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The evolution of nanopore sequencing.

Wang Y, Yang Q, Wang Z - Front Genet (2015)

Bottom Line: Both of protein and solid-state nanopores have been extensively investigated for a series of issues, from detection of ionic current blockage to field-effect-transistor (FET) sensors.A newly released protein nanopore sequencer has shown encouraging potential that nanopore sequencing will ultimately fulfill the gold standards.In this review, we address advances, challenges, and possible solutions of nanopore sequencing according to these standards.

View Article: PubMed Central - PubMed

Affiliation: Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University Shanghai, China.

ABSTRACT
The "$1000 Genome" project has been drawing increasing attention since its launch a decade ago. Nanopore sequencing, the third-generation, is believed to be one of the most promising sequencing technologies to reach four gold standards set for the "$1000 Genome" while the second-generation sequencing technologies are bringing about a revolution in life sciences, particularly in genome sequencing-based personalized medicine. Both of protein and solid-state nanopores have been extensively investigated for a series of issues, from detection of ionic current blockage to field-effect-transistor (FET) sensors. A newly released protein nanopore sequencer has shown encouraging potential that nanopore sequencing will ultimately fulfill the gold standards. In this review, we address advances, challenges, and possible solutions of nanopore sequencing according to these standards.

No MeSH data available.


Nucleotide-pairing based electron tunneling detection (Ohshiro and Umezawa, 2006). Reproduced by copyright permission of National Academy of Sciences.
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Figure 10: Nucleotide-pairing based electron tunneling detection (Ohshiro and Umezawa, 2006). Reproduced by copyright permission of National Academy of Sciences.

Mentions: Hydrogen bond-mediated tunneling. In 2005, Xu and colleagues reported their preliminary studies on DNA tunneling between Au(111) surface and tip of scanning tunneling microscope (STM), and presumed that these tunneling effect could be mediated by base pairing (Xu et al., 2005). Later, they reported (Xu et al., 2007) that the four DNA nucleosides and methylated bases deposited on Au(111) surface have specific tunneling conductance despite signal overlaps between bases are observed. This work demonstrated that it was possible to sequence DNA using electronic means. In 2006, Umezawa and colleagues reported that tips of STM with thiol derivatives of the 4 bases enhance electron tunneling signals when they are used to detect their complementary counterparts compared with their non-complementary ones (Figure 10), indicating that hydrogen bonds facilitate tunneling currents (Ohshiro and Umezawa, 2006).


The evolution of nanopore sequencing.

Wang Y, Yang Q, Wang Z - Front Genet (2015)

Nucleotide-pairing based electron tunneling detection (Ohshiro and Umezawa, 2006). Reproduced by copyright permission of National Academy of Sciences.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4285804&req=5

Figure 10: Nucleotide-pairing based electron tunneling detection (Ohshiro and Umezawa, 2006). Reproduced by copyright permission of National Academy of Sciences.
Mentions: Hydrogen bond-mediated tunneling. In 2005, Xu and colleagues reported their preliminary studies on DNA tunneling between Au(111) surface and tip of scanning tunneling microscope (STM), and presumed that these tunneling effect could be mediated by base pairing (Xu et al., 2005). Later, they reported (Xu et al., 2007) that the four DNA nucleosides and methylated bases deposited on Au(111) surface have specific tunneling conductance despite signal overlaps between bases are observed. This work demonstrated that it was possible to sequence DNA using electronic means. In 2006, Umezawa and colleagues reported that tips of STM with thiol derivatives of the 4 bases enhance electron tunneling signals when they are used to detect their complementary counterparts compared with their non-complementary ones (Figure 10), indicating that hydrogen bonds facilitate tunneling currents (Ohshiro and Umezawa, 2006).

Bottom Line: Both of protein and solid-state nanopores have been extensively investigated for a series of issues, from detection of ionic current blockage to field-effect-transistor (FET) sensors.A newly released protein nanopore sequencer has shown encouraging potential that nanopore sequencing will ultimately fulfill the gold standards.In this review, we address advances, challenges, and possible solutions of nanopore sequencing according to these standards.

View Article: PubMed Central - PubMed

Affiliation: Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University Shanghai, China.

ABSTRACT
The "$1000 Genome" project has been drawing increasing attention since its launch a decade ago. Nanopore sequencing, the third-generation, is believed to be one of the most promising sequencing technologies to reach four gold standards set for the "$1000 Genome" while the second-generation sequencing technologies are bringing about a revolution in life sciences, particularly in genome sequencing-based personalized medicine. Both of protein and solid-state nanopores have been extensively investigated for a series of issues, from detection of ionic current blockage to field-effect-transistor (FET) sensors. A newly released protein nanopore sequencer has shown encouraging potential that nanopore sequencing will ultimately fulfill the gold standards. In this review, we address advances, challenges, and possible solutions of nanopore sequencing according to these standards.

No MeSH data available.