The potential and challenges of nanopore sequencing

被引：1968

作者：

Branton, Daniel ^{[1
]}

Deamer, David W. ^{[2
]}

Marziali, Andre ^{[3
]}

Bayley, Hagan ^{[4
]}

Benner, Steven A. ^{[5
]}

Butler, Thomas ^{[6
]}

Di Ventra, Massimiliano ^{[7
]}

Garaj, Slaven ^{[8
]}

Hibbs, Andrew ^{[9
]}

Huang, Xiaohua ^{[10
]}

Jovanovich, Stevan B. ^{[11
]}

Krstic, Predrag S. ^{[12
]}

Lindsay, Stuart ^{[13
,14
,15
]}

Ling, Xinsheng Sean ^{[16
]}

Mastrangelo, Carlos H. ^{[17
]}

Meller, Amit ^{[18
]}

Oliver, John S. ^{[19
]}

Pershin, Yuriy V. ^{[7
]}

Ramsey, J. Michael ^{[20
]}

Riehn, Robert ^{[21
]}

Soni, Gautam V. ^{[18
]}

Tabard-Cossa, Vincent ^{[3
]}

Wanunu, Meni

Wiggin, Matthew ^{[22
]}

Schloss, Jeffery A. ^{[23
]}

机构：

[1] Harvard Univ, Dept Mol & Cell Biol, Cambridge, MA 02138 USA

[2] Univ Calif Santa Cruz, Dept Chem & Biochem, Santa Cruz, CA 95064 USA

[3] Univ British Columbia, Dept Phys & Astron, Vancouver, BC V6T 1Z1, Canada

[4] Univ Oxford, Dept Biol Chem, Oxford OX1 3TA, England

[5] Fdn Appl Mol Evolut, Gainesville, FL 32604 USA

[6] Univ Washington, Dept Phys, Seattle, WA 98195 USA

[7] Univ Calif San Diego, Dept Phys, La Jolla, CA 92093 USA

[8] Harvard Univ, Dept Phys, Cambridge, MA 02138 USA

[9] Elect BioSci, San Diego, CA 92121 USA

[10] Univ Calif San Diego, Dept Bioengn, San Diego, CA 92093 USA

[11] Microchip Biotechnol Inc, Dublin, CA 94568 USA

[12] Oak Ridge Natl Lab, Oak Ridge, TN 37831 USA

[13] Arizona State Univ, Dept Phys, Tempe, AZ 85287 USA

[14] Arizona State Univ, Dept Chem, Tempe, AZ 85287 USA

[15] Arizona State Univ, Biodesign Inst, Tempe, AZ 85287 USA

[16] Brown Univ, Dept Phys, Providence, RI 02912 USA

[17] Case Western Reserve Univ, Cleveland, OH 44106 USA

[18] Boston Univ, Boston, MA 02215 USA

[19] NABsys Inc, Providence, RI 02906 USA

[20] Univ N Carolina, Dept Chem, Chapel Hill, NC 27599 USA

[21] N Carolina State Univ, Dept Phys, Raleigh, NC 27695 USA

[22] Univ British Columbia, Dept Biochem, Vancouver, BC V6T 1Z3, Canada

[23] Natl Human Genome Res Inst, Natl Inst Hlth, Bethesda, MD 20892 USA

来源：

NATURE BIOTECHNOLOGY | 2008年 / 26卷 / 10期

关键词：

D O I：

10.1038/nbt.1495

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 ; 0836 ; 090102 ; 100705 ;

摘要：

A nanopore-based device provides single-molecule detection and analytical capabilities that are achieved by electrophoretically driving molecules in solution through a nano-scale pore. The nanopore provides a highly confined space within which single nucleic acid polymers can be analyzed at high throughput by one of a variety of means, and the perfect processivity that can be enforced in a narrow pore ensures that the native order of the nucleobases in a polynucleotide is reflected in the sequence of signals that is detected. Kilobase length polymers (single-stranded genomic DNA or RNA) or small molecules (e.g., nucleosides) can be identified and characterized without amplification or labeling, a unique analytical capability that makes inexpensive, rapid DNA sequencing a possibility. Further research and development to overcome current challenges to nanopore identification of each successive nucleotide in a DNA strand offers the prospect of 'third generation' instruments that will sequence a diploid mammalian genome for similar to$1,000 in similar to 24 h.

引用

页码：1146 / 1153

页数：8

共 89 条

[1] Microsecond time-scale discrimination among polycytidylic acid, polyadenylic acid, and polyuridylic acid as homopolymers or as segments within single RNA molecules [J].

Akeson, M ;

Branton, D ;

Kasianowicz, JJ ;

Brandin, E ;

Deamer, DW .

BIOPHYSICAL JOURNAL, 1999, 77 (06) :3227-3233

[2] Imaging α-hemolysin with molecular dynamics:: Ionic conductance, osmotic permeability, and the electrostatic potential map [J].

Aksimentiev, A ;

Schulten, K .

BIOPHYSICAL JOURNAL, 2005, 88 (06) :3745-3761

[3] Microscopic kinetics of DNA translocation through synthetic nanopores [J].

Aksimentiev, A ;

Heng, JB ;

Timp, G ;

Schulten, K .

BIOPHYSICAL JOURNAL, 2004, 87 (03) :2086-2097

[4] Recognizing a single base in an individual DNA strand:: A step toward DNA sequencing in nanopores [J].

Ashkenasy, N ;

Sánchez-Quesada, J ;

Bayley, H ;

Ghadiri, MR .

ANGEWANDTE CHEMIE-INTERNATIONAL EDITION, 2005, 44 (09) :1401-1404

[5] Toward single molecule DNA sequencing:: Direct identification of ribonucleoside and deoxyribonucleoside 5′-monophosphates by using an engineered protein nanopore equipped with a molecular adapter [J].

Astier, Y ;

Braha, O ;

Bayley, H .

JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 2006, 128 (05) :1705-1710

[6] Sequence-specific detection of individual DNA polymerase complexes in real time using a nanopore [J].

Benner, Seico ;

Chen, Roger J. A. ;

Wilson, Noah A. ;

Abu-Shumays, Robin ;

Hurt, Nicholas ;

Lieberman, Kate R. ;

Deamer, David W. ;

Dunbar, William B. ;

Akeson, Mark .

NATURE NANOTECHNOLOGY, 2007, 2 (11) :718-724

[7] Designed protein pores as components for biosensors [J].

Braha, O ;

Walker, B ;

Cheley, S ;

Kasianowicz, JJ ;

Song, LZ ;

Gouaux, JE ;

Bayley, H .

CHEMISTRY & BIOLOGY, 1997, 4 (07) :497-505

[8]

Bready A., 2007, US patent application, Patent No. [2007 0190542, 20070190542]

[9] Influence of the stick-slip transition on the electrokinetic behavior of nanoporous material [J].

Cheikh, Christophe ;

Koper, Ger .

PHYSICA A-STATISTICAL MECHANICS AND ITS APPLICATIONS, 2007, 373 :21-28

[10] Probing single DNA molecule transport using fabricated nanopores [J].

Chen, P ;

Gu, JJ ;

Brandin, E ;

Kim, YR ;

Wang, Q ;

Branton, D .

NANO LETTERS, 2004, 4 (11) :2293-2298

← 1 2 3 4 5 6 7 8 9 →