EP3562956A4 - Methods, apparatuses, and systems for analyzing microorganism strains in complex heterogeneous communities, determining functional relationships and interactions thereof, and diagnostics and biostate management based thereon - Google Patents
Methods, apparatuses, and systems for analyzing microorganism strains in complex heterogeneous communities, determining functional relationships and interactions thereof, and diagnostics and biostate management based thereon Download PDFInfo
- Publication number
- EP3562956A4 EP3562956A4 EP17887981.3A EP17887981A EP3562956A4 EP 3562956 A4 EP3562956 A4 EP 3562956A4 EP 17887981 A EP17887981 A EP 17887981A EP 3562956 A4 EP3562956 A4 EP 3562956A4
- Authority
- EP
- European Patent Office
- Prior art keywords
- biostate
- diagnostics
- interactions
- apparatuses
- systems
- Prior art date
- Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
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Classifications
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- G—PHYSICS
- G01—MEASURING; TESTING
- G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
- G01N33/00—Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
- G01N33/48—Biological material, e.g. blood, urine; Haemocytometers
- G01N33/50—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
- G01N33/53—Immunoassay; Biospecific binding assay; Materials therefor
- G01N33/569—Immunoassay; Biospecific binding assay; Materials therefor for microorganisms, e.g. protozoa, bacteria, viruses
- G01N33/56911—Bacteria
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- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
- C12Q1/02—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving viable microorganisms
- C12Q1/04—Determining presence or kind of microorganism; Use of selective media for testing antibiotics or bacteriocides; Compositions containing a chemical indicator therefor
- C12Q1/06—Quantitative determination
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- G—PHYSICS
- G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
- G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
- G16B20/00—ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
-
- G—PHYSICS
- G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
- G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
- G16B5/00—ICT specially adapted for modelling or simulations in systems biology, e.g. gene-regulatory networks, protein interaction networks or metabolic networks
- G16B5/20—Probabilistic models
-
- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
- C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
- C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
- C12Q1/6888—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms
- C12Q1/689—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms for bacteria
-
- G—PHYSICS
- G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
- G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
- G16B10/00—ICT specially adapted for evolutionary bioinformatics, e.g. phylogenetic tree construction or analysis
-
- G—PHYSICS
- G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
- G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
- G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
- G16B30/10—Sequence alignment; Homology search
-
- G—PHYSICS
- G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
- G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
- G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
- G16B30/20—Sequence assembly
-
- G—PHYSICS
- G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
- G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
- G16B40/00—ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
-
- G—PHYSICS
- G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
- G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
- G16B5/00—ICT specially adapted for modelling or simulations in systems biology, e.g. gene-regulatory networks, protein interaction networks or metabolic networks
Applications Claiming Priority (3)
Application Number | Priority Date | Filing Date | Title |
---|---|---|---|
US201662439804P | 2016-12-28 | 2016-12-28 | |
US201762560174P | 2017-09-18 | 2017-09-18 | |
PCT/US2017/068753 WO2018126033A1 (en) | 2016-12-28 | 2017-12-28 | Methods, apparatuses, and systems for analyzing microorganism strains in complex heterogeneous communities, determining functional relationships and interactions thereof, and diagnostics and biostate management based thereon |
