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Archives of Microbiology

, Volume 200, Issue 8, pp 1267–1278 | Cite as

Functional characterization of ligninolytic Klebsiella spp. strains associated with soil and freshwater

  • Amanda O. dos S. Melo-Nascimento
  • Claudia Treumann
  • Camila Neves
  • Edmilson Andrade
  • Ana Camila Andrade
  • Robert Edwards
  • Elizabeth Dinsdale
  • Thiago Bruce
Short Communication

Abstract

Overcoming recalcitrance of lignin has motivated bioprospecting of high-yielding enzymes from environmental ligninolytic microorganisms associated with lignocellulose degrading-systems. Here, we performed isolation of 21 ligninolytic strains belonging to the genus Klebsiella spp., driven by the presence of lignin in the media. The fastest-growing strains (FP10-5.23, FP10-5.22 and P3TM1) reached the stationary phase in approximately 24 h, in the media containing lignin as the main carbon source. The strains showed biochemical evidence of ligninolytic potential in liquid- and solid media-converting dyes, which the molecular structures are similar to lignin fragments. In liquid medium, higher levels of dye decolorization was observed for P3TM.1 in the presence of methylene blue, reaching 98% decolorization in 48 h. The highest index values (1.25) were found for isolates P3TM.1 and FP10-5.23, in the presence of toluidine blue. The genomic analysis revealed the presence of more than 20 genes associated with known prokaryotic lignin-degrading systems. Identification of peroxidases (lignin peroxidase—LiP, dye-decolorizing peroxidase—DyP, manganese peroxidase—MnP) and auxiliary activities (AA2, AA3, AA6 and AA10 families) among the genetic repertoire suggest the ability to produce extracellular enzymes able to attack phenolic and non-phenolic lignin structures. Our results suggest that the Klebsiella spp. associated with fresh water and soil may play important role in the cycling of recalcitrant molecules in the Caatinga (desert-like Brazilian biome), and represent a potential source of lignin-degrading enzymes with biotechnological applications.

Keywords

Lignocellulosic biomass Lignin Klebsiella Biodegradation Bioprospecting Lignin-degrading enzymes 

Notes

Acknowledgements

This work was supported by the Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq) (475088/2012-3-APQ). Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES) (No. 23038.009420/2012-71), Fundação de Amparo à Pesquisa do Estado da Bahia (FAPESB) (JCB0064/2013) and National Science Foundation (13330800).

Compliance with ethical standards

Conflict of interest

No conflict of interest declared.

Supplementary material

203_2018_1532_MOESM1_ESM.png (29 kb)
Supplementary Table 1: Similarity between 16S rRNA gene sequences of Klebsiella isolates relative to the nearest phylogenetic neighbors. Strains isolated from soil samples have names beginning with the letter “P”, and strains isolated from freshwater samples have names beginning with the letter “F” (PNG 28 KB)
203_2018_1532_MOESM2_ESM.png (42 kb)
Supplementary Figure S1: Growth curve of isolates FP10-5.22 (Klebsiella variicola), FP10-5.23 (K. oxytoca), and P3TM.1 (K. variicola) in medium containing lignin as the sole carbon source (PNG 42 KB)
203_2018_1532_MOESM3_ESM.png (581 kb)
Supplementary Table 2: Functions associated with lignin degradation found in the Klebsiella spp. genomes, based on RAST annotation (PNG 580 KB)
203_2018_1532_MOESM4_ESM.jpg (3.5 mb)
Supplementary Figure S2: Catalase test for FP10-5.22 (Klebsiella variicola), FP10-5.23 (K. oxytoca), and P3TM.1 (K. variicola). B represents the blank, without presence of microbial culture (JPG 3567 KB)

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Copyright information

© Springer-Verlag GmbH Germany, part of Springer Nature 2018

Authors and Affiliations

  • Amanda O. dos S. Melo-Nascimento
    • 1
  • Claudia Treumann
    • 1
  • Camila Neves
    • 1
  • Edmilson Andrade
    • 1
  • Ana Camila Andrade
    • 2
  • Robert Edwards
    • 3
  • Elizabeth Dinsdale
    • 4
  • Thiago Bruce
    • 1
    • 2
    • 4
  1. 1.Department of Bioenergy, Faculdade de Tecnologia e CiênciasLaboratory of Environmental BiotechnologySalvadorBrazil
  2. 2.Department of MicrobiologyUniversidade Federal da BahiaSalvadorBrazil
  3. 3.Computer Sciences, Laboratory of BioinformaticsSan Diego State UniversitySan DiegoUSA
  4. 4.Laboratory of Microbial EcologySan Diego State UniversitySan DiegoUSA

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