Abstract: The present disclosure comprises methods, apparatus, components, and techniques for pretreatment of biomaterials using targeted wet oxidation. The targeted wet oxidation pretreatment is an upstream method for converting solid biomass into fuels and/or specialty chemicals. Embodiments of the present disclosure comprise methods carried out on biomaterials to selectively oxidize lignin components of the biomass, thereby resulting in bio accessible/digestible biomass fibers. In embodiments of the present disclosure, such methods may comprise pretreatment processes to prepare the biomaterials for a subsequent fermentation or other like conversion may be carried out to result in useful bio fuels or other bioproducts.

Abstract: The present invention relates to isolated polypeptides having cellobiohydrolase activity and polynucleotides encoding the polypeptides. The invention also relates to nucleic acid constructs, vectors, and host cells comprising the polynucleotides as well as methods of producing and using the polypeptides.

Abstract: Disclosed herein is the production of hydrocarbon based fuel from micro-organisms and algae that comprise algaenan without requiring prior removal of water, as well as the production of hydrocarbon based fuel directly from the algaenan itself. Also disclosed herein are feed material for the processes disclosed herein comprising modified algae and algaenan that selectively produce hydrocarbon of desired chain lengths, along with the process of modifying the algae and algaenan. Also disclosed herein is the production of both hydrocarbon and organic fertilizer from algae without the need to remove the water from the algae prior to processing.

Abstract: The present invention relates to isolated polypeptides having endoglucanase activity and polynucleotides encoding the polypeptides. The invention also relates to nucleic acid constructs, vectors, and host cells comprising the polynucleotides as well as methods of producing and using the polypeptides.

Abstract: The present invention relates to isolated polypeptides having cellobiohydrolase activity and polynucleotides encoding the polypeptides. The invention also relates to nucleic acid constructs, vectors, and host cells comprising the polynucleotides as well as methods of producing and using the polypeptides.

Abstract: An isolated nucleic acid molecule that encodes a terpene synthase and is selected from among: a) a nucleic acid molecule comprising the sequence of nucleotides set forth in SEQ ID NO: 1, SEQ ID NO: 3 or SEQ ID NO: 5; b) a nucleic acid molecule that is a fragment of (a); c) a nucleic acid molecule comprising a sequence of nucleotides that is complementary to (a) or (b); and d) a nucleic acid molecule that encodes a terpene synthase having at least or at least about 60%, 65%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% identity to any one of (a)-(c); wherein the nucleic acid molecule encodes a terpene synthase.

Abstract: Bioreactors are provided that include a vessel and a jet mixer disposed in the vessel. Methods that utilize the bioreactors are provided, involving placing a microorganism or cells and a fluid medium in the bioreactor.

Abstract: The present invention relates to isolated polypeptides having endoglucanase activity and polynucleotides encoding the polypeptides. The invention also relates to nucleic acid constructs, vectors, and host cells comprising the polynucleotides as well as methods of producing and using the polypeptides.

Abstract: The present invention relates to isolated polypeptides having cellobiohydrolase activity and polynucleotides encoding the polypeptides. The invention also relates to nucleic acid constructs, vectors, and host cells comprising the polynucleotides as well as methods of producing and using the polypeptides.

Abstract: The present invention provides a photobioreactor for a phototrophic microorganism, and culture medium therefor, comprising a capsule, the capsule comprising an elongated body comprised of a first, flexible polymer film that is at least partially transparent to light of a wavelength that is photosynthetically active in a phototrophic microorganism and divided width wise into a plurality of adjacent channels, each channel having a major cross-sectional dimension that is not more than about one-third of the length of the elongated body, when the elongated body is inflated; and a fluid distribution structure coupled to the elongated body adapted for fluid communication with the plurality of adjacent channels that distributes a flow of culture medium amongst the plurality of channels, wherein the fluid distribution structure is comprised of a second, flexible polymer film.

Abstract: Disclosed herein are methods of preparing alkenes from beta-hydroxy or beta-sulfate carboxylic acid or carboxylic acid derivatives using thioesterase and optionally a sulfotransferase.

Abstract: The present invention relates to isolated polypeptides having cellobiohydrolase activity and polynucleotides encoding the polypeptides. The invention also relates to nucleic acid constructs, vectors, and host cells comprising the polynucleotides as well as methods of producing and using the polypeptides.

Abstract: The present invention relates to isolated polypeptides having xylanase activity and polynucleotides encoding the polypeptides. The invention also relates to nucleic acid constructs, vectors, and host cells comprising the polynucleotides as well as methods of producing and using the polypeptides.

