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HOME > J. Microbiol > Volume 48(6); 2010 > Article
Research Support, Non-U.S. Gov't
An Improved Method for Extracting Bacteria from Soil for High Molecular Weight DNA Recovery and BAC Library Construction
Juan Liu , Jingquan Li , Li Feng , Hui Cao , Zhongli Cui
Journal of Microbiology 2010;48(6):728-733.
DOI: https://doi.org/10.1007/s12275-010-0139-1
Published online: January 9, 2011
Key Laboratory of Microbiological Engineering of Agricultural Environment, Ministry of Agriculture, College of Life Sciences of Nanjing Agricultural University, Nanjing, Jiangsu 210095, P. R. ChinaKey Laboratory of Microbiological Engineering of Agricultural Environment, Ministry of Agriculture, College of Life Sciences of Nanjing Agricultural University, Nanjing, Jiangsu 210095, P. R. China
Corresponding author:  Zhongli Cui , Tel: +86-25-8439-6753, 
Received: 12 April 2010   • Accepted: 15 July 2010
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Abstract

Separation of bacterial cells from soil is a key step in the construction of metagenomic BAC libraries with large DNA inserts. Our results showed that when combined with sodium pyro-phosphate and homogenization for soil dispersion, sucrose density gradient centrifugation (SDGC) was more effective at separating bacteria from soil than was low speed centrifugation (LSC). More than 70% of the cells, along with some soil colloids, were recovered with one round of centrifugation. A solution of 0.8% NaCl was used to resuspend these cell and soil pellets for purification with nycodenz density gradient centrifugation (NDGC). After purification, more than 30% of the bacterial cells in the primary soil were extracted. This procedure effectively removed soil contamination and yielded sufficient cells for high molecular weight (HMW) DNA isolation. Ribosomal intergenic spacer analysis (RISA) showed that the microbial community structure of the extracted cells was similar to that of the primary soil, suggesting that this extraction procedure did not significantly change the the soil bacteria community structure. HMW DNA was isolated from bacterial cells extracted from red soil for metagenomic BAC library construction. This library contained DNA inserts of more than 200 Mb with an average size of 75 kb.

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    An Improved Method for Extracting Bacteria from Soil for High Molecular Weight DNA Recovery and BAC Library Construction
    J. Microbiol. 2010;48(6):728-733.   Published online January 9, 2011
    DOI: https://doi.org/10.1007/s12275-010-0139-1
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