Skip to main content
U.S. Department of Energy
Office of Scientific and Technical Information

Thermophilic microbial deconstruction and conversion of natural and transgenic lignocellulose

Journal Article · · Environmental Microbiology Reports
 [1];  [2];  [2];  [3];  [1]
  1. Department of Chemical and Biomolecular Engineering North Carolina State University Raleigh NC 27695 USA
  2. Department of Forestry and Environmental Resources North Carolina State University Raleigh NC 27695 USA
  3. Department of Biochemistry and Molecular Biology University of Georgia Athens GA 30602 USA
Summary

The potential to convert renewable plant biomasses into fuels and chemicals by microbial processes presents an attractive, less environmentally intense alternative to conventional routes based on fossil fuels. This would best be done with microbes that natively deconstruct lignocellulose and concomitantly form industrially relevant products, but these two physiological and metabolic features are rarely and simultaneously observed in nature. Genetic modification of both plant feedstocks and microbes can be used to increase lignocellulose deconstruction capability and generate industrially relevant products. Separate efforts on plants and microbes are ongoing, but these studies lack a focus on optimal, complementary combinations of these disparate biological systems to obtain a convergent technology. Improving genetic tools for plants have given rise to the generation of low‐lignin lines that are more readily solubilized by microorganisms. Most focus on the microbiological front has involved thermophilic bacteria from the genera Caldicellulosiruptor and Clostridium , given their capacity to degrade lignocellulose and to form bio‐products through metabolic engineering strategies enabled by ever‐improving molecular genetics tools. Bioengineering plant properties to better fit the deconstruction capabilities of candidate consolidated bioprocessing microorganisms has potential to achieve the efficient lignocellulose deconstruction needed for industrial relevance.

Sponsoring Organization:
USDOE
Grant/Contract Number:
SC0019391
OSTI ID:
1784353
Alternate ID(s):
OSTI ID: 1853181
Journal Information:
Environmental Microbiology Reports, Journal Name: Environmental Microbiology Reports Journal Issue: 3 Vol. 13; ISSN 1758-2229
Publisher:
Wiley-BlackwellCopyright Statement
Country of Publication:
United States
Language:
English

References (166)

Lignocellulose conversion: an introduction to chemistry, process and economics journal January 2007
Ethanol production from cellulosic materials using cellulase-expressing yeast journal March 2010
Engineering cellulolytic bacterium Clostridium thermocellum to co-ferment cellulose- and hemicellulose-derived sugars simultaneously journal April 2018
Parsing in vivo and in vitro contributions to microcrystalline cellulose hydrolysis by multidomain glycoside hydrolases in the Caldicellulosiruptor bescii secretome journal July 2018
Lignocellulose solubilization and conversion by extremely thermophilic Caldicellulosiruptor bescii improves by maintaining metabolic activity journal May 2019
Metabolically engineered Caldicellulosiruptor bescii as a platform for producing acetone and hydrogen from lignocellulose journal August 2020
Improved Sugar Release from Lignocellulosic Material by Introducing a Tyrosine-rich Cell Wall Peptide Gene in Poplar journal August 2008
Sustainability of the four generations of biofuels – A review journal June 2020
Cell wall fermentation kinetics are impacted more by lignin content and ferulate cross-linking than by lignin composition journal January 2009
Functional subgenomics ofClostridium thermocellum cellulosomal genes: Identification of the major catalytic components in the extracellular complex and detection of three new enzymes journal September 2005
From cellulosomes to cellulosomics journal January 2008
Weedy lignocellulosic feedstock and microbial metabolic engineering: advancing the generation of ‘Biofuel’ journal December 2010
Solid-state fermentation of wheat bran by Trichoderma reesei QM9414: substrate composition changes, C balance, enzyme production, growth and kinetics journal December 1996
PtrMYB57 contributes to the negative regulation of anthocyanin and proanthocyanidin biosynthesis in poplar journal May 2017
Tissue and cell-type co-expression networks of transcription factors and wood component genes in Populus trichocarpa journal January 2017
Native xylose-inducible promoter expands the genetic tools for the biomass-degrading, extremely thermophilic bacterium Caldicellulosiruptor bescii journal May 2018