Abstract: The present invention relates to isolated polypeptides having cellobiohydrolase activity and isolated polynucleotides encoding the polypeptides. The invention also relates to nucleic acid constructs, vectors, and host cells comprising the polynucleotides as well as methods of producing and using the polypeptides.

Abstract: According to the present invention, organic material is converted to biogas through anaerobic digestion and the biogas is purified to yield a combustible fluid feedstock comprising methane. A fuel production facility utilizes or arranges to utilize combustible fluid feedstock to generate renewable hydrogen that is used to hydrogenate crude oil derived hydrocarbons in a process to make transportation or heating fuel. The renewable hydrogen is combined with crude oil derived hydrocarbons that have been desulfurized under conditions to hydrogenate the liquid hydrocarbon with the renewable hydrogen or alternatively, the renewable hydrogen can be added to a reactor operated so as to simultaneously desulfurize and hydrogenate the hydrocarbons. The present invention enables a party to receive a renewable fuel credit for the transportation or heating fuel.

Abstract: The present invention is directed to variant squalene synthase enzymes, including Saccharomyces cerevisiae squalene synthase enzymes, and to nucleic acid molecules encoding these variant enzymes. These variant enzymes produce squalene at a lower rate than the wild-type enzyme, allowing more farnesyl pyrophosphate to be utilized for production of isoprenoid compounds, while still producing sufficient squalene to allow the S. cerevisiae cells to grow without the requirement for supplementation by sterols such as ergosterol. These variant enzymes, therefore, are highly suitable for the efficient production of isoprenoids.

Abstract: Herein disclosed is a method for producing liquid hydrocarbon product, the method comprising disintegrating a hydrocarbon source; pretreating the disintegrated hydrocarbon source; solubilizing the disintegrated hydrocarbon source to form a slurry comprising a reactant molecule of the hydrocarbon source; admixing a biochemical liquor into the slurry, wherein the biochemical liquor comprises at least one conversion enzyme configured to facilitate bond selective photo-fragmentation of said reactant molecule of the hydrocarbon source, to form liquid hydrocarbons via enzyme assisted bond selective photo-fragmentation, wherein said conversion enzyme comprises reactive sites configured to restrict said reactant molecule such that photo-fragmentation favorably targets a preselected internal bond of said reactant molecule; separating the liquid hydrocarbons from the slurry, wherein contaminants remain in the slurry; and enriching the liquid hydrocarbons to form a liquid hydrocarbon product.

Abstract: The present disclosure provides compositions and methods for the fermentation of cellodextrins and ?-D-glucose. Host cells and recombinant polypeptides having glucose mutarotase activity are provided. Additionally, methods for improving cell growth, production of chemicals, and consumption of cellodextrins and ?-D-glucose during fermentation of mixtures containing cellodextrins and ?-D-glucose are provided.

Abstract: Provided herein are compositions and methods for the heterologous production of acetyl-CoA-derived isoprenoids in a host cell. In some embodiments, the host cell is genetically modified to comprise a heterologous nucleotide sequence encoding an acetaldehyde dehydrogenase, acetylating (ADA, E.C. 1.2.1.10) and an MEV pathway comprising an NADH-using HMG-CoA reductase. In some embodiments, the host cell is genetically modified to comprise a heterologous nucleotide sequence encoding an ADA and an MEV pathway comprising an acetoacetyl-CoA synthase. In some embodiments, the genetically modified host cell further comprises one or more heterologous nucleotide sequences encoding a phosphoketolase and a phosphotransacetylase. In some embodiments, the genetically modified host cell further comprises a functional disruption of the native PDH-bypass. The compositions and methods described herein provide an energy-efficient yet redox balanced route for the heterologous production of acetyl-CoA-derived isoprenoids.

Abstract: The disclosure provides an isolated nucleic acid molecule encoding a 7-epizingiberene synthase, a chimeric gene comprising said nucleic acid molecule, vectors comprising the same, as well as isolated 7-epizingiberene synthase proteins themselves. In addition, transgenic plants and plant cells comprising a gene encoding a 7-epizingiberene synthase, optionally integrated in its genome, and methods for making such plants and cells, are provided. Especially Solanaceae plants and plant parts (seeds, fruit, leaves, etc.) with enhanced insect pest resistance are provided.