Publications (2)
Publication Number | Publication Date |
---|---|
EP3562956A1 EP3562956A1 (en) | 2019-11-06 |
EP3562956A4 true EP3562956A4 (en) | 2020-10-14 |
Family
ID=62710026
Family Applications (1)
Application Number | Title | Priority Date | Filing Date |
---|---|---|---|
EP17887981.3A Withdrawn EP3562956A4 (en) | 2016-12-28 | 2017-12-28 | Methods, apparatuses, and systems for analyzing microorganism strains in complex heterogeneous communities, determining functional relationships and interactions thereof, and diagnostics and biostate management based thereon |
Country Status (8)
Country | Link |
---|---|
EP (1) | EP3562956A4 (en) |
JP (1) | JP2020507308A (en) |
CN (1) | CN110392738A (en) |
AU (1) | AU2017388532A1 (en) |
CA (1) | CA3048247A1 (en) |
IL (1) | IL267646A (en) |
MX (1) | MX2019007764A (en) |
WO (1) | WO2018126033A1 (en) |
Families Citing this family (16)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
US10851399B2 (en) | 2015-06-25 | 2020-12-01 | Native Microbials, Inc. | Methods, apparatuses, and systems for microorganism strain analysis of complex heterogeneous communities, predicting and identifying functional relationships and interactions thereof, and selecting and synthesizing microbial ensembles based thereon |
US9938558B2 (en) | 2015-06-25 | 2018-04-10 | Ascus Biosciences, Inc. | Methods, apparatuses, and systems for analyzing microorganism strains from complex heterogeneous communities, predicting and identifying functional relationships and interactions thereof, and selecting and synthesizing microbial ensembles based thereon |
EP3314007B1 (en) | 2015-06-25 | 2024-01-24 | Native Microbials, Inc. | Methods, apparatuses, and systems for analyzing microorganism strains from complex heterogeneous communities, predicting and identifying functional relationships and interactions thereof, and selecting and synthesizing microbial ensembles based thereon |
RU2018128578A (en) | 2016-01-07 | 2020-02-10 | Аскус Байосайенсиз, Инк. | WAYS TO IMPROVE MILK PRODUCTS BY INTRODUCING MICROBIAL CONSORTIUMS |
US11891647B2 (en) | 2016-12-28 | 2024-02-06 | Native Microbials, Inc. | Methods, apparatuses, and systems for analyzing complete microorganism strains in complex heterogeneous communities, determining functional relationships and interactions thereof, and identifying and synthesizing bioreactive modificators based thereon |
US11044924B2 (en) | 2017-04-28 | 2021-06-29 | Native Microbials, Inc. | Methods for supporting grain intensive and or energy intensive diets in ruminants by administration of a synthetic bioensemble of microbes or purified strains therefor |
IL264581A (en) * | 2019-01-31 | 2020-08-31 | Segal Eran | Predicting blood metabolites |
WO2021260159A1 (en) * | 2020-06-24 | 2021-12-30 | Université de Lausanne | Means and methods for classifying microbes |
KR102241357B1 (en) * | 2020-10-20 | 2021-04-16 | 주식회사 에이치이엠 | Method and apparatus for diagnosing colon plyp using machine learning model |
CN112662795B (en) * | 2021-01-26 | 2023-12-15 | 苏州系统医学研究所 | Positive reference substance for detecting infectious pathogens and preparation method and application thereof |
CN112951333A (en) * | 2021-01-27 | 2021-06-11 | 天津大学 | Evaluation method for model for predicting coronavirus resistance elimination by taking f2 phage as model virus |
KR102304399B1 (en) * | 2021-03-26 | 2021-09-24 | 주식회사 에이치이엠파마 | Method and diagnostic apparatus for determining hyperglycemia using machine learning model |
CN113096737B (en) * | 2021-03-26 | 2023-10-31 | 北京源生康泰基因科技有限公司 | Method and system for automatically analyzing pathogen type |
KR102304402B1 (en) * | 2021-03-26 | 2021-09-24 | 주식회사 에이치이엠파마 | Method and diagnostic apparatus for determining obesity using machine learning model |
KR20220158948A (en) * | 2021-05-25 | 2022-12-02 | 주식회사 에이치이엠파마 | Method and diagnostic apparatus for determining gasbloating using machine learning model |
KR20220158950A (en) * | 2021-05-25 | 2022-12-02 | 주식회사 에이치이엠파마 | Method and diagnostic apparatus for determining gastro-intestinal tract disorder using machine learning model |
Citations (3)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
US20130121968A1 (en) * | 2011-10-03 | 2013-05-16 | Atossa Genetics, Inc. | Methods of combining metagenome and the metatranscriptome in multiplex profiles |
CN104814278A (en) * | 2015-04-15 | 2015-08-05 | 江苏师范大学 | A micro-ecological preparation for improving milk yields of dairy cows |
