BR112019005810A2 - método para sequenciamento de microbioma melhorado para caracterizar uma afecção relacionada a micro-organismo para um usuário associado a uma amostra biológica, e método para sequenciamento de microbioma melhorado - Google Patents

método para sequenciamento de microbioma melhorado para caracterizar uma afecção relacionada a micro-organismo para um usuário associado a uma amostra biológica, e método para sequenciamento de microbioma melhorado

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Publication number
BR112019005810A2
BR112019005810A2 BR112019005810A BR112019005810A BR112019005810A2 BR 112019005810 A2 BR112019005810 A2 BR 112019005810A2 BR 112019005810 A BR112019005810 A BR 112019005810A BR 112019005810 A BR112019005810 A BR 112019005810A BR 112019005810 A2 BR112019005810 A2 BR 112019005810A2
Authority
BR
Brazil
Prior art keywords
sequencing method
microorganism
microbiome sequencing
biological sample
related condition
Prior art date
Application number
BR112019005810A
Other languages
English (en)
Inventor
Goddard Audrey
Almonacid Daniel
Morales Eduardo
Richman Jessica
Ortiz Rodrigo
Bird Sara
Apte Zachary
Original Assignee
Ubiome Inc
Priority date (The priority date 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 date listed.)
Filing date
Publication date
Application filed by Ubiome Inc filed Critical Ubiome Inc
Publication of BR112019005810A2 publication Critical patent/BR112019005810A2/pt

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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
    • G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/10—Processes for the isolation, preparation or purification of DNA or RNA
    • C12N15/1034—Isolating an individual clone by screening libraries
    • C12N15/1082—Preparation or screening gene libraries by chromosomal integration of polynucleotide sequences, HR-, site-specific-recombination, transposons, viral vectors
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/10—Processes for the isolation, preparation or purification of DNA or RNA
    • C12N15/1034—Isolating an individual clone by screening libraries
    • C12N15/1089—Design, preparation, screening or analysis of libraries using computer algorithms
    • 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
    • C12Q1/6869—Methods for sequencing
    • 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
    • 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
    • C12Q2521/00—Reaction characterised by the enzymatic activity
    • C12Q2521/50—Other enzymatic activities
    • C12Q2521/501—Ligase
    • 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
    • C12Q2525/00—Reactions involving modified oligonucleotides, nucleic acids, or nucleotides
    • C12Q2525/10—Modifications characterised by
    • C12Q2525/191—Modifications characterised by incorporating an adaptor
    • 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
    • C12Q2531/00—Reactions of nucleic acids characterised by
    • C12Q2531/10—Reactions of nucleic acids characterised by the purpose being amplify/increase the copy number of target nucleic acid
    • C12Q2531/113—PCR
    • 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
    • C12Q2535/00—Reactions characterised by the assay type for determining the identity of a nucleotide base or a sequence of oligonucleotides
    • C12Q2535/122—Massive parallel sequencing
    • 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
    • G16B25/00—ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression
    • G16B25/10—Gene or protein expression profiling; Expression-ratio estimation or normalisation
    • Y—GENERAL TAGGING OF NEW TECHNOLOGICAL DEVELOPMENTS; GENERAL TAGGING OF CROSS-SECTIONAL TECHNOLOGIES SPANNING OVER SEVERAL SECTIONS OF THE IPC; TECHNICAL SUBJECTS COVERED BY FORMER USPC CROSS-REFERENCE ART COLLECTIONS [XRACs] AND DIGESTS
    • Y02—TECHNOLOGIES OR APPLICATIONS FOR MITIGATION OR ADAPTATION AGAINST CLIMATE CHANGE
    • Y02A—TECHNOLOGIES FOR ADAPTATION TO CLIMATE CHANGE
    • Y02A90/00—Technologies having an indirect contribution to adaptation to climate change
    • Y02A90/10—Information and communication technologies [ICT] supporting adaptation to climate change, e.g. for weather forecasting or climate simulation

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  • Life Sciences & Earth Sciences (AREA)
  • Chemical & Material Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Health & Medical Sciences (AREA)
  • Genetics & Genomics (AREA)
  • General Engineering & Computer Science (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Organic Chemistry (AREA)
  • Biotechnology (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Biomedical Technology (AREA)
  • Physics & Mathematics (AREA)
  • General Health & Medical Sciences (AREA)
  • Biophysics (AREA)
  • Molecular Biology (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Microbiology (AREA)
  • Biochemistry (AREA)
  • Analytical Chemistry (AREA)
  • Crystallography & Structural Chemistry (AREA)
  • Plant Pathology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Virology (AREA)
  • Evolutionary Biology (AREA)
  • Medical Informatics (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Theoretical Computer Science (AREA)
  • Immunology (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Chemical Kinetics & Catalysis (AREA)

