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Mining Xanthomonas and Streptomyces genomes for new pectinase-encoding sequences and their heterologous expression in Escherichia coli

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Abstract

Microbial genome sequencing has left a legacy of annotated yet uncharacterized genes or open reading frames, activities that may have useful applications in health and/or the environment. We are interested in the discovery and characterization of potentially new pectinolytic activities for the enzymatic retting of natural bast fibers such as hemp and flax. A highlight in this study is the discovery of a cold-active pectate lyase among five pectate-lyase-encoding sequences and two polygalacturonase-encoding sequences that we have cloned from the genomes of Xanthomonas campestris pv. campestris and Streptomyces coelicolor A3(2). Heterologous expression of these sequences as active pectate lyases and polygalacturonases required their subcloning in Escherichia coli Rosetta™ cells. The most active recombinant pectate lyase (XcPL NP_638163), a cold-active pectate lyase (XcPL NP_636037), and a polygalacturonase (XcPG NP_638805) were purified to near homogeneity and their kinetic parameters were determined. A significant amount of pectin degradation products was shown to be released by the two pectate lyases but not the polygalacturonase when hemp fiber pectin was used as substrate. Results of this study showed that genome data mining, besides an economical approach to new gene acquisition, may uncover new findings such as the discovery of a cold-active pectate-lyase-encoding sequence from X. campestris, a mesophilic microorganism.

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Acknowledgment

We thank the Climate Change Technology and Innovation Biotechnology Program of the Canadian Biomass Innovation Network of Natural Resources Canada for postdoctoral support to ZX and EC. We are grateful to Wing Sung for his numerous advice. This publication is issued as NRCC number 49098.

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Correspondence to Peter C. K. Lau.

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Xiao, Z., Boyd, J., Grosse, S. et al. Mining Xanthomonas and Streptomyces genomes for new pectinase-encoding sequences and their heterologous expression in Escherichia coli . Appl Microbiol Biotechnol 78, 973–981 (2008). https://doi.org/10.1007/s00253-008-1389-2

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Keywords

  • Natural fibers processing
  • Bioscouring
  • Genome mining
  • Pectinases
  • Cold-active enzyme