Abstract: Embodiments of the invention provide a method of detecting one or more strains of Klebsiella pneumoniae. The method may include forming a plurality of mixtures for nucleic amplification. The method can include amplification of specific sequences within the K. pneumonia genome that can provide definitive information to distinguish between one or more types or strains of K. pneumonia.
Type:
Grant
Filed:
February 22, 2019
Date of Patent:
September 14, 2021
Assignees:
The Translational Genomics Research Institute, Arizona Board of Regents on Behalf of Northern Arizona University
Inventors:
Jolene Bowers, Elizabeth Driebe, David Engelthaler, Paul Keim
Abstract: The present disclosure provides a “looping amplification” method to increase the specificity of nucleic acid amplification. This increased specificity facilitates multiplexing to a much higher degree than was previously possible.
Abstract: This invention discloses multi-part primers for primer-dependent nucleic acid amplification methods. Also disclosed are primer-dependent nucleic acid amplification reactions, particularly DNA amplification reactions, reaction mixtures and reagent kits for such reactions. This invention relates to primer-dependent nucleic acid amplification reactions, particularly DNA amplification relations such as PCR, and primers, reaction mixtures and reagent kits for such reactions and assays employing same.
Type:
Grant
Filed:
October 23, 2020
Date of Patent:
September 7, 2021
Assignee:
RUTGERS, THE STATE UNIVERSITY OF NEW JERSEY
Inventors:
Salvatore A. Marras, Diana Vargas-Gold, Sanjay Tyagi, Fred R. Kramer
Abstract: The present invention relates to controls for NGS methods. The present application discloses plasmids, kits, their uses and methods involving the controls according to the present invention.
Abstract: The disclosed invention is related to methods, compositions and kits for targeting nucleic acid derived from Shiga toxin-producing bacteria such as E. coli. Compositions include amplification oligomers and/or detection probe oligomers. Kits and methods comprise at least one pair of amplification oligomers.
Abstract: The disclosed invention is related to methods, compositions and kits for targeting nucleic acid derived from Shiga toxin-producing bacteria such as E. coli. Compositions include amplification oligomers and/or detection probe oligomers. Kits and methods comprise at least one pair of amplification oligomers.
Abstract: The present invention provides methods, compositions and kits for detecting duplicate sequencing reads. In some embodiments, the duplicate sequencing reads are removed.
Type:
Grant
Filed:
January 15, 2020
Date of Patent:
August 24, 2021
Assignee:
TECAN GENOMICS, INC.
Inventors:
Douglas A. Amorese, Jonathan Scolnick, Ben Schroeder
Abstract: Methods and compositions are described for producing a glucanase in transgenic plants and then incorporating parts of the transgenic plants in animal feed. The feed glucanase enzyme displays activity across a broad pH range, and tolerance to temperatures that are often encountered during the process of preparing animal feeds. Producing the enzyme in the transgenic plant enhances the thermal stability of the enzyme.
Type:
Grant
Filed:
October 11, 2019
Date of Patent:
August 24, 2021
Assignee:
AGRIVIDA, INC.
Inventors:
R. Michael Raab, Oleg Bougri, Xuemei Li
Abstract: Embodiments of the invention include methods of identifying microorganisms and/or diagnosing infections in subjects cause by microorganisms. Embodiments of the invention may also include further characterizing (e.g., determining the presence of one or more antibiotic resistance markers) the microorganisms and determining a strain identity of the microorganisms.
Type:
Grant
Filed:
November 3, 2016
Date of Patent:
August 24, 2021
Assignees:
The Translational Genomics Research Institute, Arizona Board of Regents on behalf of Northern Arizona University
Inventors:
Elizabeth Driebe, Jolene Bowers, David Engelthaler, Paul Keim
Abstract: In some embodiments, the disclosure relates generally to methods, as well as related systems, compositions, kits, apparatuses and computer-readable media, comprising a multiplex molecular tagging procedure that employs a plurality of tags that are appended to a plurality of polynucleotides. The tags have characteristics, including a sequence, length and/or detectable moiety, or any other characteristic, that uniquely identifies the polynucleotide molecule to which it is appended, and permits tracking individual tagged molecules in a mixture of tagged molecules. For example, the tag having a unique tag sequence, can uniquely identify an individual polynucleotide to which it is appended, and distinguish the individual polynucleotide from other tagged polynucleotides in a mixture. In some embodiments, the multiplex molecular tagging procedure can be used for generating error-corrected sequencing data and for detecting a target polynucleotide which is present at low abundance in a nucleic acid sample.
Type:
Grant
Filed:
July 3, 2019
Date of Patent:
August 17, 2021
Assignee:
Life Technologies Corporation
Inventors:
Kelli Bramlett, Dumitru Brinza, Richard Chien, Dalia Dhingra, Jian Gu, Ann Mongan
Abstract: The invention provides methods, systems, and computer readable medium for detecting ploidy of chromosome segments or entire chromosomes, for detecting single nucleotide variants and for detecting both ploidy of chromosome segments and single nucleotide variants. In some aspects, the invention provides methods, systems, and computer readable medium for detecting cancer or a chromosomal abnormality in a gestating fetus.