The biology and biotechnology of the genus Caldicellulosiruptor: recent developments in ‘Caldi World’ journal July 2019
Wood characteristics and enzymatic saccharification efficiency of field-grown transgenic black cottonwood with altered lignin content and structure journal January 2015
Characterization and enzymatic hydrolysis of wood from transgenic Pinus taeda engineered with syringyl lignin or reduced lignin content journal February 2017
PagMYB216 is involved in the regulation of cellulose synthesis in Populus journal April 2019
Establishment of Miscanthus sinensis with decreased lignin biosynthesis by Agrobacterium–mediated transformation using antisense COMT gene journal February 2018
Review on Catalytic Cleavage of C–C Inter-unit Linkages in Lignin Model Compounds: Towards Lignin Depolymerisation journal March 2018
The Cellulase-Mediated Saccharification on Wood Derived from Transgenic Low-Lignin Lines of Black Cottonwood (Populus trichocarpa) journal August 2012
Improving Saccharification Efficiency of Alfalfa Stems Through Modification of the Terminal Stages of Monolignol Biosynthesis journal September 2008
Downregulation of Cinnamyl Alcohol Dehydrogenase (CAD) Leads to Improved Saccharification Efficiency in Switchgrass journal January 2011
Pretreatment and Lignocellulosic Chemistry journal May 2012
Dedicated Energy Crops and Crop Residues for Bioenergy Feedstocks in the Central and Eastern USA journal June 2016
Production of butanol (a biofuel) from agricultural residues: Part II – Use of corn stover and switchgrass hydrolysates☆ journal April 2010
The elucidation of the lignin structure effect on the cellulase-mediated saccharification by genetic engineering poplars (Populus nigra L. × Populus maximowiczii A.) journal November 2013
Fermentation with continuous ball milling: Effectiveness at enhancing solubilization for several cellulosic feedstocks and comparative tolerance of several microorganisms journal March 2020
Degradation of high loads of crystalline cellulose and of unpretreated plant biomass by the thermophilic bacterium Caldicellulosiruptor bescii journal January 2014
Feasibilities of consolidated bioprocessing microbes: From pretreatment to biofuel production journal June 2014
State of the art review of biofuels production from lignocellulose by thermophilic bacteria journal December 2017
One-step utilization of non-detoxified pretreated lignocellulose for enhanced cellulolytic enzyme production using recombinant Trichoderma reesei RUT C30 carrying alcohol dehydrogenase and nicotinate phosphoribosyltransferase journal August 2020
Consolidated bio-saccharification: Leading lignocellulose bioconversion into the real world journal May 2020
Current status and perspectives on biobutanol production using lignocellulosic feedstocks journal September 2019
Exploitation of carbohydrate processing enzymes in biocatalysis journal April 2020
Consolidated bioprocessing of cellulosic biomass: an update journal October 2005
Recent progress in consolidated bioprocessing journal June 2012
Flux modeling for monolignol biosynthesis journal April 2019
Linking phenylpropanoid metabolism, lignin deposition, and plant growth inhibition journal April 2019
Structural features and regulation of lignin deposited upon biotic and abiotic stresses journal April 2019
Production of carbohydrate enrich microalgal biomass as a bioenergy feedstock journal December 2019
Clostridium cellulolyticum : model organism of mesophilic cellulolytic clostridia journal September 2005
Hydrogels derived from lignocellulosic compounds: Evaluation of the compositional, structural, mechanical and antimicrobial properties journal February 2019
The role of pretreatment in the catalytic valorization of cellulose journal May 2020
Engineering redox-balanced ethanol production in the cellulolytic and extremely thermophilic bacterium, Caldicellulosiruptor bescii journal December 2018
Choosing the Right Tool for the Job: RNAi, TALEN, or CRISPR journal May 2015
Advances in modifying lignin for enhanced biofuel production journal June 2010
Key issues in modeling and optimization of lignocellulosic biomass fermentative conversion to gaseous biofuels journal December 2018
Potentials and challenges in lignocellulosic biofuel production technology journal September 2019
What is (and is not) vital to advancing cellulosic ethanol journal April 2007
Harnessing CRISPR–Cas systems for bacterial genome editing journal April 2015
Transgenic Poplar Designed for Biofuels journal September 2020
Urease expression in a Thermoanaerobacterium saccharolyticum ethanologen allows high titer ethanol production journal September 2012
