Abstract: Procedure for the specific isolation of total DNA content of bacterial germs of different samples, in the course of which the cells are lysated, the DNA content of the lysate is bound selectively, it is washed and then the desalinated linear polymer nucleic acid is eluted from the binding surface in an aqueous solution. Before cell lysis the nonviable bacterial cells are separated from the viable cells on the basis of their different cell surface physical-chemical characteristics, the viable cells of the sample are kept and then lysated using a mechanical and/or enzymatic, favorably lysozyme enzymatic method. After this exclusively double-stranded DNA deriving from the lysate of viable cells is bound on a —SiO2—TiO2— matrix containing chemically activated —OH and dodecylamine groups, and after washing it, the desalinated linear polymer nucleic acid is eluted in an aqueous solution.

Abstract: The present invention relates to methods for selecting binders by phage display and masked selection. More particularly, the present invention relates to a method for selecting a plurality of binders specific for at least one relevant target comprising screening a phage binder library of binders against the relevant target in presence of a plurality of binders obtained from a library of binders directed against at least one irrelevant target and positively selecting the binders that are specific for the at least one relevant target.

Abstract: The present invention provides a method of selecting a mRNA for production of a polypeptide of interest comprising: a) producing an array of individual mRNA sequences comprising different nucleotide sequences encoding the polypeptide of interest; b) determining one or more or two or more of the following parameters for each individual mRNA sequence of (a): (i) minimum free energy (MFE) RNA secondary structure; (ii) ensemble free energy (EFE); (iii) frequency of the minimum free energy (FMFE) RNA secondary structure in a thermodynamic ensemble; and (iv) ensemble diversity (ED); c) ranking the individual mRNA sequences of the array according the parameters determined in step (b); and d) selecting a mRNA sequence from the ranked array of step (c), wherein the selected mRNA produces the polypeptide of interest. The present invention further provides a method of selecting a mRNA for enhanced and reduced production of a polypeptide of interest.

Abstract: The present invention provides compounds and methods for modulating expression of a protein, including, but not limited to, modulating splicing of a pre-mRNA to modulate the amount of one or more variants of a protein.

Abstract: Provided herein are compositions and methods for the alteration of neuronal methylation by synthetic piRNAs or by alteration of piRNA function. Such alterations find use in the regulation and control of neural gene expression and concomitant neural functions. Further provided herein are systems and methods for the identification of target sites for regulation by piRNAs.

Abstract: The present invention relates to novel phosphoramidites, A-n-bz, C-n-bz, C-n-ac, G-n-ac and U are produced with an HPLC purity of greater than 98% and 31P NMR purity greater than 99%. A novel process of reverse 5??3? directed synthesis of RNA oligomers has been developed and disclosed. Using that method demonstrated high quality RNA synthesis with coupling efficiency approaching 99%.

Abstract: An antisense molecule capable of binding to a selected target site to induce exon skipping in the dystrophin gene, as set forth in SEQ ID NO: 1 to 214.

Abstract: Disclosed herein are compositions and methods for reducing expression of C9ORF72 mRNA and protein in an animal. Such methods are useful to treat, prevent, ameliorate, or slow progression of neurodegenerative diseases in an individual in need thereof.

Abstract: The invention relates to antisense oligonucleotidic sequences (ODN) against Smad7 suitably modified, and their uses in medical field as therapeutic biological agents, in particular in the treatment of chronic inflammatory bowel disease, such as Crohn's disease and ulcerative colitis.

Abstract: Isolated histidyl-tRNA synthetase splice variant polynucleotides and polypeptides having non-canonical biological activities are provided, as well as compositions and methods related thereto.

Abstract: Provided herein are fluoropyrimidine-modified RNA aptamers capable of binding CCR5. The compositions and methods provided herein are, inter alia, useful for the delivery of anti-viral drugs (e.g., siRNAs) and preventing HIV entry into a target cell.

Abstract: In an aspect, the invention relates to compositions and methods for genetic constructs. This abstract is intended as a scanning tool for purposes of searching in the particular art and is not intended to be limiting of the present invention.

