Abstract: In alternative embodiments, the invention provides computational algorithms, computer programs, software and other methods, systems and products of manufacture (e.g., computers, devices or apparatus) for identifying members of microbial communities, their abundance and distribution from amplicon sequence data, and comparing microbial communities and consortia. In alternative embodiments, the invention provides computer-implemented methods comprising a subset of, substantially all, or all of the steps as set forth in the flow chart of FIG. 1, FIG. 3 or FIG. 4. In alternative embodiments, the invention provides methods for identification of consortia, optionally followed by construction of artificial microbial consortia from pure strains or enrichment cultures.

Abstract: The present invention relates to a Sphingomonas sp. MD2 strain (KCTC 11845BP), a composition including the strain for decomposing methane or odor-producing compounds, a biocover or biofilter including the composition, a method for decomposing methane or odor-producing compounds using the composition, a system for decomposing methane or odor-producing compounds using the biocover or biofilter, and the use of the strain for decomposing methane or odor-producing compounds. According to the present invention, methane and odor can be effectively removed concurrently, and thus the cost required for the separate treatment of methane and odor can be reduced, and methane and odor-producing compounds in landfills or the like can be effectively decomposed.

Abstract: The object of the present invention is a composition of bacterial strains which may comprise Stenotrophomonas sp. strain 2L, Stenotrophomonas sp. strain 5L, Stenotrophomonas sp. strain 6L, Stenotrophomonas sp. strain 3N, Achromobacter sp. strain 4P, Arthrobacter sp. strain 1N, Brevundimonas sp. strain 2N, Brevundimonas sp. strain 5N, Brevundimonas sp. strain 6N, Pseudomonas sp. strain 3G, and Pseudomonas sp. strain 4, deposited under the number KKP 2041p (IAFB Collection of Industrial Microorganisms—Institute of Agricultural and Food Biotechnology in Warsaw), a bioremediation vaccine (bioremediation mixture) which may comprise the composition of these strains, the use of the vaccine in the removal of contaminants from the soil, and the method for the treatment of contaminated soil.

Abstract: A biological soil nutrient system that combines beneficial soil fungi and bacteria in a growth promoting nutrient medium, embedded in an inorganic porous ceramic particle for direct delivery during soil aerification to the rhizosphere of adventitious plants, including sports turf, landscape and agricultural applications.

Abstract: This invention provides methods and compositions for producing reduced cholesterol animal foodstuffs and products by feeding livestock and other food-producing animals with feed supplemented with microbial cultures containing hypocholesterolemic compounds produced by microorganisms comprising said microbial cultures. The invention provides low cholesterol poultry, eggs, meat, whole milk, and dairy products.

Abstract: The invention includes methods and compositions for treating an animal to inhibit the incidence and growth of E. coli O157:H7 and other pathogenic bacteria. The treatment method comprises administering a therapeutically effective amount of Lactobacillus acidophilus or one or a combination of a number of other probiotic bacteria to an animal. An alternative treatment method comprises administering a therapeutically effective amount of a lactic acid producing bacterium such as Lactobacillus acidophilus in combination with a lactate utilizing bacterium such as Propionibacterium freudenreichii.

Abstract: The present invention relates to an extract from bacterial strains, such as Staphylococcus, Moraxella, Klebsiella, Streptococcus, and Haemophilus. The extract is useful as a treatment for indications such as respiratory disorders, compositions comprising the extract, and processes of making the extract from media that do not pose a risk of prion diseases.

Abstract: A composite marine bacterial liquid for the synergic degradation of high-molecular-weight polycyclic aromatic hydrocarbons (HMW PAHs) and the preparation method thereof. The composite marine bacterial liquid is generated by mixing the fermented culture liquid of a stain of Cycloclasticus sp. PY97M and a stain of Marinobacter sp. D15-8W, the cell concentration of each is 107-109 CFU/mL. The preparation method includes: inoculating the seed liquid of Cycloclasticus strains and Marinobacter strains individually into the sodium acetate medium or M8 medium, fermenting under the condition of defoaming by flowing addition of defoamer, and mixing the fermented cultures to obtain the composite marine bacterial liquid, then preparing a 5-fold concentrated liquid by centrifuging and storing at 4° C.

