Curr Opin Microbiol. 2007 Oct;10(5):510-6. Epub 2007 Oct 17.

Single-cell genomic sequencing using Multiple Displacement Amplification.

Source

J. Craig Venter Institute, 11149 N. Torrey Pines Rd., Suite 200, La Jolla, CA 92037, USA. rlasken@jcvi.org

Abstract

Single microbial cells can now be sequenced using DNA amplified by the Multiple Displacement Amplification (MDA) reaction. The few femtograms of DNA in a bacterium are amplified into micrograms of high molecular weight DNA suitable for DNA library construction and Sanger sequencing. The MDA-generated DNA also performs well when used directly as template for pyrosequencing by the 454 Life Sciences method. While MDA from single cells loses some of the genomic sequence, this approach will greatly accelerate the pace of sequencing from uncultured microbes. The genetically linked sequences from single cells are also a powerful tool to be used in guiding genomic assembly of shotgun sequences of multiple organisms from environmental DNA extracts (metagenomic sequences).

PMID:: 17923430; [PubMed - indexed for MEDLINE]

Publication Types, MeSH Terms

Publication Types

Review

MeSH Terms

LinkOut - more resources

Full Text Sources

Other Literature Sources

Labome Researcher Resource - ExactAntigen/Labome

Supplemental Content

Related citations

Review Genomic sequencing of single microbial cells from environmental samples. [Curr Opin Microbiol. 2008]
Review Genomic sequencing of single microbial cells from environmental samples.
Ishoey T, Woyke T, Stepanauskas R, Novotny M, Lasken RS. Curr Opin Microbiol. 2008 Jun; 11(3):198-204. Epub 2008 Jun 10.
Environmental whole-genome amplification to access microbial populations in contaminated sediments. [Appl Environ Microbiol. 2006]
Environmental whole-genome amplification to access microbial populations in contaminated sediments.
Abulencia CB, Wyborski DL, Garcia JA, Podar M, Chen W, Chang SH, Chang HW, Watson D, Brodie EL, Hazen TC, et al. Appl Environ Microbiol. 2006 May; 72(5):3291-301.
Mechanism of chimera formation during the Multiple Displacement Amplification reaction. [BMC Biotechnol. 2007]
Mechanism of chimera formation during the Multiple Displacement Amplification reaction.
Lasken RS, Stockwell TB. BMC Biotechnol. 2007 Apr 12; 7:19. Epub 2007 Apr 12.
Marine methylotrophs revealed by stable-isotope probing, multiple displacement amplification and metagenomics. [Environ Microbiol. 2008]
Marine methylotrophs revealed by stable-isotope probing, multiple displacement amplification and metagenomics.
Neufeld JD, Chen Y, Dumont MG, Murrell JC. Environ Microbiol. 2008 Jun; 10(6):1526-35. Epub 2008 Feb 18.
Review Genomic DNA amplification by the multiple displacement amplification (MDA) method. [Biochem Soc Trans. 2009]
Review Genomic DNA amplification by the multiple displacement amplification (MDA) method.
Lasken RS. Biochem Soc Trans. 2009 Apr; 37(Pt 2):450-3.

See reviews... See all...

Cited by 13 PubMed Central articles

Going deeper: metagenome of a hadopelagic microbial community. [PLoS One. 2011]
Going deeper: metagenome of a hadopelagic microbial community.
Eloe EA, Fadrosh DW, Novotny M, Zeigler Allen L, Kim M, Lombardo MJ, Yee-Greenbaum J, Yooseph S, Allen EE, Lasken R, et al. PLoS One. 2011; 6(5):e20388. Epub 2011 May 24.
Diversity of bacteria at healthy human conjunctiva. [Invest Ophthalmol Vis Sci. 2011]
Diversity of bacteria at healthy human conjunctiva.
Dong Q, Brulc JM, Iovieno A, Bates B, Garoutte A, Miller D, Revanna KV, Gao X, Antonopoulos DA, Slepak VZ, et al. Invest Ophthalmol Vis Sci. 2011 Jul; 52(8):5408-13. Epub 2011 Jul 20.
Single cell genome amplification accelerates identification of the apratoxin biosynthetic pathway from a complex microbial assemblage. [PLoS One. 2011]
Single cell genome amplification accelerates identification of the apratoxin biosynthetic pathway from a complex microbial assemblage.
Grindberg RV, Ishoey T, Brinza D, Esquenazi E, Coates RC, Liu WT, Gerwick L, Dorrestein PC, Pevzner P, Lasken R, et al. PLoS One. 2011 Apr 12; 6(4):e18565. Epub 2011 Apr 12.

See all...

Related information

Related Citations
Calculated set of PubMed citations closely related to the selected article(s) retrieved using a word weight algorithm. Related articles are displayed in ranked order from most to least relevant, with the “linked from” citation displayed first.
Cited in PMC
Full-text articles in the PubMed Central Database that cite the current articles.

Recent activity

Clear Turn Off Turn On

Single-cell genomic sequencing using Multiple Displacement Amplification.
Single-cell genomic sequencing using Multiple Displacement Amplification.
Curr Opin Microbiol. 2007 Oct ;10(5):510-6. Epub 2007 Oct 17 .

PubMed
Reduced posterior hippocampal volume in posttraumatic stress disorder.
Reduced posterior hippocampal volume in posttraumatic stress disorder.
J Clin Psychiatry. 2008 Jul ;69(7):1087-91.

PubMed
Hidden in plain sight: the formal, informal, and hidden curricula of a psychiatr...
Hidden in plain sight: the formal, informal, and hidden curricula of a psychiatry clerkship.
Acad Med. 2009 Apr ;84(4):451-8.

PubMed
Risk of HIV infection in oral contraceptive pill users: a meta-analysis.
Risk of HIV infection in oral contraceptive pill users: a meta-analysis.
J Acquir Immune Defic Syndr. 1999 May 1 ;21(1):51-8.

PubMed
Intraurethral stimulation for reflex bladder activation depends on stimulation p...
Intraurethral stimulation for reflex bladder activation depends on stimulation pattern and location.
Neurourol Urodyn. 2009 ;28(6):561-6.

PubMed

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

PubMed

Display Settings:

Send to: