US2021189511A1PendingUtilityA1
Pna probes, probe sets, methods and kits pertaining to the detection of candida
Est. expiryMay 18, 2021(expired)· nominal 20-yr term from priority
C12Q 1/689C12Q 1/6895C07K 14/003C12Q 2525/107
71
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Claims
Abstract
This invention is related to novel PNA probes, probe sets, methods and kits pertaining to the detection of one or more species of Candida yeast. Non-limiting examples of probing nucleobase sequences that can be used for the probes of this invention can be selected from the group consisting of: AGA-GAG-CAG-CAT-GCA (Seq. Id. No. 1), AGA-GAG-CAA-CAT-GCA (Seq. Id. No. 2), ACA-GCA-GAA-GCC-GTG (Seq. Id. No. 3), CAT-AAA-TGG-CTA-CCA-GA (Seq. Id. No. 4), CAT-AAA-TGG-CTA-CCC-AG (Seq. Id. No. 5), ACT-TGG-AGT-CGA-TAG (Seq. Id. No. 6), CCA-ACG-CTT-ATA-CTC-GC (Seq. Id. No. 7), CCC-CTG-AAT-CGG-GAT (Seq. Id. No. 8), GAC-GCC-AAA-GAC-GCC (Seq. Id. No. 9), ATC-GTC-AGA-GGC-TAT-AA (Seq. Id. No. 10), TAG-CCA-GAA-GAA-AGG (Seq. Id. No. 11), CAT-AAA-TGG-CTA-GCC-AG (Seq. Id. No. 12), CTC-CGA-TGT-GAC-TGC-G (Seq. Id. No. 13), TCC-CAG-ACT-GCT-CGG (Seq. Id. No. 14), TCC-AAG-AGG-TCG-AGA (Seq. Id. No. 15), GCC-AAG-CCA-CAA-GGA (Seq. Id. No. 16), GCC-GCC-AAG-CCA-CA (Seq. Id. No. 17), GGA-CTT-GGG-GTT-AG (Seq. Id. No. 18), CCG-GGT-GCA-TTC-CA (Seq. Id. No. 19), ATG-TAG-AAC-GGA-ACT-A (Seq. Id. No. 20), GAT-TCT-CGG-CCC-CAT-G (Seq. Id. No. 21), CTG-GTT-CGC-CAA-AAA-G (Seq. Id. No. 22) and AGT-ACG-CAT-CAG-AAA (Seq. Id. No. 23).
Claims
exact text as granted — not AI-modified1 . A PNA probe comprising a probing nucleobase sequence suitable for detecting, identifying and/or quantitating one or more species of Candida yeast in a sample.
2 . The PNA probe of claim 1 , wherein at least a portion of the probing nucleobase sequence is at least ninety percent homologous to the nucleobase sequences, or their complements, selected from the group consisting of:
(Seq. Id. No. 1)
AGA-GAG-CAG-CAT-GCA,
(Seq. Id. No. 2)
AGA-GAG-CAA-CAT-GCA,
(Seq. Id. No. 3)
ACA-GCA-GAA-GCC-GTG,
(Seq. Id. No. 4)
CAT-AAA-TGG-CTA-CCA-GA,
(Seq. Id. No. 5)
CAT-AAA-TGG-CTA-CCC-AG,
(Seq. Id. No. 6)
ACT-TGG-AGT-CGA-TAG,
(Seq. Id. No. 7)
CCA-AGG-CTT-ATA-CTC-GC,
(Seq. Id. No. 8)
CCC-CTG-AAT-CGG-GAT,
(Seq. Id. No. 9)
GAC-GCC-AAA-GAC-GCC,
(Seq. Id. No. 10)
ATC-GTC-AGA-GGC-TAT-AA,
(Seq. Id. No. 11)
TAG-CCA-GAA-GAA-AGG,
(Seq. Id. No. 12)
CAT-AAA-TGG-CTA-GCC-AG,
(Seq. Id. No. 13)
CTC-CGA-TGT-GAC-TGC-G,
(Seq. Id. No. 14)
TCC-CAG-ACT-GCT-CGG,
(Seq. Id. No. 15)
TCC-AAG-AGG-TCG-AGA,
(Seq. Id. No. 16)
GCC-AAG-CCA-CAA-GGA,
(Seq. Id. No. 17)
GCC-GCC-AAG-CCA-CA,
(Seq. Id. No. 18)
GGA-CTT-GGG-GTT-AG,
(Seq. Id. No. 19)
CCG-GGT-GCA-TTC-CA,
(Seq. Id. No. 20)
ATG-TAG-AAC-GGA-ACT-A,
(Seq. Id. No. 21)
GAT-TCT-CGG-CCC-CAT-G,
(Seq. Id. No. 22)
CTG-GTT-CGC-CAA-AAA-G,
and
(Seq. Id. No. 23)
AGT-ACG-CAT-CAG-AAA.