Abstract: A method that produces coupled radical products from biomass. The method involves obtaining a lipid or carboxylic acid material from the biomass. This material may be a carboxylic acid, an ester of a carboxylic acid, a triglyceride of a carboxylic acid, or a metal salt of a carboxylic acid, or any other fatty acid derivative. This lipid material or carboxylic acid material is converted into an alkali metal salt. The alkali metal salt is then used in an anolyte as part of an electrolytic cell. The electrolytic cell may include an alkali ion conducting membrane (such as a NaSICON membrane). When the cell is operated, the alkali metal salt of the carboxylic acid decarboxylates and forms radicals. Such radicals are then bonded to other radicals, thereby producing a coupled radical product such as a hydrocarbon. The produced hydrocarbon may be, for example, saturated, unsaturated, branched, or unbranched, depending upon the starting material.

Abstract: The present invention relates to a method of enzymatic hydrolysis of a lignocellulosic material, comprising the steps of: a) pretreating the lignocellulosic material to obtain a slurry having a pH of less than 6; b) adding NaOH, Ca(OH)2 and/or CaO to the slurry to increase its pH to at least 8, said addition being carried out at a slurry temperature of at least 60° C.; c) reducing the pH of the slurry to below 7; and optionally cooling the slurry from step b) to a temperature below 60° C.

Abstract: An energy efficient process for the preparation of marine microalgae Chlorella fatty acid methyl ester (CME) from hydrolysate of deoiled cake of Jatropha (JOCH) and crude glycerol co-product stream (GL7 and GL8) along with seawater diluted with tap water (1:2). A small part of the crude glycerol layer in case of JME is processed to recover glycerol for glycerol washing and the otherwise problematic still bottom is utilized for microbial synthesis of PHAs and the rest is utilized for Microalgal conversion of JME byproducts into CME. The remaining part of the methanol-depleted glycerol layer is utilized, along with hydrolysate of the Jatropha deoiled cake (JOCH), for single-stage Microalgal production of lipids by a marine Microalgal isolate (Chlorella sp.) without the need for any other nutrients. Waste streams from the microalgal processes can be discharged directly into agricultural fields as biofertilizer or recycled back in the mass cultivation.

Abstract: The present invention relates to processes for pre-treating cellulosic material and processes for improving hydrolysis thereof. In particular, cellulosic material such as woody biomass is contacted with one or more enzymes in a re-pulping step. The cellulosic material is then contacted with one or more enzymes to improve hydrolysis of the cellulosic material. The hydrolysis is also enzymatically enhanced by use of an amylase and/or mannanase.

Abstract: The present invention relates to processes for producing industrial products such as hydrocarbon products from non-polar lipids in a vegetative plant part. Preferred industrial products include alkyl esters which may be blended with petroleum based fuels.

Abstract: The present invention relates to methods for degrading or converting a cellulosic material and for producing substances from the cellulosic material.

Abstract: Biomass conversion systems may incorporate integrated heat management to operate more efficiently during biomass conversion. Biomass conversion systems may comprise a first fluid circulation loop comprising a hydrothermal digestion unit, and a first catalytic reduction reactor unit in fluid communication with an inlet and an outlet of the hydrothermal digestion unit; and a second fluid circulation loop comprising a reaction product take-off line in fluid communication with the first fluid circulation loop, a second catalytic reduction reactor unit in fluid communication with the reaction product take-off line, and a recycle line establishing fluid communication between the first fluid circulation loop and an outlet of the second catalytic reduction reactor unit, where the first catalytic reduction reactor unit contains at least one first catalyst and the second catalytic reduction reactor unit contains at least one second catalyst, each being capable of activating molecular hydrogen.

Abstract: Bioreactors, and particularly, photobioreactors having a reactor chamber and surge driver, and methods for using these devices, for example, for the production of carbon-based products are provided. The reactor chamber provides a housing for microorganisms and culture medium. The surge driver produces a surge of the microorganisms and/or culture medium in the reactor chamber.

Abstract: Solid waste that includes a mixture of wet organic material and dry organic material can be are separated using mechanical separation to produce a wet organic stream enriched in wet organics and a dry organic stream enriched in dry organics. The separated wet organic stream and dry organic stream are separately converted to renewable or recyclable products using different conversion techniques particularly suited for the separated wet and dry organic streams.

Abstract: The invention relates to recombinant geranyl diphosphate (GPP) synthases, genes encoding the synthases, vectors and host cells comprising the same. More particularly, the invention relates to a recombinant GPP synthase, which preferentially facilitates the production of GPP from its isoprenoid precursors and incorporating a recombinant GPP synthase into one or more terpene production pathways of a host organism.

Abstract: The present invention relates to the control of gene expression by a heterologous glucose-regulated promoter, to microorganisms in which gene expression is controlled by a heterologous glucose-regulated promoter and to methods using said microorganisms for the production of terpenes during glucose-limited fed-batch fermentation.