Abstract: The present invention encompasses cultured collections of a gut microbial community, models comprising such cultures, and methods of use thereof.

Abstract: The invention provides methods and compositions for the production of L-ribitol and other rare sugars using a mannitol-1-dehydrogenase.

Abstract: A subject of the invention is a composition containing strains Lactobacillus fermentum 57A, Lactobacillus plantarum 57B and Lactobacillus gasseri 57C of special characteristics such as a feature of strong diversified affinity for the digestive tract and vaginal epithelia enabling the colonization of the vagina and anus after the crossover through intestines as well as the feature of co-aggregation enabling for synergetic activity. The subject of the invention is also the application of the composition for restoration of the natural bacterial flora of the vagina and anus.

Abstract: The present invention relates to frozen and freeze dried starter culture compositions comprising microorganisms. The invention also relates to methods of producing the frozen and freeze dried starter culture compositions and methods of using them.

Abstract: The invention relates to compositions for use as silage inoculants comprising a yeast strain, one or more bacterial stains, and a suitable carrier. The invention also relates to methods of improving livestock animal silage and meat and milk performance of a livestock animal.

Abstract: Micro-organisms, including fungi, viruses and bacteria such as Mycobacteria and/or fragments of micro-organisms such as cell wall components present in an aqueous liquid are captured to a solid surface by adding to the liquid a sufficient quantity of a water soluble polymer in the presence of the solid surface to displace the micro-organisms and/or fragments from the liquid to the solid surface. The surface may be provided by a bead. The water soluble polymer may be polyethyleneglycol or polyvinylpyrrolidone.

Abstract: Methods of the invention include the isolation of intact, viable microorganism(s) from positive blood culture (“PBC”) samples for use in downstream analyses such as identification and antimicrobial susceptibility testing (“AST”). The methods involve collecting a portion of the PBC sample, adding a choline-containing solution, lysing the blood cells, isolating the viable microorganism, and performing downstream analysis of the isolated, viable microorganism. The methods can be applied to a variety of gram-positive bacteria, gram-negative bacteria, and/or yeast, and particularly to strains of S. pneumoniae.

Abstract: A system and method for the production of microbial consortiums and by-product material is provided. A physical containment system comprising phase spaces arranged in a discrete order to favor specific biological reactions is also provided. Phase profiles and phase data sets include the pre-determined physical and biological parameters for the phase space transitions. Movement of material from one phase to the next is hydraulically balanced enabling working fluid to continuously move in a fixed direction and rate of flow. Continuous monitoring of phase profiles and phase data sets provide feedback to the system enabling alteration of the conditions in the system to control reactions therein.

Abstract: A copper bioleaching process which makes use of a consortium which contains Leptospirillum ferriphilum and a sulphur oxidising microorganism which is halophilic or halotolerant.

Abstract: The present invention relates to a Sphingomonas sp. MD2 strain (KCTC 11845BP), a composition including the strain for decomposing methane or odor-producing compounds, a biocover or biofilter including the composition, a method for decomposing methane or odor-producing compounds using the composition, a system for decomposing methane or odor-producing compounds using the biocover or biofilter, and the use of the strain for decomposing methane or odor-producing compounds. According to the present invention, methane and odor can be effectively removed concurrently, and thus the cost required for the separate treatment of methane and odor can be reduced, and methane and odor-producing compounds in landfills or the like can be effectively decomposed.

Abstract: The present invention provides formulations and methods for preventing, suppressing, treating, or controlling pre- or post-harvest disease or decay in plants. In the inventive method, plants are contacted with a formulation including an antagonistic microorganism and a booster composition. The booster composition generally includes about 3 parts Kaolin clay, about 1 part yeast, about 1 part Yucca plant extract, and about 1 part calcium-source material. The antagonistic microorganism may be included in an amount of between about 0.02 parts and about 0.5 parts by weight of the formulation, with about 0.04 parts antagonistic microorganism being preferred in testing to date. The formulation is typically applied to the above ground structures of the plant, including its leaves, flowers, stems, trunk, blossoms and fruit.

