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Title: PanDaTox: A tool for accelerated metabolic engineering

Abstract

Metabolic engineering is often facilitated by cloning of genes encoding enzymes from various heterologous organisms into E. coli. Such engineering efforts are frequently hampered by foreign genes that are toxic to the E. coli host. We have developed PanDaTox (www.weizmann.ac.il/pandatox), a web-based resource that provides experimental toxicity information for more than 1.5 million genes from hundreds of different microbial genomes. The toxicity predictions, which were extensively experimentally verified, are based on serial cloning of genes into E. coli as part of the Sanger whole genome shotgun sequencing process. PanDaTox can accelerate metabolic engineering projects by allowing researchers to exclude toxic genes from the engineering plan and verify the clonability of selected genes before the actual metabolic engineering experiments are conducted.

Authors:
;
Publication Date:
Research Org.:
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Sponsoring Org.:
USDOE Office of Science (SC)
OSTI Identifier:
1241208
Report Number(s):
LBNL-7067E
Journal ID: ISSN 2165-5979
DOE Contract Number:
DE-AC02-05CH11231
Resource Type:
Journal Article
Resource Relation:
Journal Name: Bioengineered; Journal Volume: 3; Journal Issue: 4
Country of Publication:
United States
Language:
English
Subject:
60 APPLIED LIFE SCIENCES; Metabolic engineering, toxic genes, pandatox, gene cloning, synthetic biology

Citation Formats

Amitai, Gil, and Sorek, Rotem. PanDaTox: A tool for accelerated metabolic engineering. United States: N. p., 2012. Web. doi:10.4161/bioe.20431.
Amitai, Gil, & Sorek, Rotem. PanDaTox: A tool for accelerated metabolic engineering. United States. doi:10.4161/bioe.20431.
Amitai, Gil, and Sorek, Rotem. Wed . "PanDaTox: A tool for accelerated metabolic engineering". United States. doi:10.4161/bioe.20431. https://www.osti.gov/servlets/purl/1241208.
@article{osti_1241208,
title = {PanDaTox: A tool for accelerated metabolic engineering},
author = {Amitai, Gil and Sorek, Rotem},
abstractNote = {Metabolic engineering is often facilitated by cloning of genes encoding enzymes from various heterologous organisms into E. coli. Such engineering efforts are frequently hampered by foreign genes that are toxic to the E. coli host. We have developed PanDaTox (www.weizmann.ac.il/pandatox), a web-based resource that provides experimental toxicity information for more than 1.5 million genes from hundreds of different microbial genomes. The toxicity predictions, which were extensively experimentally verified, are based on serial cloning of genes into E. coli as part of the Sanger whole genome shotgun sequencing process. PanDaTox can accelerate metabolic engineering projects by allowing researchers to exclude toxic genes from the engineering plan and verify the clonability of selected genes before the actual metabolic engineering experiments are conducted.},
doi = {10.4161/bioe.20431},
journal = {Bioengineered},
number = 4,
volume = 3,
place = {United States},
year = {Wed Jul 18 00:00:00 EDT 2012},
month = {Wed Jul 18 00:00:00 EDT 2012}
}