Abstract
Burkholderia contaminans LTEB11 is a Gram-negative betaproteobacterium isolated as a contaminant of a culture in mineral medium supplemented with vegetable oil. Here, we report the genome sequence of B. contaminans LTEB11, identifying and analyzing the genes involved in its lipolytic machinery and in the production of other biotechnological products.
References
Coenye T, Vandamme P (2003) Diversity and significance of Burkholderia species occupying diverse ecological niches. Environ Microbiol 5(9):719–729. https://doi.org/10.1046/j.1462-2920.2003.00471.x
Vanlaere E, Baldwin A, Gevers D, Henry D, de Brandt E, LiPuma JJ, Mahenthiralingam E, Speert DP, Dowson C, Vandamme P (2009) Taxon K, a complex within the Burkholderia cepacia complex, comprises at least two novel species, Burkholderia contaminans sp. nov. and Burkholderia lata sp. nov. Int J Syst Evol Microbiol 59(1):102–111. https://doi.org/10.1099/ijs.0.001123-0
Deng P, Wang X, Baird SM, Showmaker KC, Smith L, Peterson DG, Lu S (2016) Comparative genome-wide analysis reveals that Burkholderia contaminans MS14 possesses multiple antimicrobial biosynthesis genes but not major genetic loci required for pathogenesis. Microbiologyopen. 5(3):353–369. https://doi.org/10.1002/mbo3.333
Vandamme P, Dawyndt P (2011) Classification and identification of the Burkholderia cepacia complex: past, present and future. Syst Appl Microbiol 34(2):87–95. https://doi.org/10.1016/j.syapm.2010.10.002
Parke JL, Gurian-sherman D (2001) Diversity of the Burkholderia cepacia complex and implications for risk assessment of biological control strains. Environ Prot 84(5):1229–1236. https://doi.org/10.1111/j.1540-6296.2010.01192.x
Wattanaphon HT, Kerdsin A, Thammacharoen C, Sangvanich P, Vangnai AS (2008) A biosurfactant from Burkholderia cenocepacia BSP3 and its enhancement of pesticide solubilization. J Appl Microbiol 105(2):416–423. https://doi.org/10.1111/j.1365-2672.2008.03755.x
Villalobos MC, Goncalves AG, Noseda MN, Mitchell DA, Krieger N (2018) A novel enzymatic method for the synthesis of methyl 6-O-acetyl-α-D-glucopyranoside using a fermented solid containing lipases produced by Burkholderia contaminans LTEB11. Process Biochem 73:86–93. https://doi.org/10.1016/j.procbio.2018.07.023
Fernandes MLM, Saad EB, Meira JA, Ramos LP, Mitchell DA, Krieger N (2007) Esterification and transesterification reactions catalysed by addition of fermented solids to organic reaction media. J Mol Catal B Enzym 44(1):8–13. https://doi.org/10.1016/j.molcatb.2006.08.004
Salum TFC, Baron AM, Zago E, Turra V, Baratti J, Mitchell DA, Krieger N (2008) An efficient system for catalyzing ester synthesis using a lipase from a newly isolated Burkholderia cepacia strain. Biocatal Biotransformation 26(3):197–203. https://doi.org/10.1080/10242420701568674
Baron AM, Barouh N, Barea B, Villeneuve P, Mitchell DA, Krieger N (2014) Transesterification of castor oil in a solvent-free medium using the lipase from Burkholderia cepacia LTEB11 immobilized on a hydrophobic support. Fuel. 117, Part(A:458–462. https://doi.org/10.1016/j.fuel.2013.09.065
Salum TFC, Villeneuve P, Barea B, Yamamoto CI, Côcco LC, Mitchell DA, Krieger N (2010) Synthesis of biodiesel in column fixed-bed bioreactor using the fermented solid produced by Burkholderia cepacia LTEB11. Process Biochem 45(8):1348–1354. https://doi.org/10.1016/j.procbio.2010.05.004
Soares D, Pinto AF, Gonçalves AG, Mitchell DA, Krieger N (2013) Biodiesel production from soybean soapstock acid oil by hydrolysis in subcritical water followed by lipase-catalyzed esterification using a fermented solid in a packed-bed reactor. Biochem Eng J 81:15–23. https://doi.org/10.1016/j.bej.2013.09.017
Moure VR, Fabrício C, Frensch G, Marques FA, Mitchell DA, Krieger N (2014) Enhancing the enantioselectivity of the lipase from Burkholderia cepacia LTEB11 towards the resolution of secondary allylic alcohols. Biocatal Agric Biotechnol 3(2):146–153. https://doi.org/10.1016/j.bcab.2013.09.011