Abstract: Culturally modified lactic acid bacterial cells containing a porphyrin compound and their use in a novel method of reducing the oxygen content in a food and feed product or starting material is provided and means of improving the shelf life and/or quality of such products by using the culturally modified bacterial cells. Such culturally modified cells are useful in the manufacturing of a food and a feed product and for the manufacturing of metabolites produced by modified cells.

Abstract: An artificial biomembrane and a method for manufacturing the same. Raw film-forming materials, such as polyvinyl alcohol, sodium alginate and sodium carboxymethyl cellulose, are dissolved in water to form a glue liquid, into which a mixture of coal-based activated carbon powder, diatomaceous earth powder sodium acetate and single strain or multiple strains of microbial cells are added. The resultant glue liquid is immobilized using powder beds or fluidized beds to form artificial biomembranes. The artificial biomembranes can be manufactured in a large-scale, with simple process of immobilization, high efficiency and low cost. The artificial biomembranes can be applied to ecological restorations and different polluted water environments, such as industrial wastewater, sewage, fishing water, landscape water, flowing water and the like.

Abstract: The biological treatment method for refractory wastewater of the present invention includes: a step of producing a complex microbial liquid by maintaining, at between 15 and 28° C., a complex microbial liquid obtained by mixing between 0.01 and 1 percent by weight of mixed microorganisms BM-S-1 (Repository Deposit No. KCTC 11789BP), between 0.1 and 1 percent by weight of powdered chaff, between 0.1 and 1 percent by weight of powdered peat moss, between 1 and 5 percent by weight of molasses, between 0.01 and 1 percent by weight of shiitake mushroom waste wood dust and between 92 and 98 percent by weight of water; a mixed stock production step; a high-temperature inoculation step; a culturing step; a drying step; a microbial starting broth production step; and a microbe activation step.

Abstract: A microbial technology package is disclosed for the reclamation of sodic alkali soils. The method comprises forming an aqueous solution containing mixed microbial composition. The fungus Trichoderma was also included in the technology along with several biological amendments such as molasses and farmyard manure. The technology being based on microorganisms, the treatment is effective and reclaims the soil up to deeper layers. Soils reclaimed by means of microbial treatment may leach out the excess sodium from clay particle improving the soil aggregation, thereby improving water holding capacity and texture of soil. The complete microbial technology package provided in the present invention was successfully reclaimed the soil to normal fertile soil.

Abstract: The present invention relates to novel enzymes and the uses thereof. The invention also relates to methods of producing such enzymes, coding nucleic acid molecules, recombinant cells and methods of transforming biomass from such materials. The invention is particularly suited to degrade biomass and/or to improve biomass degradation, and to produce bioenergy products or recombinant proteins. This invention also relates to various applications of the enzymes in the field of paper industry, textile industry as well as in the chemical and medical fields.

Abstract: The use of a probiotic Lactobacillus rhamnosus and a probiotic Bifidobacterium longumin the manufacture of a medicament or therapeutic nutritional composition for administration to an infant during at least the first three months of life for the long-term prophylaxis of diarrhea in infants and young children.

Abstract: Biological method for conversion of a lignocellulosic hydrolysate into a desired biochemical product. Use of a plurality of substrate-selective cells allows different sugars in a complex mixture to be consumed concurrently and independently. The method can be readily extended to remove inhibitory compounds from hydrolysate.

