# US 10,480,036 B2 · Methods of detecting influenza

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- Number: US 10,480,036 B2
- Document ID: US10480036B2
- Status: Granted
- Kind: B2
- Application number: 15/504,901
- Filed: 2014-08-22
- Published: 2017-09-28
- Granted: 2019-11-19
- Earliest claimed: 2014-08-22
- Assignees: Cepheid
- Applicants: Cepheid
- Inventors: Anupama Mokkapati; Bradley Brown; Robert Jones
- Web page: https://patentgrep.com/patent/US10480036B2

## CPC

- C12Q 1/701: {Specific hybridization probes}
- C12Q: MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS (immunoassay G01N33/53); COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES

## Abstract

Compositions and methods for detecting influenza are provided.

## Claims

### Claim 1

A kit for detecting the presence of influenza in a sample from a human subject comprising
(a) first primer pair for detecting an influenza A PA gene, wherein the first primer pair comprises a first and second primer, wherein
the first primer comprises a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 20; and the second primer comprises a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 21;
(b) a second primer pair for detecting an influenza A PB2 gene, wherein the second primer pair comprises a third and fourth primer, wherein
the third primer comprises a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 17, and the fourth primer comprises a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 18;
(c) a third primer pair for detecting an influenza A MP gene, wherein the third primer pair comprises a fifth and sixth primer, wherein
the fifth primer comprises a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 23, and the sixth primer comprises a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 24;
(d) a fourth primer pair for detecting an avian influenza MP gene, wherein the fourth primer pair comprises a seventh and eighth primer, wherein
the seventh primer comprises a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 26, and the eighth primer comprises a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 27; and
(e) at least one probe selected from an influenza A PA probe comprising a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 22, an influenza A PB2 probe comprising a sequence that is at least 90% identical or complementary to at least 15 contiguous nucleotides of SEQ ID NO: 19, an influenza A MP probe comprising a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 25, and an avian influenza MP probe comprising a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 28.

### Claim 2

A composition comprising a primer pair comprising a first primer comprising a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 20; and a second primer comprising a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 21; and a probe comprising a sequence that is at least 90% identical or complementary to at least 15 contiguous nucleotides of SEQ ID NO: 22.

### Claim 3

A composition comprising a primer pair comprising a first primer comprising a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 17; and a second primer comprising a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 18; and a probe comprising a sequence that is at least 90% identical or complementary to at least 15 contiguous nucleotides of SEQ ID NO: 19.

### Claim 4

A composition comprising a primer pair comprising a first primer comprising a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 23; and a second primer comprising a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 24; and a probe comprising a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 25.

### Claim 5

A composition comprising a primer pair comprising a first primer comprising a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 26; and a second primer comprising a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 27; and a probe comprising a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 28.

### Claim 6 (depends on 1)

The kit of claim 1 further comprising a fifth primer pair for detecting an avian influenza HA gene, wherein the fifth primer pair comprises a ninth and tenth primer, wherein
(i) the ninth primer comprises a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 5, and the tenth primer comprises a sequence that is at least 90% complementary to at least 15 contiguous nucleotides of SEQ ID NO: 5; or
(ii) the ninth primer comprises a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 29, and the tenth primer comprises a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 30.

### Claim 7 (depends on 6)

The kit of claim 6 further comprising a sixth primer pair for detecting an influenza gene selected from an influenza B MP gene and an influenza B NS gene, wherein the sixth primer pair comprises an eleventh and twelfth primer, wherein:
(i) the eleventh primer comprises a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 6, and the twelfth primer comprises a sequence that is at least 90% complementary to at least 15 contiguous nucleotides of SEQ ID NO: 6;
(ii) the eleventh primer comprises a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 7, and the twelfth primer comprises a sequence that is at least 90% complementary to at least 15 contiguous nucleotides of SEQ ID NO: 7;
(iii) the eleventh primer comprises a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 32, and the twelfth primer comprises a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 33; or
(iv) the eleventh primer comprises a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 35, and the twelfth primer comprises a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 36.

### Claim 8 (depends on 7)

The kit of claim 7, further comprising a seventh primer pair for detecting RSV A or RSV B, wherein the seventh primer pair comprises a thirteenth and fourteenth primer, wherein:
a. the thirteenth primer comprises a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 38, and the fourteenth primer comprises a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 39; or
b. the thirteenth primer comprises a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 41, and the fourteenth primer comprises a sequence that is at least 90% identical to at least 15 contiguous nucleotides of SEQ ID NO: 42.

### Claim 9 (depends on 8)

The kit of claim 8, further comprising a primer pair for detecting an exogenous control and/or an endogenous control, wherein the exogenous control is a sample processing control, and wherein the endogenous control is a sample adequacy control.

### Claim 10 (depends on 9)

The kit of claim 9, further comprising an exogenous control probe and/or endogenous control probe.

### Claim 11 (depends on 8)

The kit of claim 8, wherein at least one primer or probe is detectably labeled.