Abstract: Combining controlled open-ocean iron enrichment with a system for collecting the ensuing biological growth can lead to a fundamental shift towards using marine biomass feedstock for large-scale global biodiesel production. The literature review reveals that open-ocean enrichment effectively reduces both the atmospheric carbon dioxide partial pressure and ocean acidity. A semi-closed ocean system is provided that allows for the efficient cultivation and harvesting of a high tonnage biomass feedstock generated by iron fertilization. The concept methodically capitalizes on the ocean's free nutrients, kinetic/potential energy, and expansive surface area to ensure that the mass, energy, and cost balance equations favor our system while taking care to preserve the ocean's ecosystem. The system is modular, portable, easily scalable system, and minimizes waste.

Abstract: A method of producing (+)-zizaene by contacting at least one polypeptide with farnesyl pyrophosphate (FPP) in vitro or in vivo to produce (+)-zizaene, a compound which can be used as precursor for diverse compounds useful in the fields of perfumery and flavoring. An amino acid sequence of a polypeptide useful in the method, a nucleic acid encoding the polypeptide of the invention, an expression vector containing the nucleic acid and a non-human host organism or a cell transformed to be used in the method of producing (+)-zizaene are also disclosed.

Abstract: The present invention relates to a host cell deficient in an essential gene, comprising a vector, said vector comprising at least said essential gene and an autonomous replication sequence, wherein the host cell is a filamentous fungal cell. The invention also relates to a host cell deficient in an essential gene, comprising a vector, said vector comprising at least said essential gene and an autonomous replication sequence, wherein the host cell comprises a recombinant polynucleotide construct comprising a polynucleotide encoding a biological compound of interest or a compound involved in the synthesis of a biological compound of interest.

Abstract: The invention relates to a continuous process for converting carbonaceous material contained in one or more feedstocks into a liquid hydrocarbon product, said feedstocks including the carbonaceous material being in a feed mixture including one or more fluids, said fluids including water and further liquid organic compounds at least partly produced by the process in a concentration of at least 1% by weight, where the process comprises converting at least part of the carbonaceous material by pressurising the feed mixture to a pressure in the range 50-400 bar, heating the feed mixture to a temperature in the range 250-500° C., and maintaining said pressurized and heated feed mixture in the desired pressure and temperature ranges in a reaction zone for a predefined time; cooling the feed mixture to a temperature in the range 25-200° C.

Abstract: Disclosed herein is an isolated Muscodor albus strain producing volatile organic compounds such as aristolene, 3-octanone and/or acetic acid ester, as well as cultures of said strain and compositions, metabolites and volatiles derived from said strain or culture as well as methods of obtaining said compositions, metabolites and volatiles and their methods of use for controlling pests. Also disclosed are artificial compositions having the same components and uses as the volatiles derived from the strain. A method for capturing and sampling the volatiles is also disclosed.

Abstract: The present invention provides substantially purified or isolated fungi of Nodulisporium spp. or Ascocoryne spp., plants infected with said fungi, organic compounds produced by said fungi, and related nucleic acids, polypeptides and methods.

Abstract: The present invention relates to a valencene synthase, to a nucleic acid encoding such valencene synthase, to a host cell comprising said encoding nucleic acid sequence and to a method for preparing valencene, comprising converting farnesyl diphosphate to valencene in the presence of a valencene synthase according to the invention.

Abstract: A method for the in vivo production of styrene from renewable substrates using a recombinant microorganism is disclosed. Additionally, a method for the in vivo production of styrene oxide from renewable substrates using a recombinant microorganism is also disclosed. In both cases, the host cell expresses at least one gene encoding a polypeptide that possesses phenylalanine ammonia lyase activity in addition to at least one gene encoding a polypeptide that possesses trans-cinnamic acid decarboxylase activity. In the case of styrene oxide, the host cell must additionally express at least one gene encoding a polypeptide that possesses styrene monooxygenase activity.

Abstract: The invention provides method for producing butanediol and specifically 2,3-butanediol by anaerobic fermentation of a gaseous substrate comprising CO by a culture of at least one micro-organism. In accordance with particular methods of the invention, 2,3-butanediol is produced by anaerobic fermentation of substrates including carbohydrates and carbon monoxide. The invention further provides for the up-regulation of a native 2,3-butanediol dehydrogenase gene in the at least one micro-organism. The 2,3-butanediol can be further converted to compounds such as butene(s), butadiene and methyl ethyl ketone. These compounds can be further converted to chemical products such as 2-butanol.