Elimination of metabolic pathways to all traditional fermentation products increases ethanol yields in Clostridium thermocellum journal November 2015
Enhanced solvent production by metabolic engineering of a twin-clostridial consortium journal January 2017
Engineered Pseudomonas putida simultaneously catabolizes five major components of corn stover lignocellulose: Glucose, xylose, arabinose, p-coumaric acid, and acetic acid journal November 2020
Genetic Modification of Biomass to Alter Lignin Content and Structure journal May 2019
100th Anniversary of Macromolecular Science Viewpoint: Polymers from Lignocellulosic Biomass. Current Challenges and Future Opportunities journal March 2020
Significance of Lignin S/G Ratio in Biomass Recalcitrance of Populus trichocarpa Variants for Bioethanol Production journal December 2017
CRISPR-Cas systems for editing, regulating and targeting genomes journal March 2014
Lignin modification improves fermentable sugar yields for biofuel production journal June 2007
Genome sequencing and analysis of the biomass-degrading fungus Trichoderma reesei (syn. Hypocrea jecorina) journal May 2008
Identification and characterization of a multidomain hyperthermophilic cellulase from an archaeal enrichment journal July 2011
Improving wood properties for wood utilization through multi-omics integration in lignin biosynthesis journal April 2018
Quantitative fermentation of unpretreated transgenic poplar by Caldicellulosiruptor bescii journal August 2019
Development of a thermophilic coculture for corn fiber conversion to ethanol journal April 2020
The Multi Domain Caldicellulosiruptor bescii CelA Cellulase Excels at the Hydrolysis of Crystalline Cellulose journal August 2017
A collection of genetically engineered Populus trees reveals wood biomass traits that predict glucose yield from enzymatic hydrolysis journal November 2017
Efficient CRISPR/Cas9-mediated Targeted Mutagenesis in Populus in the First Generation journal July 2015
PtoMYB156 is involved in negative regulation of phenylpropanoid metabolism and secondary cell wall biosynthesis during wood formation in poplar journal January 2017
Lignocellulose fermentation and residual solids characterization for senescent switchgrass fermentation by Clostridium thermocellum in the presence and absence of continuous in situ ball-milling journal January 2017
The role of biofuels in the future energy supply journal January 2013
Metabolic engineering of a thermophilic bacterium to produce ethanol at high yield journal September 2008
Lignin content in natural Populus variants affects sugar release journal March 2011
Genetic manipulation of lignin reduces recalcitrance and improves ethanol production from switchgrass journal February 2011
Improved saccharification and ethanol yield from field-grown transgenic poplar deficient in cinnamoyl-CoA reductase journal December 2013
Direct conversion of plant biomass to ethanol by engineered Caldicellulosiruptor bescii journal June 2014
The biomass distribution on Earth journal May 2018
Biochemical and Structural Insights into Xylan Utilization by the Thermophilic Bacterium Caldanaerobius polysaccharolyticus journal August 2012
Multidomain, Surface Layer-associated Glycoside Hydrolases Contribute to Plant Polysaccharide Degradation by Caldicellulosiruptor Species journal January 2016
CRISPRing into the woods journal September 2015
Altered Lignin Biosynthesis Improves Cellulosic Bioethanol Production in Transgenic Maize Plants Down-Regulated for Cinnamyl Alcohol Dehydrogenase journal July 2012
The Phylogeny of the Genus Clostridium: Proposal of Five New Genera and Eleven New Species Combinations journal October 1994
Characterization of two novel saccharolytic, anaerobic thermophiles, Thermoanaerobacterium polysaccharolyticum sp. nov. and Thermoanaerobacterium zeae sp. nov., and emendation of the genus Thermoanaerobacterium. journal March 2001
Gene transfer to Clostridium cellulolyticum ATCC 35319 journal December 2000
Clostridium clariflavum sp. nov. and Clostridium caenicola sp. nov., moderately thermophilic, cellulose-/cellobiose-digesting bacteria isolated from methanogenic sludge journal June 2009
Classification of 'Anaerocellum thermophilum' strain DSM 6725 as Caldicellulosiruptor bescii sp. nov. journal October 2009
Petroclostridium xylanilyticum gen. nov., sp. nov., a xylan-degrading bacterium isolated from an oilfield, and reclassification of clostridial cluster III members into four novel genera in a new Hungateiclostridiaceae fam. nov. journal October 2018
