Universal primers for rapid bacterial genome detection
AssigneeDay Zero Diagnostics, Inc.
InventorsImaly A. Nanayakkara, Thomas Culp, Chiahao Tsui, Douglas S. Kwon
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Abstract
The present disclosure relates generally to methods, compositions, and kits useful for detecting a multiplicity of bacterial genomes present in a sample (e.g., a biological sample obtained from a subject exhibiting one or more signs or symptoms of a bacterial infection). Specifically, the present disclosure relates to nucleic acid primers, primer sets, and multiplicities of primer sets that allow for broad (e.g., species non-specific) detection of bacterial genomes present in such a sample using loop-mediated isothermal amplification (LAMP).
Claims47
A set of isolated nucleic acid primers suitable for loop-mediated isothermal amplification (LAMP) and detection of a multiplicity of bacterial genomes, wherein the set is selected from the group consisting of:
- a set of nucleic acid primers for detection of Lactobacillales comprising four nucleotide sequences having at least 70% identity to SEQ ID NOs:
- 1-4, respectively;
- a set of nucleic acid primers for detection of Staphylococcus comprising four nucleotide sequences having at least 70% identity to SEQ ID NOs:
- 7-10, respectively;
- a set of nucleic acid primers for detection of Acinetobacter comprising four nucleotide sequences having at least 70% identity to SEQ ID NOs:
- 13-16, respectively;
- a set of nucleic acid primers for detection of Enterobacterales comprising four nucleotide sequences having at least 70% identity to SEQ ID NOs:
- 19-22, respectively;
- a set of nucleic acid primers for detection of Pasteurellales comprising four nucleotide sequences having at least 70% identity to SEQ ID NOs:
- 25-28, respectively;
- and
- a set of nucleic acid primers for detection of Pseudomonadales comprising four nucleotide sequences having at least 70% identity to SEQ ID NOs:
- 31-34, respectively.
A multiplicity of sets of isolated nucleic acid primers suitable for loop-mediated isothermal amplification (LAMP) and detection of a multiplicity of bacterial genomes, wherein the multiplicity of sets of nucleic acid primers comprises at least two sets selected from the group consisting of:
- a set of nucleic acid primers for detection of Lactobacillales comprising four nucleotide sequences having at least 70% identity to SEQ ID NOs.:
- 1-4, respectively;
- a set of nucleic acid primers for detection of Staphylococcus comprising four nucleotide sequences having at least 70% identity to SEQ ID NOs.:
- 7-10, respectively;
- a set of nucleic acid primers for detection of Acinetobacter comprising four nucleotide sequences having at least 70% identity to SEQ ID NOs.:
- 13-16, respectively;
- a set of nucleic acid primers for detection of Enterobacterales comprising four nucleotide sequences having at least 70% identity to SEQ ID NOs.:
- 19-22, respectively;
- a set of nucleic acid primers for detection of Pasteurellales comprising four nucleotide sequences having at least 70% identity to SEQ ID NOs.:
- 25-28, respectively;
- and
- a set of nucleic acid primers for detection of Pseudomonadales comprising four nucleotide sequences having at least 70% identity to SEQ ID NOs.:
- 31-34, respectively.
Dependencies are inferred from the claim text.