Abstract: The present invention relates to a method for producing terpenes in fungi, wherein a terpene biosynthetic gene cluster having terpene biosynthetic genes and regulatory regions operably linked to said genes is activated. The invention relates also to a terpene biosynthetic gene cluster and regulatory regions of such terpene biosynthetic gene cluster usable is production of terpenes, use of regulator for regulating the terpene production and use of Aspergillus nidulans FGSC A4 for producing terpenes. The method of invention provides higher yields of enriched terpene product without essential amount of side-products.

Abstract: The present invention provides high-octane fuel, and a method of producing same. These fuels may be formulated to have a wide range of octane values and energy, and may effectively be used to replace 100 LL aviation fuel (known as AvGas), as well as high-octane, rocket, diesel, turbine engine fuels, as well as two-cycle, spark-ignited engine fuels.

Abstract: The present invention is directed to novel methods for production of 5-epi-?-vetivone, 2-isopropyl-6,10-dimethyl-spiro[4.5]deca-2,6-dien-8-one and 2-isopropyl-6,10-dimethylspiro[4.5]deca-1,6-dien-8-one, which are useful for their fragrant qualities. Provided are methods for production of premnaspirodiene from a terpene substrate, methods for production of 5-epi-?-vetivone from premnaspirodiene as starting material, and methods for production of 2-isopropyl-6,10-dimethyl-spiro[4.5]deca-2,6-dien-8-one and 2-isopropyl-6,10-dimethyl-spiro[4.5]deca-1,6-dien-8-one from premnaspirodiene as starting material.

Abstract: Disclosed are isolated nucleic acid molecules from Selaginella moellendorffii that encode a terpene synthase protein at least 80% identical to a protein encoded by the nucleic acid sequence according to any of SEQ ID NOs: 1-47 or a degenerate variant thereof or a functional fragment thereof. Isolated terpene synthase proteins from S. moellendorffii are also disclosed. Host cells transformed with the S. moellendorffii terpene synthase nucleic acids are also disclosed, for example cells of a single cell organism, such as bacteria and yeast, or multicellular organism, such as a plant. The host cells can be prokaryotic cells or eukaryotic cells. Transgenic plants, or any part thereof, stably transformed with S. moellendorffii terpene synthase nucleic acids are also disclosed In some examples the transgenic plant is a dicotyledon or a monocotyledon. A method is disclosed for producing a transgenic plant, as is a method for producing terpenes.

Abstract: The present invention relates to isolated polypeptides having cellobiohydrolase activity and polynucleotides encoding the polypeptides. The invention also relates to nucleic acid constructs, vectors, and host cells comprising the polynucleotides as well as methods of producing and using the polypeptides.

Abstract: Methods of isoprenoid production are provided by the present invention. In particular, transgenic Synechococcus sp. PCC 7002 cyanobacteria and methods for producing isoprene and pinene using a host transgenic Synechococcus sp. PCC 7002 cyanobacterium are provided.

Abstract: A recombinant microorganism employing a bacterial pathway to produce a cyclic amino acid (e.g., coronamic acid or norcoronamic acid) and a plant enzyme (ACC oxidase) to oxidize the amino acid and produce an alkene (e.g., 1-butene or propene) is provided herein. Expression of these two biosynthetic modules in various microbial chassis will facilitate alkene production from diverse energy and carbon sources, including sugars, glycerol, CO2, CH4, H2, and sunlight.

Abstract: Method for converting a carbon source such as a plant-derived material into a hydrocarbon or hydrocarbon precursor, via a microorganism-catalysed aerobic reaction. The microorganism is cultivated in the presence of the carbon source and of oxygen, in a reaction vessel having a capacity of about 2000 litres or greater which comprises an aeration system for supplying oxygen to the microorganism. Also provided is an apparatus for use in the method, comprising a reaction vessel of capacity 2000 litres or greater, and an aeration system.

Abstract: The invention relates to a method for obtaining organic compounds from biomass, wherein the steps of gas stripping, adsorption from the gas phase, and catalytic reaction are coordinated with each other. The method according to the invention preferably comprises the steps of fermentation, gas stripping, adsorption, desorption, catalytic reaction, condensation, and decantation, which can proceed in parallel. The invention further relates to the coupling of adsorption, desorption, and catalytic reaction by using the same zeolite material for adsorption and catalytic reaction.

Abstract: Methods or preparing para-xylene from biomass by carrying out a Diels-Alder cycloaddition at controlled temperatures and activity ratios. Methods of preparing bio-terephthalic acid and bio-poly(ethylene terephthalate (bio-PET) are also disclosed, as well as products formed from bio-PET.