UY36754A (en) * | 2015-06-25 | 2016-11-30 | Ascus Biosciences Inc | METHODS, APPLIANCES AND SYSTEMS FOR ANALYZING COMPACT HETEROGENIC MICROORGANISM VINTAGES, PREACHING AND IDENTIFYING FUNCTIONAL RELATIONS AND INTERACTIONS OF THESE, AND SELECTING AND SYNTHEIZING MICROBIAL SETS BASED ON THESE |
Family Cites Families (2)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
BRPI0922723B1 (en) * | 2008-12-02 | 2021-10-19 | Lallemand, Inc. | METHODS FOR MAKING A MICROBIAL DIRECT FEEDING |
CN104171413B (en) * | 2014-08-01 | 2016-04-13 | 农业部沼气科学研究所 | A kind of meat type poultry feed containing anaerobic bacteria K.paraultunense KD-1 zymotic fluid and feather meal |
-
2017
- 2017-12-28 WO PCT/US2017/068753 patent/WO2018126033A1/en unknown
- 2017-12-28 CA CA3048247A patent/CA3048247A1/en not_active Abandoned
- 2017-12-28 AU AU2017388532A patent/AU2017388532A1/en not_active Abandoned
- 2017-12-28 EP EP17887981.3A patent/EP3562956A4/en not_active Withdrawn
- 2017-12-28 MX MX2019007764A patent/MX2019007764A/en unknown
- 2017-12-28 JP JP2019535790A patent/JP2020507308A/en active Pending
- 2017-12-28 CN CN201780087481.6A patent/CN110392738A/en active Pending
-
2019
- 2019-06-25 IL IL267646A patent/IL267646A/en unknown
Patent Citations (4)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
US20130121968A1 (en) * | 2011-10-03 | 2013-05-16 | Atossa Genetics, Inc. | Methods of combining metagenome and the metatranscriptome in multiplex profiles |
CN104814278A (en) * | 2015-04-15 | 2015-08-05 | 江苏师范大学 | A micro-ecological preparation for improving milk yields of dairy cows |
UY36754A (en) * | 2015-06-25 | 2016-11-30 | Ascus Biosciences Inc | METHODS, APPLIANCES AND SYSTEMS FOR ANALYZING COMPACT HETEROGENIC MICROORGANISM VINTAGES, PREACHING AND IDENTIFYING FUNCTIONAL RELATIONS AND INTERACTIONS OF THESE, AND SELECTING AND SYNTHEIZING MICROBIAL SETS BASED ON THESE |
WO2016210251A1 (en) * | 2015-06-25 | 2016-12-29 | Ascus Biosciences, Inc. | Methods, apparatuses, and systems for analyzing microorganism strains from complex heterogeneous communities, predicting and identifying functional relationships and interactions thereof, and selecting and synthesizing microbial ensembles based thereon |
Non-Patent Citations (6)
Title |
---|
ANDREAS BREMGES ET AL: "Deeply sequenced metagenome and metatranscriptome of a biogas-producing microbial community from an agricultural production-scale biogas plant", GIGASCIENCE, vol. 4, no. 1, 30 July 2015 (2015-07-30), XP055458912, DOI: 10.1186/s13742-015-0073-6 * |
BOYANG JI ET AL: "From next-generation sequencing to systematic modeling of the gut microbiome", FRONTIERS IN GENETICS, vol. 6, 23 June 2015 (2015-06-23), XP055727043, DOI: 10.3389/fgene.2015.00219 * |
CORINNE FERRIER MAURICE ET AL: "Xenobiotics Shape the Physiology and Gene Expression of the Active Human Gut Microbiome", CELL, vol. 152, no. 1-2, 1 January 2013 (2013-01-01), pages 39 - 50, XP055458905, ISSN: 0092-8674, DOI: 10.1016/j.cell.2012.10.052 * |
KELSEA A. JEWELL ET AL: "Ruminal Bacterial Community Composition in Dairy Cows Is Dynamic over the Course of Two Lactations and Correlates with Feed Efficiency", APPLIED AND ENVIRONMENTAL MICROBIOLOGY, vol. 81, no. 14, 1 May 2015 (2015-05-01), US, pages 4697 - 4710, XP055396829, ISSN: 0099-2240, DOI: 10.1128/AEM.00720-15 * |
PAVEL PETRENKO ET AL: "MetAnnotate: function-specific taxonomic profiling and comparison of metagenomes", BMC BIOLOGY, vol. 13, no. 1, 5 November 2015 (2015-11-05), XP055458828, DOI: 10.1186/s12915-015-0195-4 * |
See also references of WO2018126033A1 * |
Also Published As
Publication number | Publication date |
---|---|
EP3562956A1 (en) | 2019-11-06 |
CA3048247A1 (en) | 2018-07-05 |
IL267646A (en) | 2019-08-29 |
CN110392738A (en) | 2019-10-29 |
MX2019007764A (en) | 2019-10-15 |
AU2017388532A1 (en) | 2019-07-25 |
JP2020507308A (en) | 2020-03-12 |
WO2018126033A1 (en) | 2018-07-05 |
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A4 | Supplementary search report drawn up and despatched |
Effective date: 20200910 |
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RIC1 | Information provided on ipc code assigned before grant |
Ipc: A23K 50/10 20160101ALI20200904BHEP Ipc: A23K 50/75 20160101ALI20200904BHEP Ipc: A23K 10/18 20160101ALI20200904BHEP Ipc: G16B 5/00 20190101ALI20200904BHEP Ipc: C12Q 1/06 20060101AFI20200904BHEP |
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RAP1 | Party data changed (applicant data changed or rights of an application transferred) |
Owner name: NATIVE MICROBIALS, INC. |
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Effective date: 20210410 |