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Burkholderia genome mining for nonribosomal peptide synthetases reveals a great potential for novelsiderophores and lipopeptides synthesis

(2016) MICROBIOLOGYOPEN. 5(3). p.512-526
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Abstract
Burkholderia is an important genus encompassing a variety of species, including pathogenic strains as well as strains that promote plant growth. We have carried out a global strategy, which combined two complementary approaches. The first one is genome guided with deep analysis of genome sequences and the second one is assay guided with experiments to support the predictions obtained in silico. This efficient screening for new secondary metabolites, performed on 48 gapless genomes of Burkholderia species, revealed a total of 161 clusters containing nonribosomal peptide synthetases (NRPSs), with the potential to synthesize at least 11 novel products. Most of them are siderophores or lipopeptides, two classes of products with potential application in biocontrol. The strategy led to the identification, for the first time, of the cluster for cepaciachelin biosynthesis in the genome of Burkholderiaambifaria AMMD and a cluster corresponding to a new malleobactin-like siderophore, called phymabactin, was identified in Burkholderiaphymatum STM815 genome. In both cases, the siderophore was produced when the strain was grown in iron-limited conditions. Elsewhere, the cluster for the antifungal burkholdin was detected in the genome of B.ambifaria AMMD and also Burkholderia sp. KJ006. Burkholderiapseudomallei strains harbor the genetic potential to produce a novel lipopeptide called burkhomycin, containing a peptidyl moiety of 12 monomers. A mixture of lipopeptides produced by Burkholderiarhizoxinica lowered the surface tension of the supernatant from 70 to 27mN center dot m(-1). The production of nonribosomal secondary metabolites seems related to the three phylogenetic groups obtained from 16S rRNA sequences. Moreover, the genome-mining approach gave new insights into the nonribosomal synthesis exemplified by the identification of dual C/E domains in lipopeptide NRPSs, up to now essentially found in Pseudomonas strains.
Keywords
Burkholderia, genome mining, lipopeptide, NRPS, siderophore, HUMAN PATHOGENIC BACTERIA, NEIGHBOR-JOINING METHOD, PSEUDOMONAS-CEPACIA, BIOSYNTHETIC PATHWAYS, SIDEROPHORE, PEPTIDES, AERUGINOSA, PYOCHELIN, DATABASE, STRAINS

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Chicago
Esmaeel, Qassim, Maude Pupin, Nam Kieu Phuong, Gabrielle Chataigne, Max Béchet, Jovana Deravel, François Krier, Monica Höfte, Philippe Jacques, and Valérie Leclère. 2016. “Burkholderia Genome Mining for Nonribosomal Peptide Synthetases Reveals a Great Potential for Novelsiderophores and Lipopeptides Synthesis.” Microbiologyopen 5 (3): 512–526.
APA
Esmaeel, Q., Pupin, M., Kieu Phuong, N., Chataigne, G., Béchet, M., Deravel, J., Krier, F., et al. (2016). Burkholderia genome mining for nonribosomal peptide synthetases reveals a great potential for novelsiderophores and lipopeptides synthesis. MICROBIOLOGYOPEN, 5(3), 512–526.
Vancouver
1.
Esmaeel Q, Pupin M, Kieu Phuong N, Chataigne G, Béchet M, Deravel J, et al. Burkholderia genome mining for nonribosomal peptide synthetases reveals a great potential for novelsiderophores and lipopeptides synthesis. MICROBIOLOGYOPEN. 2016;5(3):512–26.
MLA
Esmaeel, Qassim, Maude Pupin, Nam Kieu Phuong, et al. “Burkholderia Genome Mining for Nonribosomal Peptide Synthetases Reveals a Great Potential for Novelsiderophores and Lipopeptides Synthesis.” MICROBIOLOGYOPEN 5.3 (2016): 512–526. Print.
@article{8164230,
  abstract     = {Burkholderia is an important genus encompassing a variety of species, including pathogenic strains as well as strains that promote plant growth. We have carried out a global strategy, which combined two complementary approaches. The first one is genome guided with deep analysis of genome sequences and the second one is assay guided with experiments to support the predictions obtained in silico. This efficient screening for new secondary metabolites, performed on 48 gapless genomes of Burkholderia species, revealed a total of 161 clusters containing nonribosomal peptide synthetases (NRPSs), with the potential to synthesize at least 11 novel products. Most of them are siderophores or lipopeptides, two classes of products with potential application in biocontrol. The strategy led to the identification, for the first time, of the cluster for cepaciachelin biosynthesis in the genome of Burkholderiaambifaria AMMD and a cluster corresponding to a new malleobactin-like siderophore, called phymabactin, was identified in Burkholderiaphymatum STM815 genome. In both cases, the siderophore was produced when the strain was grown in iron-limited conditions. Elsewhere, the cluster for the antifungal burkholdin was detected in the genome of B.ambifaria AMMD and also Burkholderia sp. KJ006. Burkholderiapseudomallei strains harbor the genetic potential to produce a novel lipopeptide called burkhomycin, containing a peptidyl moiety of 12 monomers. A mixture of lipopeptides produced by Burkholderiarhizoxinica lowered the surface tension of the supernatant from 70 to 27mN center dot m(-1). The production of nonribosomal secondary metabolites seems related to the three phylogenetic groups obtained from 16S rRNA sequences. Moreover, the genome-mining approach gave new insights into the nonribosomal synthesis exemplified by the identification of dual C/E domains in lipopeptide NRPSs, up to now essentially found in Pseudomonas strains.},
  author       = {Esmaeel, Qassim and Pupin, Maude and Kieu Phuong, Nam and Chataigne, Gabrielle and B{\'e}chet, Max and Deravel, Jovana and Krier, Fran\c{c}ois and H{\"o}fte, Monica and Jacques, Philippe and Lecl{\`e}re, Val{\'e}rie},
  issn         = {2045-8827},
  journal      = {MICROBIOLOGYOPEN},
  language     = {eng},
  number       = {3},
  pages        = {512--526},
  title        = {Burkholderia genome mining for nonribosomal peptide synthetases reveals a great potential for novelsiderophores and lipopeptides synthesis},
  url          = {http://dx.doi.org/10.1002/mbo3.347},
  volume       = {5},
  year         = {2016},
}

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