Abstract: This invention relates to a bioreactor for producing high rates of hydrogen from plant biomass. It also relates to the rapid screening, selection and isolation of biofilm forming mesophilic and/or thermophilic bacteria or bacteria consortia that generate high levels of hydrogen from plant biomass or from soluble hydrolysates derived from the hydrolysis of cellulosic materials including hemicellulose. The reactor comprises a primary reactor vessel having a bed of hydrogen producing bacteria towards its base located within a secondary reactor vessel which functions as a hydrogen gas collector and as a clarifier and separator. The plant biomass may be one or a mixture of insoluble cellulosic material and a hydrolysate derived from hydrolysis of cellulosic material. In one embodiment the bed of the primary reactor vessel is fluidised by recycling hydrogen gas saturated plant biomass effluent from the secondary reactor vessel to the primary reactor vessel.

Abstract: The present invention provides an enzymatically active composition for suppressing sulfide generation. The composition is free from sulfur dehydrogenase and comprises at least one enzyme having sufficient sulfide-production inhibiting activity in an acidic medium to at least inhibit biogenic sulfide production, and an oxidized nitrogenous inorganic salt present in an amount sufficient to act as an electron acceptor for the enzyme. The oxidized nitrogenous inorganic salt preferably is selected from an alkali metal nitrite, an alkaline earth metal nitrite, an alkali metal nitrate, an alkaline earth metal nitrate, or a mixture of two or more of the foregoing salts. The enzymatically active composition is free from viable bacteria and is non-toxic (i.e., has an oral LD50 in rats greater than 1000 mg/Kg of body weight at a concentration of about 25,000 parts per million (ppm) in water).

Abstract: The present invention is a kit and method for bioremediation of deicing fluids containing glycol. Using a combination Bacillus, Pseudomonas, yeast and filamentous fungi strains selected for the ability to grow on high levels of glycol, bioremediation of airport runoff is provided.

Abstract: The present invention relates to a microorganism, a microbial phosphate fertilizer and a method for manufacturing the microbial phosphate fertilizer, wherein the microorganism is Streptomyces cellulosae with Accession number CGMCC No. 2167 or Aspergillus versicolor with Accession number CGMCC No. 2171. The microbial phosphate fertilizer of the present invention comprises a fermentation product of the microbial composition consisting of the following four microorganisms: Bacillus subtilis strain WH2, Bacillus licheniformis strain WH4, Streptomyces cellulosae strain WH9 and Aspergillus versicolor strain WH13. A method for manufacturing the microbial phosphate fertilizer is also provided, wherein the manufacture of the microbial phosphate fertilizer may involve the use of ground phosphate rock having 8%-12% P2O5.

Abstract: Compositions of bacteria which are effective for the nitrification of wastewater, particularly at low temperatures, are described. The compositions are comprised of 35 strains or populations of at least partially characterized isolated bacteria. These compositions may be used to treat wastewater contaminated with animal fecal waste and/or ammonia. In use, wastewater is contacted with the bacterial composition of the invention under aerobic conditions and for a period of time effective to oxidize ammonia therein.

Abstract: The present invention is directed to a method of converting biomass to biofuel, and particularly to a consolidated bioproces sing method using a co-culture of thermophilic and extremely thermophilic microorganisms which collectively can ferment the hexose and pentose sugars produced by degradation of cellulose and hemicelluloses at high substrate conversion rates. A culture medium therefor is also provided as well as use of the methods to produce and recover cellulosic ethanol.

Abstract: A bacterial mixture usable in an inoculum usable in a bioremediateion method for accelerated biological degradation of petroleum hydrocarbons in a sea ice-covered polar region includes a plurality of isolated cold-adapted autochthonous bacterial strains. Each of the bacterial strains has petroleum hydrocarbons degrading activity at an ambient temperature of ?3° C. and each has a different temperature tolerance range, a different salinity tolerance range, a different petroleum hydrocarbons degradation spectrum, and a different capacity to emulsify oil.

Abstract: The present invention is directed to compositions and methods using microorganisms to benefit an environment or recipient subject. The present invention relates to the use of microorganism based compositions and methods to enhance the health of recipient subjects, improve soil conditions, and accelerate biodegradation. The present invention also relates to controlling insect and pest populations. Further, the present invention relates to the replacement of chemical compositions with microorganism based compositions.

