor, or a treated product of the culture broth, and b) a culture broth of a microorganism capable of producing a sugar nucleotide from a sugar and NTP, or a treated product of the culture broth, are used as enzyme sources; a process for producing a complex carbohydrate, in which the above-described a) and b) and c) a culture broth of a microorganism, an animal cell or an insect cell capable of producing a complex carbohydrate from a sugar nucleotide and a complex carbohydrate precursor, or a treated product of the culture broth, are used as enzyme sources; a process for producing a complex carbohydrate, in which a culture broth of a microorganism, an animal cell or an insect cell capable of producing a complex carbohydrate from a sugar nucleotide and a complex carbohydrate precursor, or a treated product of the culture broth, is as an enzyme sour

Abstract: This invention relates to molecular and cellular biology and biochemistry. In one aspect, the invention provides polypeptides having cellulase activity, e.g., endoglucanase, cellobiohydrolase, mannanase and/or ?-glucosidase activity, polynucleotides encoding these polypeptides, and methods of making and using these polynucleotides and polypeptides. In one aspect, the invention is directed to polypeptides cellulase activity, e.g., endoglucanase, cellobiohydrolase, mannanase and/or ?-glucosidase activity, including thermostable and thermotolerant activity, and polynucleotides encoding these enzymes, and making and using these polynucleotides and polypeptides. The polypeptides of the invention can be used in a variety of pharmaceutical, agricultural, food and feed processing and industrial contexts.

Abstract: The invention relates to a polypeptide comprising the amino acid sequence set out in SEQ ID NO: 2 or an amino acid sequence encoded by the nucleotide sequence of SEQ ID NO: 1, or a variant polypeptide or variant polynucleotide thereof, wherein the variant polypeptide has at least 82% sequence identity with the sequence set out in SEQ ID NO: 2 or the variant polynucleotide encodes a polypeptide that has at least 82% sequence identity with the sequence set out in SEQ ID NO: 2. The invention features the full length coding sequence of the novel gene as well as the amino acid sequence of the full-length functional polypeptide and functional equivalents of the gene or the amino acid sequence. The invention also relates to methods for using the polypeptide in industrial processes. Also included in the invention are cells transformed with a polynucleotide according to the invention suitable for producing these proteins.

Abstract: This invention provides nucleic acids and proteins involved in oligosaccharide modification in the species Bifidobacteria. The invention provides methods for utilizing the proteins of the invention to generate human milk oligosaccharides or oligosaccharide mimics. The invention also provides compositions containing the human milk oligosaccharides or oligosaccharide mimics and methods for use.

Abstract: This application provides a process for preparing enantiomerically pure ?-D-dioxolane nucleosides. In particular, a new synthesis of (?)-DAPD, suitable for large scale development, is described. In one embodiment the invention provides a process for preparing a substantially pure ?-D- or ?-L-1,3-dioxolane nucleosides comprising a) preparing or obtaining an esterified 2,2-dialkoxy ethanol; b) cyclizing the esterified 2,2-dialkoxy ethanol with glycolic acid to obtain a 1,3-dioxolane lactone; c) resolving the 1,3-dioxolane lactone to obtain a substantially pure D- or L-lactone; d) selectively reducing and activating the D- or L-chiral lactone to obtain a substantially pure D- or L-1,3-dioxolane; e) coupling the D- or L-1,3-dioxolane to an activated and/or protected purine or pyrimidine base; and f) optionally purifying the nucleoside to obtain a substantially pure protected ?-D- or ?-L-1,3-dioxolane nucleoside.

Abstract: The present invention provides fungal proteases and improved fungal strains that are deficient in protease production.

Abstract: A process for the treatment of biomass to render structural carbohydrates more accessible and/or digestible using concentrated ammonium hydroxide with or without anhydrous ammonia addition, is described. The process preferably uses steam to strip ammonia from the biomass for recycling. The process yields of monosaccharides from the structural carbohydrates are good, particularly as measured by the enzymatic hydrolysis of the structural carbohydrates. The monosaccharides are used as animal feeds and energy sources for ethanol production.

Abstract: The present invention relates to a process for the production of an aqueous glucose solution from maize or maize kernels. The invention also relates to a glucose solution obtainable by this process, and to its use for the production of organic compounds. The process according to the invention comprises: a) fractionating dry milling of maize kernels, where the maize kernels are separated into a maize-starch-comprising endosperm fraction and a high-oil germ fraction and, if appropriate, a bran fraction; b) enzymatic liquefaction and saccharification of the maize starch in an aqueous suspension of the endosperm fraction, which gives an aqueous glucose solution comprising maize gluten; and c) depletion of the maize gluten and, if appropriate, any bran present from the aqueous glucose solution.

Abstract: Biomass is pretreated using an organic solvent solution under alkaline conditions in the presence of one or more alkylamine and optionally one or more additional nucleophile to fragment and extract lignin. Pretreated biomass is further hydrolyzed with a saccharification enzyme consortium. Fermentable sugars released by saccharification may be utilized for the production of target chemicals by fermentation.

Abstract: The present invention provides spray methods of delivering saccharification enzymes, fermentation organisms, and other hydrolysis or fermentation ingredients onto lignocellulosic biomass. The methods reduce the need for mechanical mixing when the biomass solids are undergoing enzymatic hydrolysis, and reduce dilution to allow higher product titers in the hydrolysis and/or fermentation steps.