3 . The PNA probe of claim 1 , wherein the probe is unlabeled.
4 . The PNA probe of claim 1 , wherein the probe is labeled with at least one detectable moiety.
5 .- 7 . (canceled)
8 . The PNA probe of claim 1 , wherein the probe is support bound.
9 . The PNA probe of claim 1 , wherein the probe is self-indicating.
10 . The PNA probe of claim 1 , wherein in situ hybridization is used to detect, identify or quantitate one or more 11. A PNA probe set suitable for detecting, identifying or quantitating one or more species of Candida yeast in a sample wherein at least one species of interest is selected from the group consisting of: C. albicans, C. dubliniensis, C. krusei, C. glabrata, C. parapsilosis and C. tropicalis.
11 . A PNA probe set suitable for detecting, identifying or quantitating one or more species of Candida yeast in a sample wherein at least one species of interest is selected from the group consisting of: C. cilbicans, C. dtthliniensis, C. krusei, C. glabrata, C. parapsilosis and C. tropicalis.
12 . The probe set of claim 11 , wherein at least one PNA probe of the set comprises a probing nucleobase sequence wherein at least a portion is at least ninety percent homologous to the nucleobase sequences, or their complements, selected from the group consisting of: AGA-GAG-CAG-CAT-GCA (Seq. Id. No. 1), AGA-GAG-CAA-CAT-GCA (Seq. Id. No. 2), ACA-GCA-GAA-GCC-GTG (Seq. Id. No. 3), CAT-AAA-TGG-CTA-CCA-GA (Seq. Id. No. 4), CAT-AAA-TGG-CTA-CCC-AG (Seq. Id. No. 5), ACT-TGG-AGT-CGA-TAG (Seq. Id. No. 6), CCA-AGG-CTT-ATA-CTC-GC (Seq. Id. No. 7), CCC-CTG-AAT-CGG-GAT (Seq. Id. No. 8), GAC-GCC-AAA-GAC-GCC (Seq. Id. No. 9), ATC-GTC-AGA-GGC-TAT-AA (Seq. Id. No. 10), TAG-CCA-GAA-GAA-AGG (Seq. Id. No. 11), CAT-AAA-TGG-CTA-GCC-AG (Seq. Id. No. 12), CTC-CGA-TGT-GAC-TGC-G (Seq. Id. No. 13), TCC-CAG-ACT-GCT-CGG (Seq. Id. No. 14), TCC-AAG-AGG-TCG-AGA (Seq. Id. No. 15), GCC-AAG-CCA-CAA-GGA (Seq. Id. No. 16), GCC-GCC-AAG-CCA-CA (Seq. Id. No. 17), GGA-CTT-GGG-GTT-AG (Seq. Id. No. 18), CCG-GGT-GCA-TTC-CA (Seq. Id. No. 19), ATG-TAG-AAC-GGA-ACT-A (Seq. Id. No. 20), GAT-TCT-CGG-CCC-CAT-G (Seq. Id. No. 21), CTG-GTT-CGC-CAA-AAA-G (Seq. Id. No. 22) and AGT-ACG-CAT-CAG-AAA (Seq. Id. No. 23).
13 . The probe set of claim 11 , wherein a PNA probe for C. albicans is selected from the group consisting of: AGA-GAG-CAG-CAT-GCA (Seq. Id. No. 1), AGA-GAG-CAA-CAT-GCA (Seq. Id. No. 2), ACA-GCA-GAA-GCC-GTG (Seq. Id. No. 3), CAT-AAA-TGG-CTA-CCA-GA (Seq. Id. No. 4), CAT-AAA-TGG-CTA-CCC-AG (Seq. Id. No. 5), ACT-TGG-AGT-CGA-TAG (Seq. Id. No. 6), CCA-AGG-CTT-ATA-CTC-GC (Seq. Id. No. 7) and CCC-CTG-AAT-CGG-GAT (Seq. Id. No. 8).