Alnoch RC, Stefanello AA, Paula Martini V, Richter JL, Mateo C, Souza EM, Mitchell DA, Muller-Santos M, Krieger N (2018) Co-expression, purification and characterization of the lipase and foldase of Burkholderia contaminans LTEB11. Int J Biol Macromol 116:1222–1231. https://doi.org/10.1016/j.ijbiomac.2018.05.086
Sambrook J, Maniatis T, Fritsch EF (1989) Cold Spring Harbor Cold Spring Harbor Laboratory Press NY. Molecular cloning: a laboratory manual. In: 2ed
Gnerre S, Maccallum I, Przybylski D et al (2011) High-quality draft assemblies of mammalian genomes from massively parallel sequence data. Proc Natl Acad Sci U S A 108(4):1513–1518. https://doi.org/10.1073/pnas.1017351108
Zerbino DR, Birney E (2008) Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res 18(5):821–829. https://doi.org/10.1101/gr.074492.107
Zimin AV, Marçais G, Puiu D, Roberts M, Salzberg SL, Yorke JA (2013) The MaSuRCA genome assembler. Bioinformatics. 29(21):2669–2677. https://doi.org/10.1093/bioinformatics/btt476
Guizelini D, Raittz RT, Cruz LM, Souza EM, Steffens MBR, Pedrosa FO (2016) GFinisher: a new strategy to refine and finish bacterial genome assemblies. Sci Rep 6(October):34963. https://doi.org/10.1038/srep34963
Richter M, Rossello-Mora R (2009) Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci 106(45):19126–19131. https://doi.org/10.1073/pnas.0906412106
Alikhan NF, Petty NK, Ben Zakour NL, Beatson SA (2011) BLAST Ring Image Generator (BRIG): simple prokaryote genome comparisons. BMC Genomics 12. https://doi.org/10.1186/1471-2164-12-402
Aziz RK, Bartels D, Best AA, DeJongh M, Disz T, Edwards RA, Formsma K, Gerdes S, Glass EM, Kubal M, Meyer F, Olsen GJ, Olson R, Osterman AL, Overbeek RA, McNeil LK, Paarmann D, Paczian T, Parrello B, Pusch GD, Reich C, Stevens R, Vassieva O, Vonstein V, Wilke A, Zagnitko O (2008) The RAST server: rapid annotations using subsystems technology. BMC Genomics 9:75. https://doi.org/10.1186/1471-2164-9-75
Tamura K, Stecher G, Peterson D, Filipski A, Kumar S (2013) MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30(12):2725–2729. https://doi.org/10.1093/molbev/mst197
Ussery DW, Kiil K, Lagesen K, Sicheritz-Ponten T, Bohlin J, Wassenaar TM (2009) The genus Burkholderia: analysis of 56 genomic sequences. Genome Dyn 6:140–157. https://doi.org/10.1159/000235768
Rosenau F, Tommassen J, Jaeger KE (2004) Lipase-specific foldases. ChemBioChem. 5(2):152–161. https://doi.org/10.1002/cbic.200300761
Urtuvia V, Villegas P, González M, Seeger M (2014) Bacterial production of the biodegradable plastics polyhydroxyalkanoates. Int J Biol Macromol 70:208–213. https://doi.org/10.1016/j.ijbiomac.2014.06.001
Reddy CSK, Ghai R, Rashmi KVC (2003) Polyhydroxyalkanoates: an overview. Bioresour Technol 87(2):137–146. https://doi.org/10.1016/S0960-8524(02)00212-2
Matias F, Brandt CA, da Silva ES, de Andrade Rodrigues MF (2017) Polyhydroxybutyrate and polyhydroxydodecanoate produced by Burkholderia contaminans IPT553. J Appl Microbiol 123(1):124–133. https://doi.org/10.1111/jam.13469
Rahim R, Ochsner UA, Olvera C, Graninger M, Messner P, Lam JS, Soberón-Chávez G (2001) Cloning and functional characterization of the Pseudomonas aeruginosa rhlC gene that encodes rhamnosyltransferase 2, an enzyme responsible for di-rhamnolipid biosynthesis. Mol Microbiol 40(3):708–718. https://doi.org/10.1046/j.1365-2958.2001.02420.x
Acknowledgments
We thank Roseli Prado and Valter A. de Baura for technical support.
Funding
This genome sequencing project was supported by the Brazilian Program of National Institutes of Science and Technology-INCT and the Brazilian Research Council-CNPq/MCT. Research scholarships were granted to Nadia Krieger, David Mitchell, Fábio Pedrosa, Guilherme Sassaki, and Emanuel Souza by CNPq. Robson Alnoch was granted a PhD scholarship by CAPES (Coordenação de Aperfeiçoamento de Pessoal de Nível Superior).
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Alnoch, R.C., Cardoso, R.L.A., Guizelini, D. et al. Genome sequencing of Burkholderia contaminans LTEB11 reveals a lipolytic arsenal of biotechnological interest. Braz J Microbiol 50, 619–624 (2019). https://doi.org/10.1007/s42770-019-00076-4
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DOI: https://doi.org/10.1007/s42770-019-00076-4