Abstract: Disclosed is a method for introducing an exogenous DNA by overcoming the restriction modification barrier of the target bacterium. The method includes the steps of 1) co-expressing all DNA-methyltransferase-encoding genes in the genome of the target bacterium in E. coli in which the restriction modification system thereof has been deleted to obtain a recombinant bacterium A, 2) introducing an exogenous DNA molecule into the recombinant bacterium A for in vivo modification so as to obtain a methylation-modified exogenous DNA molecule, and 3) introducing the methylation-modified exogenous DNA molecule into the target bacterium.

Abstract: One aspect of the invention relates to a genetically modified thermophilic or mesophilic microorganism, wherein a first native gene is partially, substantially, or completely deleted, silenced, inactivated, or down-regulated, which first native gene encodes a first native enzyme involved in the metabolic production of an organic acid or a salt thereof, thereby increasing the native ability of said thermophilic or mesophilic microorganism to produce lactate or acetate as a fermentation product. In certain embodiments, the aforementioned microorganism further comprises a first non-native gene, which first non-native gene encodes a first non-native enzyme involved in the metabolic production of lactate or acetate. Another aspect of the invention relates to a process for converting lignocellulosic biomass to lactate or acetate, comprising contacting lignocellulosic biomass with a genetically modified thermophilic or mesophilic microorganism.

Abstract: The invention relates to a novel chemically inducible plant viral amplicon (CMViva) expression system that permits controllable, high level expression of foreign genes in plant hosts. This system employs agro-infiltration of plants to provide a transient production of a protein of interest, such as a human blood protein. This system provides a major advantage over existing plant expression systems because it allows for consistent expression of foreign or heterologous proteins in plant hosts.

Abstract: The present invention relates to plants that have been transformed so as to have both disease resistance and acceptable agronomic traits. More specifically, the present invention relates to transgenic plants that have acquired disease resistance through expression in the plants of a polynucleotide encoding the transcription factor WRKY45 in an infection-responsive manner, and methods for generating the transgenic plants.

Abstract: The present invention provides breeding methods and compositions to enhance the germplasm of a plant. The methods describe the identification and accumulation of transgenes and favorable haplotype genomic regions in the germplasm of a breeding population of crop plants.

Abstract: Cotton event pDAB4468.19.10.3 comprises genes encoding AAD-12 and PAT, affording herbicide tolerance to cotton crops containing the event, and enabling methods for crop protection.

Abstract: The present invention provides the identification and use of EG261, homologs of EG261, orthologs of EG261, paralogs of EG261, and fragments and variations thereof for altering, e.g. increasing, pathogen tolerance and/or resistance in plants.

Abstract: The present invention shows that intranasal administration of E1/E3-defective adenovirus particles may confer rapid and broad protection against viral and bacterial pathogens in a variety of disease settings. Protective responses lasted for many weeks in a single-dose regimen in animal models. When a pathogen-derived antigen gene was inserted into the E1/E3-defective adenovirus genome, the antigen-induced protective immunity against the specific pathogen was elicited before the adenovirus-mediated protective response declined away, thus conferring rapid, prolonged, and seamless protection against pathogens. In addition to E1/E3-defective adenovirus, other bioengineered non-replicating vectors encoding pathogen-derived antigens may also be developed into a new generation of rapid and prolonged immunologic-therapeutic (RAPIT).

Abstract: Methods for generating immune responses using adenovirus vectors that allow multiple vaccinations with the same adenovirus vector and vaccinations in individuals with preexisting immunity to adenovirus are provided.

Abstract: The present invention relates in part to nucleic acids encoding proteins, nucleic acids containing non-canonical nucleotides, therapeutics comprising nucleic acids, methods, kits, and devices for inducing cells to express proteins, methods, kits, and devices for transfecting, gene editing, and reprogramming cells, and cells, organisms, and therapeutics produced using these methods, kits, and devices. Methods for inducing cells to express proteins and for reprogramming and gene-editing cells using RNA are disclosed. Methods for producing cells from patient samples, cells produced using these methods, and therapeutics comprising cells produced using these methods are also disclosed.