14 . The probe set of claim 11 , wherein a PNA probe for C. dubliniesis is selected from the group consisting of: TAG-CCA-GAA-GAA-AGG (Seq. Id. No. 11), CAT-AAA-TGG-CTA-GCC-AG (Seq. Id. No. 12), CTC-CGA-TGT-GAC-TGC-G (Seq. Id. No. 13) and TCC-CAG-ACT-GCT-CGG (Seq. Id. No. 14).
15 . The probe set of claim 11 , wherein a PNA probe for C. glabrata is selected from the group consisting of: TCC-AAG-AGG-TCG-AGA (Seq. Id. No. 15), GCC-AAG-CCA-CAA-GGA (Seq. Id. No. 16), GCC-GCC-AAG-CCA-CA (Seq. Id. No. 17), GGA-CTT-GGG-GTT-AG (Seq. Id. No. 18) and CCG-GGT-GCA-TTC-CA (Seq. Id. No. 19).
16 . The probe set of claim 11 , wherein a PNA probe for C. krusei is selected from the group consisting of: ATG-TAG-AAC-GGA-ACT-A (Seq. Id. No. 20) and GAT-TCT-CGG-CCC-CAT-G (Seq. Id. No. 21).
17 . The probe set of claim 11 , wherein at least one probe of the set is unlabeled.
18 .- 26 . (canceled)
27 . The probe set of claim 11 , wherein at least one probe of the set is support bound.
28 . A method for detecting, identifying and/or quantitating one or more species of Candida yeast in a sample; said method comprising the steps of:
a) contacting the sample with one or more PNA probes, wherein the one or more PNA probes have a probing nucleobase sequence that is at least ninety percent homologous to the nucleobase sequences, or their complements, selected from the group consisting of:
AGA-GAG-CAG-CAT-GCA, (Seq. Id. No. 1) AGA-GAG-CAA-CAT-GCA, (Seq. Id. No. 2) ACA-GCA-GAA-GCC-GTG, (Seq. Id. No. 3) CAT-AAA-TGG-CTA-CCA-GA, (Seq. Id. No. 4) CAT-AAA-TGG-CTA-CCC-AG, (Seq. Id. No. 5) ACT-TGG-AGT-CGA-TAG, (Seq. Id. No. 6) CCA-AGG-CTT-ATA-CTC-GC, (Seq. Id. No. 7) CCC-CTG-AAT-CGG-GAT, (Seq. Id. No. 8) GAC-GCC-AAA-GAC-GCC, (Seq. Id. No. 9) ATC-GTC-AGA-GGC-TAT-AA, (Seq. Id. No. 10) TAG-CCA-GAA-GAA-AGG, (Seq. Id. No. 11) CAT-AAA-TGG-CTA-GCC-AG, (Seq. Id. No. 12) CTC-CGA-TGT-GAC-TGC-G, (Seq. Id. No. 13) TCC-CAG-ACT-GCT-CGG, (Seq. Id. No. 14) TCC-AAG-AGG-TCG-AGA, (Seq. Id. No. 15) GCC-AAG-CCA-CAA-GGA, (Seq. Id. No. 16) GCC-GCC-AAG-CCA-CA, (Seq. Id. No. 17) GGA-CTT-GGG-GTT-AG, (Seq. Id. No. 18) CCG-GGT-GCA-TTC-CA, (Seq. Id. No. 19) ATG-TAG-AAC-GGA-ACT-A, (Seq. Id. No. 20) GAT-TCT-CGG-CCC-CAT-G, (Seq. Id. No. 21) CTG-GTT-CGC-CAA-AAA-G (Seq. Id. No. 22) and AGT-ACG-CAT-CAG-AAA; (Seq. Id. No. 23) and
b) detecting, identify and/or quantitating hybridization of the probing nucleobase sequence of a PNA probe to the target sequence of an organism of interest in the sample, under suitable hybridization conditions or suitable in-situ hybridization conditions, and correlating the result with the presence, absence or quantity of Candida yeast in the sample.
29 . The method of claim 28 , wherein at least one of the PNA probes is unlabeled.
30 .- 41 . (canceled)
42 . The method of claim 29 , wherein at least one PNA probe is support bound.
43 .- 56 . (canceled)Join the waitlist — get patent alerts
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