Abstract: The present invention is directed to a composition and method to decrease the amount of particulate material in suspension, both in a liquid or in air, especially in industrial processes that generate suspended particulate material. In particular, the invention is directed to a composition and method to decrease the amount of particulate material in suspension in air or a liquid through agglomeration and subsequent biocementation, by application of an exopolysaccharide (EPS) source that can be direct or through inoculation with microorganisms that produce said EPS. This allows in a first step to settle the particulate material and subsequently the cementation of the material when there are calcium containing compounds in the particulate material that has been settled in the first step, by means of the inoculation of a second class of microorganisms that have ureolytic activity.

Abstract: The present invention provides compositions, methods, and kits comprising PUFAs produced by microalgae, in particular omega-3 and/or omega-6 fatty acids produced by members of the genus Rhodomonas, in particular Rhodomonas salina. The invention also provides compositions, methods, and kits comprising the PUFAs for the prophylactic and/or therapeutic treatment of a disease or condition, in particular a cardiovascular and/or inflammatory disease or condition.

Abstract: This disclosure provides compositions and methods for culturing microorganisms. The disclosure includes mixtures of different microorganisms, especially mixtures of cyanobacteria with fermentative microorganisms. For example, methods and compositions related to co-cultures of yeast and cyanobacteria are provided. Also provided are feedstocks derived from cyanobacteria as well as methods of making such feedstocks and methods of culturing microorganisms in such feedstocks.

Abstract: The present invention provides a composition comprising prebiotic and probiotic components and is used to reduce elevated levels of nitrogenous waste products and to promote a healthy bowel microenvironment.

Abstract: The present invention relates to the antagonistic bacteria that are used to prevent and eliminate tobacco bacterial wilt and their microbial organic fertilizer, which belong to the technology for agricultural intensive production. The present invention separates two antagonistic bacteria (Brevibacillus brevis NJL-25 and Bacillus cereus NJL-14) that have remarkable antagonistic action against the pathogens of tobacco bacterial wilt. Microbial organic fertilizer is produced from these antagonistic bacteria and organic compost. Wherein, the content of each of NJL-25 and NJL-14 is above 1×1010 cfu/g, the content of total nitrogen is 4˜5% (above 90% of the nitrogen is organic nitrogen), the content of total nitrogen-phosphorus-kalium nutrient is 6˜10% and the content of organic matter is 30˜35%. As indicated by experiments, after the microbial organic fertilizer is applied into soil, it will enable rapid multiplication of the antagonistic bacteria into a dominant microflora in the soil and achieve more than 97.

Abstract: The present invention relates to novel strains of lactic acid bacteria, Lactobacillus plantarum subsp. plantarum PM-A0087 deposited as NRRL accession number B-50523, Bifidobacterium longum PM-A0101 deposited as NRRL accession number B-50525, and Bifidobacterium bifidum PM-A0218 deposited as NRRL accession number B-50524.

Abstract: A bioremediation method for accelerated biological degradation of petroleum hydrocarbons in a sea ice-covered polar region comprising contacting the petroleum hydrocarbons with an inoculum. The inoculum includes a bacterial mixture, nutrients, and an environmentally friendly carrier material. The bacterial mixture includes a plurality of cold-adapted autochthonous bacterial strains, wherein each of the bacterial strains are active at an ambient temperature of ?3° C., and wherein each of the bacterial strains has a different temperature tolerance range, a different salinity tolerance range, a different degradation spectrum, and a different potential to emulsify oil. Bacteria of the bacterial strains are immobilized on the environmentally friendly carrier material.

Abstract: The present invention is directed to processes, combinations, uses and biomass comprising a combination of yeasts and bacterial strains, for the production of consumable biomass from substrates comprising a simple sugar. More particularly, the claimed subject matter includes the use of Lactobacillus fermentum, Kluyveromyces marxianus and Saccharomyces unisporus. The process intends to fix an environmental problem.

Abstract: The present invention discloses strains of Lactobacillus and Streptococcus which have a capacity to degrade gliadin peptides involved in coeliac disease and which peptide degrading activity is stable under low pH and in the presence of mammalian digestive enzymes. These strains are suitable in a product for use in prevention and/or treatment of celiac disease.