Type:
Grant
Filed:
March 20, 2019
Date of Patent:
August 10, 2021
Assignee:
Natera, Inc.
Inventors:
Joshua Babiarz, Tudor Pompiliu Constantin, Lane A. Eubank, George Gemelos, Matthew Micah Hill, Huseyin Eser Kirkizlar, Matthew Rabinowitz, Onur Sakarya, Styrmir Sigurjonsson, Bernhard Zimmermann
Abstract: The invention provides methods, systems, and computer readable medium for detecting ploidy of chromosome segments or entire chromosomes, for detecting single nucleotide variants and for detecting both ploidy of chromosome segments and single nucleotide variants. In some aspects, the invention provides methods, systems, and computer readable medium for detecting cancer or a chromosomal abnormality in a gestating fetus.
Type:
Grant
Filed:
June 21, 2018
Date of Patent:
August 10, 2021
Assignee:
Natera, Inc.
Inventors:
Joshua Babiarz, Tudor Pompiliu Constantin, Lane A. Eubank, George Gemelos, Matthew Micah Hill, Huseyin Eser Kirkizlar, Matthew Rabinowitz, Onur Sakarya, Styrmir Sigurjonsson, Bernhard Zimmermann
Abstract: The invention relates to methods, compositions, devices, systems and kits as described including, without limitation, reagents and mixtures for determining the identity of nucleic acids in nucleotide sequences using, for example, sequencing by synthesis methods. In particular, the present invention contemplates the use of polyphenolic compounds, known as antioxidant additives, to improve the efficiency of Sequencing-By-Synthesis reactions. For example, gallic acid (GA) is shown herein to be one of many exemplary SBS polyphenolic additives.
Abstract: The present disclosure provides improved methods for generating asymmetrically-tagged nucleic acid constructs, compositions comprising such constructs, and kits and systems for generating such constructs.
Abstract: The present invention relates to highly sensitive and specific methods for detection of nucleic acids, which for example are useful for detection of rare mutations, or for detection of low-abundance variants in nucleic acids sequences. The methods involve an asymmetric incremental polymerase reaction (AIPR) followed by an exponential polymerase chain reaction (PCR).
Type:
Grant
Filed:
May 18, 2016
Date of Patent:
July 20, 2021
Assignee:
SAGA DIAGNOSTICS AB
Inventors:
Anthony Miles George, Lao Hayamizu Saal
Abstract: A particle measuring method, a sample processing method, and a particle imaging apparatus capable of efficiently acquiring information effective in pathological diagnosis or the like are provided. The particle measuring method comprises a step (S13) of labeling and amplifying, within a particle, a target nucleic acid in the particle, a step (S14) of labeling a surface target polypeptide on the surface of the particle and/or target nucleic acid different from the first target nucleic acid, and a step (S2) of measuring the labeled target nucleic acid and the labeled target polypeptide and/or other labeled target nucleic acid.
Abstract: Provided herein are devices and methods for rapid analysis of biological samples. In particular, devices and methods described herein can be applied to rapid nucleic acid analysis of solid tissue samples.
Abstract: Provided herein are qPCR-based methods for quantitatively detecting and differentiating between live and dead pathogenic bacteria such as carbapenem-resistant Enterobacteriaceae (CRE). Also provided herein are simple, fast, and reliable genomic DNA extraction methods with improved efficiency.
Type:
Grant
Filed:
October 26, 2018
Date of Patent:
July 13, 2021
Assignees:
ARIZONA BOARD OF REGENTS ON BEHALF OF ARIZONA STATE UNIVERSITY, MAYO FOUNDATION FOR MEDICAL EDUCATION AND RESEARCH
Inventors:
Joshua LaBaer, Vel Murugan, Merica Vorachitti, Rahul Pannala, Douglas Faigel
Abstract: The invention provides compositions and methods for assembling a DNA molecule having a desired sequence. The methods involve contacting a DNA polymerase, dNTPs, and a plurality of pairs of oligonucleotides. The oligonucleotides of a pair have a portion of the desired sequence, and an internal sequence that overlaps and is complementary to an internal sequence of the other oligonucleotide of the pair, and, when arranged in order, they have at least a portion of the desired sequence. The oligonucleotides also have a 3? or a 5? primer binding sequence having a binding site for a primer. The oligonucleotides that correspond to the end oligonucleotides of the desired sequence also have a universal 3? flanking sequence and a universal 5? flanking sequence, respectively.
Type:
Grant
Filed:
December 12, 2017
Date of Patent:
July 13, 2021
Assignee:
Codex DNA, Inc.
Inventors:
John E. Gill, Daniel G. Gibson, Lixia Fu
Abstract: The present application relates to the detection of material from genetically engineered Genetically Modified Organisms (GMO) using a panel of GMO proteins and GMO gene elements. In particular, the present application discloses an improved method for detecting the presence or absence of a panel of GMO proteins and gene elements in a sample.
Type:
Grant
Filed:
February 17, 2017
Date of Patent:
July 13, 2021
Assignee:
NUTRASOURCE PHARMACEUTICAL AND NUTRACEUTICAL SERVICES INC.
Inventors:
Olga Akimova, Anna Deboer, Lianghong Li, Steven Overgaard, Mike Wlodek