The names Hungateiclostridium Zhang et al. 2018, Hungateiclostridium thermocellum (Viljoen et al. 1926) Zhang et al. 2018, Hungateiclostridium cellulolyticum (Patel et al. 1980) Zhang et al. 2018, Hungateiclostridium aldrichii (Yang et al. 1990) Zhang et al. 2018, Hungateiclostridium alkalicellulosi (Zhilina et al. 2006) Zhang et al. 2018, Hungateiclostridium clariflavum (Shiratori et al. 2009) Zhang et al. 2018, Hungateiclostridium straminisolvens (Kato et al. 2004) Zhang et al. 2018 and Hungateiclostridium saccincola (Koeck et al. 2016) Zhang et al. 2018 contravene Rule 51b of the International Code of Nomenclature of Prokaryotes and require replacement names in the genus Acetivibrio Patel et al. 1980 journal December 2019
The effect of specific growth rate on protein synthesis and secretion in the filamentous fungus Trichoderma reesei journal January 2005
Suppression of 4-Coumarate-CoA Ligase in the Coniferous Gymnosperm Pinus radiata journal October 2008
The Effects on Lignin Structure of Overexpression of Ferulate 5-Hydroxylase in Hybrid Poplar 1 journal April 2009
Different Routes for Conifer- and Sinapaldehyde and Higher Saccharification upon Deficiency in the Dehydrogenase CAD1 journal September 2017
Vessel-Specific Reintroduction of CINNAMOYL-COA REDUCTASE1 (CCR1) in Dwarfed ccr1 Mutants Restores Vessel and Xylary Fiber Integrity and Increases Biomass journal November 2017
Complete Proteomic-Based Enzyme Reaction and Inhibition Kinetics Reveal How Monolignol Biosynthetic Enzyme Families Affect Metabolic Flux and Lignin in Populus trichocarpa journal March 2014
Thermophilic lignocellulose deconstruction journal May 2014
Breeding progress and preparedness for mass-scale deployment of perennial lignocellulosic biomass crops switchgrass, miscanthus, willow and poplar journal October 2018
Cellulosomes: microbial nanomachines that display plasticity in quaternary structure: Cohesin dockerin recognition journal March 2007
Designed for deconstruction - poplar trees altered in cell wall lignification improve the efficacy of bioethanol production journal January 2012
Transformation of Thermoanaerobacterium sp. strain JW/SL-YS485 with plasmid pIKM1 conferring kanamycin resistance journal March 1997
Breeding with rare defective alleles (BRDA): a natural Populus nigra HCT mutant with modified lignin as a case study journal February 2013
Exploiting SNPs for biallelic CRISPR mutations in the outcrossing woody perennial Populus reveals 4-coumarate:CoA ligase specificity and redundancy journal May 2015
Two-year field analysis of reduced recalcitrance transgenic switchgrass journal April 2014
Plant biotechnology for lignocellulosic biofuel production journal October 2014
Simultaneous regulation of F5H in COMT ‐ RNA i transgenic switchgrass alters effects of COMT suppression on syringyl lignin biosynthesis journal October 2018
Disrupting the cinnamyl alcohol dehydrogenase 1 gene ( BdCAD1 ) leads to altered lignification and improved saccharification in Brachypodium distachyon journal December 2012
An importin‐beta‐like protein mediates lignin‐modification‐induced dwarfism in Arabidopsis journal February 2020
Revealing Nature's Cellulase Diversity The Digestion Mechanism of Caldicellulosiruptor bescii CelA journal December 2013
Monolignol Ferulate Transferase Introduces Chemically Labile Linkages into the Lignin Backbone journal April 2014
Abnormal Lignin in a Loblolly Pine Mutant journal July 1997
Natural Competence in Thermoanaerobacter and Thermoanaerobacterium Species journal May 2010
A Highly Thermostable Kanamycin Resistance Marker Expands the Tool Kit for Genetic Manipulation of Caldicellulosiruptor bescii journal May 2016
High Ethanol Titers from Cellulose by Using Metabolically Engineered Thermophilic, Anaerobic Microbes journal September 2011
Bioavailability of Carbohydrate Content in Natural and Transgenic Switchgrasses for the Extreme Thermophile Caldicellulosiruptor bescii journal June 2017
Profile of Secreted Hydrolases, Associated Proteins, and SlpA in Thermoanaerobacterium saccharolyticum during the Degradation of Hemicellulose journal June 2014
Development of pyrF-Based Genetic System for Targeted Gene Deletion in Clostridium thermocellum and Creation of a pta Mutant journal August 2010
Comparative Analysis of Extremely Thermophilic Caldicellulosiruptor Species Reveals Common and Unique Cellular Strategies for Plant Biomass Utilization journal August 2015
Marker Removal System for Thermoanaerobacterium saccharolyticum and Development of a Markerless Ethanologen journal February 2011
Functional Analysis of the Glucan Degradation Locus in Caldicellulosiruptor bescii Reveals Essential Roles of Component Glycoside Hydrolases in Plant Biomass Deconstruction journal October 2017
Thermophilic Degradation of Hemicellulose, a Critical Feedstock in the Production of Bioenergy and Other Value-Added Products journal January 2020