Abstract: The present invention relates in part to nucleic acids encoding proteins, nucleic acids containing non-canonical nucleotides, therapeutics comprising nucleic acids, methods, kits, and devices for inducing cells to express proteins, methods, kits, and devices for transfecting, gene editing, and reprogramming cells, and cells, organisms, and therapeutics produced using these methods, kits, and devices. Methods for inducing cells to express proteins and for reprogramming and gene-editing cells using RNA are disclosed. Methods for producing cells from patient samples, cells produced using these methods, and therapeutics comprising cells produced using these methods are also disclosed.

Abstract: Systems and methods for providing alternative fuel, in particular hydrogen photocatalytically generated by a system comprising photoactive nanoparticles and a nitrogenase cofactor are provided. In one aspect, the system includes a water soluble cadmium selenide nanoparticle (CdSe) surface capped with mercaptosuccinate (CdSe-MSA); and a NafY.FeMo-co complex comprising a NafY protein and an iron-molybdenum cofactor (FeMo-co); wherein the CdSe-MSA and the NafY.FeMo-co complex are present in about 1:1 molar ratio in a CdSe-MSA.NafY.FeMo-co system. In various embodiments, when illuminated, the CdSe-MSA.NafY.FeMo-co system is capable of photocatalytically producing hydrogen gas for an extended period of, e.g., at least 5 hours, at least 10 hours, or at least 90 hours. Methods for making and using the same are also provided.

Abstract: The invention relates to the field of modifying E. coli through genetic engineering. Specifically, the invention provides an E. coli containing a mutated lpdA gene. The invention also relates to use of the E. coli in the production of chemical material such as ethanol, and succinate etc. The invention also provides a method of producing chemical materials such as ethanol and succinate etc. by using the E. coli, as well as a method for increasing the activity of pyruvate dehydrogenase in E. coli by introducing a mutated lpdA gene.

Abstract: The present invention relates to the fermentative production of alcohols including ethanol and butanol, and processes for improving alcohol fermentation employing in situ product removal methods.

Abstract: The process for the production of alcohol and/or solvent from a biomass feedstock comprises the stages for pretreatment (P) of the biomass feedstock, for enzymatic hydrolysis (H1 and HF), and for fermenting the hydrolyzate (HF). To prevent solids from being sent and to facilitate operating the section for purifying the fermentation products, at least a portion of the solid material in the fermentation wine is extracted (Ex1) to obtain a stream of solid residue (11) comprising lignin and a fermentation wine (12) that is low in solid material. Then, the stream of solid residue is washed (L) with a liquid stream to recover a liquid stream that is enriched with fermentation products (16). The liquid stream that is enriched with fermentation products (16) is recycled in the enzymatic hydrolysis stage (H1) to recover any fermentation product and to increase the overall yield of the process.

Abstract: The invention relates to a modified microorganism for the production of PDO from a carbon substrate wherein the microorganism includes a three-step metabolic pathway including a first step of conversion of 2,4-dihydroxybutyrate (DHB) to obtain 2-oxo-4-hydroxybutyrate (OHB) by an enzyme having 2,4-DHB dehydrogenase activity, a second step of decarboxylation of the OHB to obtain 3-hydroxypropionaldehyde by an enzyme having 2-oxo-4-hydroxybutyrate decarboxylase activity, and a third step of reduction of the obtained 3-hydroxypropionaldehyde to obtain PDO with an enzyme having 3-hydroxypropionaldehyde reductase activity and the genes enabling the microorganism for the synthesis of DHB.

Abstract: A microorganism with improved acid-resistance. A microorganism capable of efficiently producing 3-HP, and methods for producing an organic acid.

Abstract: The present application provides genetically modified yeast cell comprising an active succinate fermentation pathway, as well as methods of using these cells to produce succinate.