Abstract: Methods and systems for producing a biofuel using genetically modified ammonia-oxidizing bacteria (AOB) are disclosed. In some embodiments, the methods include the following: providing an AOB that have been genetically modified to include a particular metabolic pathway to enable them to generate a particular biofuel or chemical; feeding a first source of ammonia to the AOB; feeding carbon dioxide to the AOB; and producing at least the biofuel or chemical, nitrite, and an AOB biomass. In some embodiments, the methods and systems include the following: a bioreactor including AOB that have been genetically modified to include a particular metabolic pathway to enable them to generate a particular biofuel; a first source of ammonia; a source of carbon dioxide; and a electrochemical reactor that is configured to electrochemically reduce nitrite produced in the bioreactor to a second source of ammonia.

Abstract: Methods of processing paper feedstocks are provided, as well as intermediates and products made using such methods. Certain types of paper feedstocks, in particular highly pigmented papers, and/or highly loaded papers such as paper that has been color printed, e.g., magazines, and high basis weight coated papers, e.g., magazine stock, are utilized to produce useful intermediates and products, such as energy, fuels, foods or materials.

Abstract: A method for producing a saccharification pre-processed material capable of producing a saccharification pre-processed material, in which lignin is sufficiently dissociated, when lignocellulose-based biomass is pre-processed with ammonia water, and a pre-processing device used therefor are provided. A saccharification pre-processing device 1 comprises a processing means 2 for mixing a substrate with ammonia water with the concentration from 20 to 30% by mass at a mass ratio of substrate:ammonia water=1:0.7 to 1:1.3 to yield a substrate mixture; heating the substrate mixture while keeping the same at a temperature of 25 to 100° C.

Abstract: Disclosed are variants of Humicola grisea Cel7A (CBH1.1), H. jecorina CBH1 variant or S. thermophilium CBH1, nucleic acids encoding the same and methods for producing the same. The variant cellulases have the amino acid sequence of a glycosyl hydrolase of family 7A wherein one or more amino acid residues are substituted.

Abstract: The present invention relates to a method for producing tagatose using soy oligosaccharide or soluble sugar solution containing the same, more precisely, a method for producing tagatose comprising the following steps; hydrolyzing soy oligosaccharide by using ?-galactosidase selectively; producing tagatose continuously by enzymatic isomerization of galactose obtained from the hydrolysate; separating the produced tagatose by chromatography; and recycling the non-reacted materials.

Abstract: The present invention relates to a method for producing phytase variants has at least 70% identity to a phytase derived from Buttiauxella and comprises at least one additional disulfide bond as compared to this phytase. These phytase variants have modified, preferably improved, properties, such as thermostability, temperature profile, pH profile, specific activity, performance in animal feed, reduced protease sensitiliby, and/or an modified glycosylation pattern. The invention also relates to the variants produced, DNA encoding these phytases, methods of their production, as well as the use thereof, e.g. in animal feed and animal feed additives.

Abstract: Provided herein is a transgenic bacteria engineered to accumulate carbohydrates, for example disaccharides. Also provided is a photobioreactor for cultivating photosynthetic microorganisms comprising a non-gelatinous, solid cultivation support suitable for providing nutrients and moisture to photosynthetic microorganisms and a physical barrier covering at least a portion of the surface of the cultivation support. Devices for the large scale and continuous cultivation of photosynthetic microorganisms incorporating photobioreactors and methods of use are disclosed. Also disclosed are methods of producing fermentable sugar from photosynthetic microorganisms using a photobioreactor of the invention.

Abstract: Provided is a method of producing alcohol or sugar in a commercial-scale bioreactor using a reformulated commercial enzyme preparation. Also provided is a bioreactor modified to practice the method.

Abstract: The invention provides a method that allows fermentation impeding substances that occur during production of a sugar from cellulose-containing biomass to be removed in an aqueous sugar solution production step, and also provides a method for long-term stable production of an aqueous refined sugar solution that is nearly free from fermentation impeding substances.

Abstract: A method for recovering inorganic salt during processing of a lignocellulosic feedstock is provided. The method comprises pretreating the lignocellulosic feedstock by adding an acid to the feedstock to produce a pretreated lignocellulosic feedstock. A soluble base is then added to the pretreated lignocellulosic feedstock to adjust the pH and produce a neutralized feedstock. The neutralized feedstock is then enzymatically hydrolyzed to produce an enzyme hydrolyzed feedstock and a sugar stream. Inorganic salt is recovered from either a stream obtained from the lignocellulosic feedstock prior to the step of pretreating, a stream obtained from the pretreated lignocellulosic feedstock, a stream obtained from the neutralized feedstock, a stream obtained from the sugar stream, or a combination of these streams. The inorganic salt may be concentrated, clarified, recovered and purified by crystallization, electrodialysis drying, or agglomeration and granulation, and then used as desired, for example as a fertilizer.

Abstract: The invention relates to the type 5 and type 8 capsular polysaccharides produced by overproducing S. aureus strains, and also to the immunogenic compositions and the vaccines comprising said capsular polysaccharides.

Abstract: The present application discloses an improved method for conducting saccharide-protein conjugation reactions using carbodiimide condensation chemistry. Depending on the nature of the saccharide or protein carrier involved, the quality of the conjugate may be improved by adding one of the reaction components slowly to the reaction mixture. Immunogenic compositions are further provided comprising the saccharide-protein conjugates made by the methods disclosed.