Abstract

trata-se de modalidades de um método e um sistema para sequenciamento de microbioma melhorado que podem incluir: gerar complexos de rna guia para um conjunto de alvos correspondente a um conjunto de táxons associado à afecção relacionada a micro-organismo; processar a amostra biológica com os complexos de grna para gerar fragmentos de ácido nucleico de micro-organismo que compreendem um conjunto de regiões de extremidade associado ao conjunto de alvos; ligar o conjunto de regiões de extremidade a um conjunto de adaptadores que compartilham uma sequência adaptadora; e amplificar o conjunto de alvos com base no conjunto ligado regiões de extremidade e um conjunto de iniciadores que compartilham uma sequência iniciadora associada à sequência adaptadora.
BR112019005810A 2016-09-27 2017-09-27 método para sequenciamento de microbioma melhorado para caracterizar uma afecção relacionada a micro-organismo para um usuário associado a uma amostra biológica, e método para sequenciamento de microbioma melhorado BR112019005810A2 (pt)

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US201662400401P 2016-09-27 2016-09-27
PCT/US2017/053822 WO2018064226A1 (en) 2016-09-27 2017-09-27 Method and system for crispr-based library preparation and sequencing

Publications (1)

Publication Number Publication Date
BR112019005810A2 true BR112019005810A2 (pt) 2019-06-25

Family

ID=61687683

Family Applications (1)

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BR112019005810A BR112019005810A2 (pt) 2016-09-27 2017-09-27 método para sequenciamento de microbioma melhorado para caracterizar uma afecção relacionada a micro-organismo para um usuário associado a uma amostra biológica, e método para sequenciamento de microbioma melhorado

Country Status (13)

Country Link
US (1) US11572555B2 (pt)
EP (1) EP3519593A4 (pt)
JP (1) JP7239988B2 (pt)
KR (1) KR20190052132A (pt)
CN (1) CN109790576A (pt)
AU (1) AU2017335766A1 (pt)
BR (1) BR112019005810A2 (pt)
CA (1) CA3038661A1 (pt)
CO (1) CO2019004124A2 (pt)
EA (1) EA201990599A1 (pt)
SG (1) SG11201901730QA (pt)
WO (1) WO2018064226A1 (pt)
ZA (1) ZA201901372B (pt)

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WO2020041702A1 (en) * 2018-08-24 2020-02-27 Swift Biosciences, Inc. Asymmetric targeted amplification methods
CN110541026A (zh) * 2019-08-17 2019-12-06 昆明医科大学第一附属医院 一种检测溃疡性结肠炎的生物标志物及应用
CN112080571B (zh) * 2020-09-22 2022-11-11 扬州大学 基于CRISPR-Cas12b系统的空肠弯曲菌检测试剂盒和方法
CN112176048A (zh) * 2020-11-02 2021-01-05 光明乳业股份有限公司 一种发酵乳的杂菌检测方法
CN112029699B (zh) * 2020-11-04 2021-06-08 中国农业科学院北京畜牧兽医研究所 一种基于内源CRISPR-Cas系统的丁酸梭菌基因编辑系统及其应用
KR102304402B1 (ko) * 2021-03-26 2021-09-24 주식회사 에이치이엠파마 머신러닝 모델을 이용하여 비만 여부를 판별하는 방법 및 진단 장치
KR20220158948A (ko) * 2021-05-25 2022-12-02 주식회사 에이치이엠파마 머신러닝 모델을 이용하여 복부팽만 유무를 판별하는 방법 및 진단 장치
CN113528633B (zh) * 2021-08-12 2024-06-11 湖北伯远合成生物科技有限公司 一种快速分析CRISPR/Cas9基因编辑载体构建情况的方法及应用

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Also Published As

Publication number Publication date
CA3038661A1 (en) 2018-04-05
US20180087051A1 (en) 2018-03-29
JP2019528752A (ja) 2019-10-17
EP3519593A1 (en) 2019-08-07
CN109790576A (zh) 2019-05-21
KR20190052132A (ko) 2019-05-15
AU2017335766A1 (en) 2019-03-28
WO2018064226A1 (en) 2018-04-05
JP7239988B2 (ja) 2023-03-15
EA201990599A1 (ru) 2019-10-31
SG11201901730QA (en) 2019-03-28
CO2019004124A2 (es) 2019-05-10
US11572555B2 (en) 2023-02-07
ZA201901372B (en) 2019-11-27
EP3519593A4 (en) 2024-08-28

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Legal Events

Date Code Title Description
B350 Update of information on the portal [chapter 15.35 patent gazette]
B06W Patent application suspended after preliminary examination (for patents with searches from other patent authorities) chapter 6.23 patent gazette]
B11B Dismissal acc. art. 36, par 1 of ipl - no reply within 90 days to fullfil the necessary requirements
B15K Others concerning applications: alteration of classification

Free format text: AS CLASSIFICACOES ANTERIORES ERAM: C12Q 1/68 , G01N 33/48 , G06F 19/00 , G06F 19/28 , G06G 7/58

Ipc: C12N 15/10 (2006.01), C12Q 1/6869 (2018.01), G16B