Abstract: The present invention provides an integrated process for producing a fermentation product from fossil carbon and hydrogen present in a purge gas stream resulting from a hydrogen production process. According to one embodiment of the invention, a purge gas stream obtained from a hydrogen production process is fermented with microorganisms in one or more bioreactors to produce the fermentation product. A fermentation exhaust gas stream from the one or more bioreactors comprising hydrogen, carbon monoxide and/or methane is then obtained and heat is generated therefrom to provide energy for the hydrogen production process.

Abstract: Biomass (e.g., plant biomass, animal biomass, microbial, and municipal waste biomass) is processed to produce useful products, such as food products and amino acids.

Abstract: Biomass (e.g., plant biomass, animal biomass, microbial, and municipal waste biomass) is processed to produce useful products, such as food products and amino acids.

Abstract: The present disclosure relates to a process of production and extra-cellular secretion of lipids from an oleaginous microorganism by using a modified growth medium deficient in nitrogen and iron.

Abstract: The present disclosure relates to biocatalysts and its uses for the efficient preparation of eslicarbazepine, eslicarbazepine acetate, and analogs thereof.

Abstract: A method of producing a sugar solution includes (1) to (3): (1) preparing a slurry of a cellulose-containing biomass pretreated material and an inactivated cellulose, (2) hydrolyzing the slurry in (1) by adding a filamentous fungus-derived cellulase to the slurry, and (3) separating a hydrolysate in (2) into a solution component and a hydrolysis residue through solid-liquid separation, and filtering the solution component through an ultrafiltration membrane, thereby recovering the filamentous fungus-derived cellulase as a non-filtrate and the sugar solution as a filtrate.

Abstract: A process for producing poly alpha-1,3-glucan with reduced molecular weight is disclosed. The process comprises contacting water, sucrose, a polar organic solvent, and a glucosyltransferase enzyme in a solution to produce poly alpha-1,3-glucan. This contacting step results in the production of poly alpha-1,3-glucan having a reduced molecular weight compared to the molecular weight of a poly alpha-1,3-glucan made in the absence of the polar organic solvent.

Abstract: The invention relates to a method for detecting a plasmodium infection in a patient blood sample, wherein a differential analysis of the polymorphonuclear neutrophil granulocytes in the sample is performed, and the distribution of the cell volume and the cell density, the number of thrombocytes in the sample, and the distribution of the cell density of the thrombocytes in the sample is determined.

Abstract: A bacterial pre-concentration and detection system generally includes a collection tube (110), a sensor (120) at the bottom of the collection tube, a moveable stopper (130) initially located toward the top of the tube, a piston (300) operatively connected to a robot for moving the stopper up or down the inside of the collection tube, and a hollow needle (400) penetrating the stopper and creating fluid communication with the inside of the collection tube. The system allows for the sample to be collected, lysed, centrifuged, concentrated, and interrogated with regard to the presence or absence of microorganisms with minimal steps and with a reduction in the time-to-detection, compared with conventional growth-based bacterial detection systems.

Abstract: An embodiment of the invention provides an ultrasensitive and selective system and method for detecting reactants of the chemical/biochemical reaction catalyzed by an oxidoreductase, such as glucose and ethanol, at a concentration level down to zepto molar (10?21 M). In embodiments, the invention provides an ampyometric immuno-sensing system comprising a working electrode, an oxidoreductase, and an external voltage generator, wherein the oxidoreductase is immobilized on the working electrode; and the voltage generator generates a voltage to induce an electric field that permeates at least a portion of the interface between the oxidoreductase and the working electrode. The ultrasensitivity of the system and method is believed to be caused by the electrical field, which enhances the quantum mechanical tunneling effect in the interface, and therefore facilitates the interfacial electron transfer between the oxidoreductase and the working electrode.

Abstract: The invention relates to novel peptidase substrates of formula (I): wherein R0, R1, R2, R3, R4, R5 and n are as defined in claim 1, and a method for detecting the presence of a catalytically active peptidase, by means of one of these substrates.

