Specialized activities and expression differences for Clostridium thermocellum biofilm and planktonic cells

Dumitrache, Alexandru; Klingeman, Dawn M.; Natzke, Jace; Rodriguez Jr, Miguel; Giannone, Richard J.; Hettich, Robert L.; Davison, Brian H.; Brown, Steven D.

doi:10.1038/srep43583

Title: Specialized activities and expression differences for Clostridium thermocellum biofilm and planktonic cells

Journal Article · 26 February 2017 · Scientific Reports

DOI: https://doi.org/10.1038/srep43583 · OSTI ID:1361314

Dumitrache, Alexandru ^[1]; Klingeman, Dawn M. ^[1]; Natzke, Jace ^[1]; Rodriguez Jr, Miguel ^[1]; Giannone, Richard J. ^[2]; Hettich, Robert L. ^[2]; Davison, Brian H. ^[1]; Brown, Steven D. ^[1]

Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States). BioEnergy Science Center (BESC) and Biosciences Division
Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States). BioEnergy Science Center (BESC) and Chemical Sciences Division

Clostridium thermocellum forms biofilms adherent to lignocellulosic feedstock in a typical continuous cell-monolayer to efficiently break down and uptake cellulose hydrolysates. The sessile cells of biofilms may revert to non-adherent planktonic cells through generation of offspring cells or microenvironment constraints such as limited surface area. These interdependent cell populations co-exist and have different contributions to culture activity and growth. Here, we developed a novel bioreactor design to rapidly harvest sessile and planktonic cell populations for omics studies. In RNA-seq analyses, within 3299 protein coding genes, 59% (or 1958 genes) were differentially expressed with a minimum two-fold change between the two cell populations isolated simultaneously at high culture activity. Furthermore, sessile cells had definitive greater expression of genes involved in catabolism of carbohydrates by glycolysis and pyruvate fermentation, ATP generation by proton gradient, the anabolism of proteins and lipids and cellular functions critical for cell division; planktonic cells had notably higher gene expression for flagellar motility and chemotaxis, cellulosomal cellulases and anchoring scaffoldins, and a range of stress induced homeostasis mechanisms such as oxidative stress protection by antioxidants and flavoprotein co-factors, methionine repair, Fe-S cluster assembly and repair in redox proteins, cell growth control through tRNA thiolation, recovery of damaged DNA by nucleotide excision repair and removal of terminal proteins by proteases. Our knowledge of these cellular adaptations will aid the engineering of industrially relevant strains for consolidated bioprocessing of solid lignocellulosic biomass

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Research Organization:: Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States). BioEnergy Science Center (BESC)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23)

Grant/Contract Number:: AC05-00OR22725

OSTI ID:: 1361314

Journal Information:: Scientific Reports, Journal Name: Scientific Reports Vol. 7; ISSN 2045-2322

Publisher:: Nature Publishing GroupCopyright Statement

Country of Publication:: United States

Language:: English

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High Ethanol Titers from Cellulose by Using Metabolically Engineered Thermophilic, Anaerobic Microbes Argyros, D. Aaron; Tripathi, Shital A.; Barrett, Trisha F. Applied and Environmental Microbiology, Vol. 77, Issue 23, p. 8288-8294 https://doi.org/10.1128/AEM.00646-11	journal	September 2011

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Cellulosomes localise on the surface of membrane vesicles from the cellulolytic bacterium Clostridium thermocellum Ichikawa, Shunsuke; Ogawa, Satoru; Nishida, Ayami FEMS Microbiology Letters, Vol. 366, Issue 12 https://doi.org/10.1093/femsle/fnz145	journal	June 2019
Anaerobic microplate assay for direct microbial conversion of switchgrass and Avicel using Clostridium thermocellum Oguntimein, Gbekeloluwa B.; Rodriguez, Miguel; Dumitrache, Alexandru Biotechnology Letters, Vol. 40, Issue 2 https://doi.org/10.1007/s10529-017-2467-2	journal	November 2017
A global analysis of gene expression in Fibrobacter succinogenes S85 grown on cellulose and soluble sugars at different growth rates Neumann, Anthony P.; Weimer, Paul J.; Suen, Garret Biotechnology for Biofuels, Vol. 11, Issue 1 https://doi.org/10.1186/s13068-018-1290-x	journal	October 2018

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