Abstract: The present invention describes changes in bacterial gastrointestinal, cutaneous and nasal microbiota associated various mammalian medical conditions. Described are diagnostic tests that arise from combining phylogenetic information about the families, genus, and species of the microbiome and their relative abundance with the metabolic information contained in the metatranscriptome to determine the presence and absence of a disease or medical condition. Provided are compositions of bacteria, co-cultures of bacteria and a carrier for use in treating the disclosed medical conditions. The described compositions restore or correct disease- or medical condition-related imbalances in the microbiome profile with culture-conditioned formulations in which the transcriptome activity of the administered organisms is optimized. Alternatively, formulations of metabolites that drive changes in the metatranscriptome native to the mammal that treat disease or a medical condition or restore health are taught.

Abstract: Provided are methods of treating a surface of a food processing facility which has a first population of microorganisms disposed thereon. The method includes disposing on the surface a biofilm containing a second population of microorganisms or a population of microorganisms that can form a biofilm onto the surface of the food processing facility. The growth of the second microbial population and the formation of a biofilm comprising these microorganisms can then inhibit the growth of the first population of microorganisms.

Abstract: This invention generally relates to natural gas and methylotrophic energy generation, bio-generated fuels and microbiology. In alternative embodiments, the invention provides nutrient amendments and microbial compositions, e.g., consortia, that are both specifically optimized to stimulate methanogenesis, or for “methylotrophic” or other conversions. In alternative embodiments, the invention provides methods to develop nutrient amendments and microbial compositions that are both specifically optimized to stimulate methanogenesis in a given reservoir. The invention also provides methods for the evaluation of potentially damaging biomass formation and scale precipitation resulting from the addition of nutrient amendments. In other embodiments, the invention provides methods for simulating biogas in sub-surface conditions using a computational model.

Abstract: High yield antibiotics producing fungus strain, preparation method and use thereof are provided. The fungus strain is a mutant derived from Glarea lozoyensis, and deposited in CGMCC with the accession number of CGMCC 2933. The preparation method concludes following steps: (a) mixing the culture media of Glarea lozoyensis strain ATCC 20957 with nitrosoguanidine, and obtaining mixture a; (b) mixing lywallzyme with the mixture a, and obtaining protoplasts; (c) regenerating the protoplasts, and obtaining single clones; and (d) culturing the single clones, then obtaining the mutant strain. This fungus strain has stable genetic and producing property, produces little impurities in fermentation, and is suitable to be used in industry.

Abstract: The present invention relates to a process for treating organic waste, which comprises the step of contacting an organic waste with one or more microorganisms from at least three of the following microorganism species: Bacillus sp. microorganisms, Pseudomonas sp. microorganisms, Bifidobacterium sp. microorganisms and Lactobacillus sp. microorganisms, the contacting being undertaken under conditions to at least partly convert the organic waste to organic fertilizer.

Abstract: A composition is provided that includes Bacillus subtilis 2084 (NRRL B-50013) or a strain having all of the identifying characteristics of the Bacillus subtilis 2084 (NRRL B-50013), B. subtilis 27 (NRRL B-50105) or a strain having all of the identifying characteristics of the B. subtilis 27 (NRRL B-50105), and B. licheniformis 21 (NRRL B-50134) or a strain having all of the identifying characteristics of the B. licheniformis 21 (NRRL B-50134). Animal bedding that includes the Bacillus strains is also provided, as well as a method of making the animal bedding. Also provided are methods of controlling odors from animal waste. A method of making a composition including the Bacillus strains is also provided.

Abstract: The disclosure relates to strains, compositions and methods for detoxifying a mycotoxin. In another embodiment, the disclosure relates to strains, compositions and methods for alleviating the gastrointestinal inflammatory response resulting from ingestion of mycotoxins. In one embodiment, the strains are Bacillus strains. In another embodiment, the strains are lactic acid bacteria.