DNA Sequencing in Noncovalently Coated Capillaries Using Low Viscosity Polymer Solutions

Madabhushi, Ramakrishna S.

doi:10.1385/1-59259-116-7:309

Cited by 11 publications

(3 citation statements)

References 12 publications

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“…The first sequencing machines used this technology in combination with devices to automatically read fragments as they were separated on a polyacrylamide gel. Later, the gels were replaced by capillaries, which simplified the separation step and increased the length of reads (Madabhushi, 1998). In the past 10·years, the average length of a sequencing read has increased from around 450·bp to 850·bp.…”

Section: Old and New Sequencing Technologiesmentioning

confidence: 99%

Advanced sequencing technologies and their wider impact in microbiology

Hall

2007

Journal of Experimental Biology

304

188

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SUMMARY In the past 10 years, microbiology has undergone a revolution that has been driven by access to cheap high-throughput DNA sequencing. It was not long ago that the cloning and sequencing of a target gene could take months or years,whereas now this entire process has been replaced by a 10 min Internet search of a public genome database. There has been no single innovation that has initiated this rapid technological change; in fact, the core chemistry of DNA sequencing is the same as it was 30 years ago. Instead, progress has been driven by large sequencing centers that have incrementally industrialized the Sanger sequencing method. A side effect of this industrialization is that large-scale sequencing has moved out of small research labs, and the vast majority of sequence data is now generated by large genome centers. Recently,there have been advances in technology that will enable high-throughput genome sequencing to be established in research labs using bench-top instrumentation. These new technologies are already being used to explore the vast microbial diversity in the natural environment and the untapped genetic variation that can occur in bacterial species. It is expected that these powerful new methods will open up new questions to genomic investigation and will also allow high-throughput sequencing to be more than just a discovery exercise but also a routine assay for hypothesis testing. While this review will concentrate on microorganisms, many of the important arguments about the need to measure and understand variation at the species, population and ecosystem level will hold true for many other biological systems.

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Section: Old and New Sequencing Technologiesmentioning

confidence: 99%

Advanced sequencing technologies and their wider impact in microbiology

Hall

2007

Journal of Experimental Biology

304

188

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“…The nested fragments are then separated by their size using high-resolution gel electrophoresis and analyzed to reveal the DNA sequence. Advancements in fluorescence detection (Smith et al 1986;Prober et al 1987), enzymology (Tabor andRichardson 1989, 1995), fluorescent dyes (Ju et al 1995;Metzker et al 1996;Lee et al 1997), dynamic-coating polymers and their derivatives (Ruiz-Martinez et al 1993;Carrilho et al 1996;Madabhushi et al 1996Madabhushi et al , 1999Madabhushi 1998;Salas-Solano et al 1998;Guttman 2002aGuttman , 2002b, and capillary array electrophoresis (CAE) (Takahashi et al 1994;Kheterpal et al 1996) have helped to define current DNA sequencing platforms.…”

Section: Sanger Sequencing: State-of-the-art Technologymentioning

confidence: 99%

Emerging technologies in DNA sequencing

Metzker¹

2005

Genome Res.

413

262

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Demand for DNA sequence information has never been greater, yet current Sanger technology is too costly, time consuming, and labor intensive to meet this ongoing demand. Applications span numerous research interests, including sequence variation studies, comparative genomics and evolution, forensics, and diagnostic and applied therapeutics. Several emerging technologies show promise of delivering next-generation solutions for fast and affordable genome sequencing. In this review article, the DNA polymerase-dependent strategies of Sanger sequencing, single nucleotide addition, and cyclic reversible termination are discussed to highlight recent advances and potential challenges these technologies face in their development for ultrafast DNA sequencing.

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“…DYEnamic ET primers and DYEnamic ET terminator kits with Thermo Sequenase DNA polymerse are optimized for use with MegaBACE1000. Read lengths in excess of 800 bp are possible with an average read length with dye primer chemistry of >550 bp at 98.5% accuracy with M13 standard template (Madabhushi et al 1997;Madabhushi 1998).…”

Section: Capillary-based Sequencersmentioning

confidence: 99%

Automation for Genomics, Part Two: Sequencers, Microarrays, and Future Trends

Meldrum¹

2000

Genome Res.

116

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Automation for genomics has enabled a 43-fold increase in the total finished human genomic sequence in the world in the past four years. This is the second half of a two-part, noncomprehensive review that presents an overview of different types of automation equipment used in genome sequencing. The first part of the review, published in the previous issue, focused on automated procedures used to prepare DNA for sequencing or analysis. This second part of the review presents a look at available DNA sequencers and array technology and concludes with a look at future technologies. Alternate sequencing technologies including mass spectrometry, biochips, and single molecule analysis are included in this review.Sequencing data, essential for many of the medical breakthroughs of today and tomorrow, is currently accumulating at an exponential rate, largely because of advances in sequencing methods and laboratory automation. Instruments are available that can automate nearly every step in the large-scale sequencing process.The first article in this two-part review (Meldrum 2000) presented a description of automation designed for isolating DNA, cloning or amplifying DNA, preparing enzymatic sequencing reactions, and purifying DNA. Part one of the review also showed that the majority of genome centers use both in-house automation and commercial automation (Collins et al. 1998;Wendl et al. 1998;Mullikin and McMurragy 1999;Spurr et al. 1999; see http://www.genome.org for a supplementary table providing a snapshot view of automation used at a number of different genome centers).In this, the second part of the review, the focus is on automation after DNA preparation and sequencing reactions-on obtaining the sequence and its analysis. A discussion of future technologies for DNA sequencing projects is also included. (See the web sites referenced for photos or further details on the instruments presented.)

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DNA Sequencing in Noncovalently Coated Capillaries Using Low Viscosity Polymer Solutions

Cited by 11 publications

References 12 publications

Advanced sequencing technologies and their wider impact in microbiology

Advanced sequencing technologies and their wider impact in microbiology

Emerging technologies in DNA sequencing

Automation for Genomics, Part Two: Sequencers, Microarrays, and Future Trends

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