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Cell wall proteome of sugarcane stems: comparison of a destructive and a non-destructive extraction method showed differences in glycoside hydrolases and peroxidases

Authors
  • Calderan-Rodrigues, Maria Juliana1
  • Jamet, Elisabeth2, 3
  • Douché, Thibaut2, 3
  • Bonassi, Maria Beatriz Rodrigues1
  • Cataldi, Thaís Regiani1
  • Fonseca, Juliana Guimarães1
  • San Clemente, Hélène2, 3
  • Pont-Lezica, Rafael2, 3
  • Labate, Carlos Alberto1
  • 1 Universidade de São Paulo, Departamento de Genética, Laboratório Max Feffer de Genética de Plantas, Escola Superior de Agricultura “Luiz de Queiroz”, Av. Pádua Dias 11, CP 83, Piracicaba, SP, 13400-970, Brazil , Piracicaba (Brazil)
  • 2 Université de Toulouse; UPS; UMR 5546, Laboratoire de Recherche en Sciences Végétales, Castanet-Tolosan, F-31326, France , Castanet-Tolosan (France)
  • 3 CNRS; UMR 5546, Castanet-Tolosan, F-31326, France , Castanet-Tolosan (France)
Type
Published Article
Journal
BMC Plant Biology
Publisher
Springer (Biomed Central Ltd.)
Publication Date
Jan 11, 2016
Volume
16
Issue
1
Identifiers
DOI: 10.1186/s12870-015-0677-0
Source
Springer Nature
Keywords
License
Green

Abstract

BackgroundSugarcane has been used as the main crop for ethanol production for more than 40 years in Brazil. Recently, the production of bioethanol from bagasse and straw, also called second generation (2G) ethanol, became a reality with the first commercial plants started in the USA and Brazil. However, the industrial processes still need to be improved to generate a low cost fuel. One possibility is the remodeling of cell walls, by means of genetic improvement or transgenesis, in order to make the bagasse more accessible to hydrolytic enzymes. We aimed at characterizing the cell wall proteome of young sugarcane culms, to identify proteins involved in cell wall biogenesis. Proteins were extracted from the cell walls of 2-month-old culms using two protocols, non-destructive by vacuum infiltration vs destructive. The proteins were identified by mass spectrometry and bioinformatics.ResultsA predicted signal peptide was found in 84 different proteins, called cell wall proteins (CWPs). As expected, the non-destructive method showed a lower percentage of proteins predicted to be intracellular than the destructive one (33 % vs 44 %). About 19 % of CWPs were identified with both methods, whilst the infiltration protocol could lead to the identification of 75 % more CWPs. In both cases, the most populated protein functional classes were those of proteins related to lipid metabolism and oxido-reductases. Curiously, a single glycoside hydrolase (GH) was identified using the non-destructive method whereas 10 GHs were found with the destructive one. Quantitative data analysis allowed the identification of the most abundant proteins.ConclusionsThe results highlighted the importance of using different protocols to extract proteins from cell walls to expand the coverage of the cell wall proteome. Ten GHs were indicated as possible targets for further studies in order to obtain cell walls less recalcitrant to deconstruction. Therefore, this work contributed to two goals: enlarge the coverage of the sugarcane cell wall proteome, and provide target proteins that could be used in future research to facilitate 2G ethanol production.

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