Ultra-high sensitive monitoring of early transplantation failure

Patent metadata

Field	Value
Publication number	US-10072294-B2
Application number	US-201214000485-A
Country	US
Kind code	B2
Filing date	Feb 16, 2012
Priority date	Feb 22, 2011
Publication date	Sep 11, 2018
Grant date	Sep 11, 2018

Abstract

The present invention provides a method for detecting transplantation failure of a transplanted organ or cells which comprises detecting a donor-positive but recipient-negative DNA marker in the recipient's plasma using pyrophosphorolysis activated polymerization. Because of the high sensitivity, specificity and selectivity of pyrophosphorolysis activated polymerization, transplantation failure can be detected at early stages and treatment can be initiate earlier.

First claim

What is claimed is:

1. A method of detecting presence of and/or amount of one or more donor-positive, recipient-negative polymorphisms in a transplant recipient at different points in time which comprises:
(a) screening a panel of DNA polymorphisms using bi-directional pyrophosphorolysis activated polymerization (Bi-PAP) to identify one or more donor-positive, recipient-negative DNA polymorphisms;
(b) obtaining a sample of a transplant recipient at a first point in time;
(c) isolating DNA from the sample of (b);
(d) detecting the presence of and/or amount of one or more donor-positive, recipient-negative DNA polymorphisms in the recipient sample of (b) by amplifying the DNA of (c) using Bi-PAP and detecting the presence of and/or the amount of one or more donor-positive, recipient negative DNA polymorphisms in the amplified DNA;
(e) obtaining a sample of a transplant recipient at a second point in time;
(f) isolating DNA from the sample of (e); and
(g) detecting the presence and/or amount of one or more donor-positive, recipient-negative DNA polymorphisms in the recipient sample of (e) by amplifying the DNA of (f) using bi-PAP and detecting the presence of and/or the amount of one or more donor-positive, recipient negative DNA polymorphisms in the amplified DNA;
wherein the panel of DNA polymorphisms comprises Rs396, Rs7289, Rs7825, Rs11793, Rs11901, Rs33296, Rs153887, Rs4261, Rs30209, Rs31224, and Rs156988.

2. The method of claim 1 , wherein steps (e)-(g) are repeated one or more times to detect the presence of and/or amount of one or more donor-positive, recipient-negative cells in a transplant recipient at a third and greater point in time.

3. The method of claim 2 , wherein the transplant recipient has received transplanted islet cells.

4. The method of claim 1 , wherein the transplant recipient has received transplanted islet cells.

5. The method of claim 1 , wherein the one or more donor-positive, recipient-negative DNA polymorphism identified is Rs396, and the bi-directional pyrophosphorolysis activated polymerization is performed at the first and second time points using four primers, wherein the primers have the sequences comprising SEQ ID NO: 2-5.

6. The method of claim 1 , wherein the one or more donor-positive, recipient-negative DNA polymorphism identified is Rs7289, and the bi-directional pyrophosphorolysis activated polymerization is performed at the first and second time points using four primers, wherein the primers have the sequences comprising SEQ ID NO: 7-10.

7. The method of claim 1 , wherein the one or more donor-positive, recipient-negative DNA polymorphism identified is Rs7825, and the bi-directional pyrophosphorolysis activated polymerization is performed at the first and second time points using four primers, wherein the primers have the sequences comprising SEQ ID NO: 12-15.

8. The method of claim 1 , wherein the one or more donor-positive, recipient-negative DNA polymorphism identified is Rs11793, and the bi-directional pyrophosphorolysis activated polymerization is performed at the first and second time points using four primers, wherein the primers have the sequences comprising SEQ ID NO: 17-20.

9. The method of claim 1 , wherein the one or more donor-positive, recipient-negative DNA polymorphism identified is Rs11901, and the bi-directional pyrophosphorolysis activated polymerization is performed at the first and second time points using four primers, wherein the primers have the sequences comprising SEQ ID NO: 22-25.

10. The method of claim 1 , wherein the one or more donor-positive, recipient-negative DNA polymorphism identified is Rs33296, and the bi-directional pyrophosphorolysis activated polymerization is performed at the first and second time points using four primers, wherein the primers have the sequences comprising SEQ ID NO: 27-30.

11. The method of claim 1 , wherein the one or more donor-positive, recipient-negative DNA polymorphism identified is Rs153887, and the bi-directional pyrophosphorolysis activated polymerization is performed at the first and second time points using four primers, wherein the primers have the sequences comprising SEQ ID NO: 32-35.

12. The method of claim 1 , wherein the one or more donor-positive, recipient-negative DNA polymorphism identified is Rs4261, and the bi-directional pyrophosphorolysis activated polymerization is performed at the first and second time points using four primers, wherein the primers have the sequences comprising SEQ ID NO: 37-40.

13. The method of claim 1 , wherein the one or more donor-positive, recipient-negative DNA polymorphism identified is Rs30209, and the bi-directional pyrophosphorolysis activated polymerization is performed at the first and second time points using four primers, wherein the primers have the sequences comprising SEQ ID NO: 42-45.

14. The method of claim 1 , wherein the one or more donor-positive, recipient-negative DNA polymorphism identified is Rs31224, and the bi-directional pyrophosphorolysis activated polymerization is performed at the first and second time points using four primers, wherein the primers have the sequences comprising SEQ ID NO: 47-50.

15. The method of claim 1 , wherein the one or more donor-positive, recipient-negative DNA polymorphism identified is Rs156988, and the bi-directional pyrophosphorolysis activated polymerization is performed at the first and second time points using four primers, wherein the primers have the sequences comprising SEQ ID NO: 52-55.

Assignees

• Yen Yun
• Liu Qiang
• Kandeel Fouad
• Ferreri Kevin
• Sommer Steve S
• Shehatta Rasha
• Hope City

Inventors

• Yen Yun
• Liu Qiang
• Kandeel Fouad
• Ferreri Kevin
• Sommer Steve S
• Shehatta Rasha

Classifications

• G01N2510/00

  Detection of programmed cell death, i.e. apoptosis · CPC title

• C12Q1/6883 Primary

  for diseases caused by alterations of genetic material · CPC title

• C12Q2600/156

  Polymorphic or mutational markers · CPC title