Abstract: Deubiquitinating enzyme (DUB) probes are provided that resemble native diubiquitin (diUB) with a similar linkage size and that may contain a Michael acceptor for trapping the DUB active-site cysteine. For example, both K63- and K48-linked diubiquitin probes are generated using a facile chemical ligation method, utilizing the linker compound 3-(2-(bromomethyl)-1,3-dioxolan-2-yl)prop-2-en-1-amine. The diUb probes are capable of labelling DUBs from different families and may be employed to reveal intrinsic linkage specificities of DUBs.

Abstract: Systems and methods are provided for high speed sorting of objects in a continuous body of fluid. The object can be analyzed within one or more interrogation volumes that allow for simultaneous or time-correlated measurement of the object's properties. A processor can interpret the properties of the object and then measured and then direct the object to one of a plurality of downstream flow paths. In some embodiments, the sorting of the object is based on two or more properties of the object. The sorting process can be repeated to create a network of sorting events.

Abstract: A technique for performing spectral calibration simultaneously with electrophoresis of an actual sample to be analyzed, without performing electrophoresis using a special matrix standard which is time-consuming and costly, is provided. The device for genotypic analysis is characterized by obtaining reference fluorescence spectra using a size standard and an allelic ladder, which provide information concerning known DNA fragments used for electrophoresis of an actual sample, and is characterized by performing spectral calibration for a capillary in which the allelic ladder is not used by detecting a shift amount of the fluorescence spectra of the size standard and shifting the reference fluorescence spectra using the shift amount to determine fluorescence spectra.

Abstract: The invention provides methods and compositions, including, without limitation, algorithms, computer readable media, computer programs, apparatus, and systems for determining the identity of nucleic acids in nucleotide sequences using, for example, data obtained from sequencing by synthesis methods. The methods of the invention include correcting one or more phenomena that are encountered during nucleotide sequencing, such as using sequencing by synthesis methods. These phenomena include, without limitation, sequence lead, sequence lag, spectral crosstalk, and noise resulting from variations in illumination and/or filter responses.

Abstract: Embodiments of the present invention relate generally to strategies and methods of amplifying short target sequences and removing flanking sequences from target nucleic acids to remove background signal when detecting hybridizations events using sensitive detection biosensors, such as biosensors based on nanowires, carbon nanotubes, nanopores etc, that may be capable of detecting molecules at small molar concentrations (fM and less), or even at the single molecule level. Furthermore, by cropping and therefore standardizing the size of the target sequences to be detected, when detecting many target sequences in an array, the signals across each biosensor can be compared and the hybridization conditions standardized easily.

Abstract: Methods are provided for genotyping a target nucleic acid in a sample. In various aspects, the methods comprise generating nucleic acid hybrids between probes specific for the genotypes of interest and the target nucleic acid and detecting hybridization in the sample. In other aspects, the methods comprise using multi-probe mixtures to reduce the volume of sample necessary to determine the genotype of the target nucleic acid.

Abstract: A method for stabilizing conjugates between macromolecule and nanoparticle by forming a thin reinforcement layer over the surface of a nanoparticle after macromolecule chains have attached to the surface of the nanoparticle. The stabilized conjugates can be used in a wide range of applications such as in vitro diagnostics, in vivo imaging and therapeutics, which need to be conducted under various severe or harsh conditions.

Abstract: The present invention reduces primer-dimer amplification in a multiplex polymerase chain reaction (PCR). When a first forward primer (F1) and a second reverse primer (R2) have a complementary region at their 3?ends, primer dimers may form. The present method uses a primer comprising a 5?-end partial sequence or a full sequence of a first forward primer (F1^) in between a first tag (t1) and R2 to reduce the primer-dimer (F1_R2) amplification.

Abstract: The invention provides methods, nucleic acids and kits for detecting prostate cell proliferative disorders. The invention discloses genomic sequences the methylation patterns of which have utility for the improved detection of said disorder, thereby enabling the improved diagnosis and treatment of patients.