Improved n -Butanol Production from Clostridium cellulovorans by Integrated Metabolic and Evolutionary Engineering journal January 2019
Genus-Wide Assessment of Lignocellulose Utilization in the Extremely Thermophilic Genus Caldicellulosiruptor by Genomic, Pangenomic, and Metagenomic Analyses journal February 2018
Preparation of mutants of Trichoderma reesei with enhanced cellulase production. journal January 1977
Saccharification of Complex Cellulosic Substrates by the Cellulase System from Clostridium thermocellum journal January 1982
Isolation and Characterization of an Anaerobic, Cellulolytic Bacterium, Clostridium cellulovorans sp. nov journal January 1984
Characterization of Clostridium thermocellum JW20 journal January 1988
Improvement of Cellulolytic Properties of Clostridium cellulolyticum by Metabolic Engineering journal January 2002
Direct and Efficient Production of Ethanol from Cellulosic Material with a Yeast Strain Displaying Cellulolytic Enzymes journal October 2002
Electrotransformation of Clostridium thermocellum journal February 2004
Isolation and Characterization of a New Clostridium sp. That Performs Effective Cellulosic Waste Digestion in a Thermophilic Methanogenic Bioreactor journal May 2006
Caldicellulosiruptor Core and Pangenomes Reveal Determinants for Noncellulosomal Thermophilic Deconstruction of Plant Biomass journal May 2012
Studies on Anaerobic Bacteria journal January 1935
Cellulase, Clostridia, and Ethanol journal March 2005
Evaluation of the bioconversion of genetically modified switchgrass using simultaneous saccharification and fermentation and a consolidated bioprocessing approach journal January 2012
Cellulosomics of the cellulolytic thermophile Clostridium clariflavum journal January 2014
Functional genetics for all: engineered nucleases, CRISPR and the gene editing revolution journal January 2014
The effects of extracellular pH and of the transcriptional regulator PACI on the transcriptome of Trichoderma reesei journal April 2015
Comparative analysis of the ability of Clostridium clariflavum strains and Clostridium thermocellumto utilize hemicellulose and unpretreated plant material journal November 2014
The exometabolome of Clostridium thermocellum reveals overflow metabolism at high cellulose loading journal October 2014
Anaerobic detoxification of acetic acid in a thermophilic ethanologen journal May 2015
Down-regulation of p-coumaroyl quinate/shikimate 3′-hydroxylase (C3′H) and cinnamate 4-hydroxylase (C4H) genes in the lignin biosynthetic pathway of Eucalyptus urophylla × E. grandis leads to improved sugar release journal August 2015
Biological lignocellulose solubilization: comparative evaluation of biocatalysts and enhancement via cotreatment journal January 2016
Consolidated bioprocessing of Populus using Clostridium (Ruminiclostridium) thermocellum: a case study on the impact of lignin composition and structure journal February 2016
Simultaneous achievement of high ethanol yield and titer in Clostridium thermocellum journal June 2016
Strain and bioprocess improvement of a thermophilic anaerobe for the production of ethanol from wood journal June 2016
Defined tetra-allelic gene disruption of the 4-coumarate:coenzyme A ligase 1 (Pv4CL1) gene by CRISPR/Cas9 in switchgrass results in lignin reduction and improved sugar release journal November 2017
Biomass augmentation through thermochemical pretreatments greatly enhances digestion of switchgrass by Clostridium thermocellum journal August 2018
Multiple levers for overcoming the recalcitrance of lignocellulosic biomass journal January 2019
Metabolic engineering of Clostridium thermocellum for n-butanol production from cellulose journal July 2019
Use of the lignocellulose-degrading bacterium Caldicellulosiruptor bescii to assess recalcitrance and conversion of wild-type and transgenic poplar journal March 2020
Metabolic and evolutionary responses of Clostridium thermocellum to genetic interventions aimed at improving ethanol production journal March 2020
Modeling cross-regulatory influences on monolignol transcripts and proteins under single and combinatorial gene knockdowns in Populus trichocarpa journal April 2020
Methylation by a Unique α-class N4-Cytosine Methyltransferase Is Required for DNA Transformation of Caldicellulosiruptor bescii DSM6725 journal August 2012
Industrial Use of Cell Wall Degrading Enzymes: The Fine Line Between Production Strategy and Economic Feasibility journal April 2020
Evidence supporting dissimilatory and assimilatory lignin degradation in Enterobacter lignolyticus SCF1 journal January 2013
Exploring the Relationship Between Clostridium thermocellum JN4 and Thermoanaerobacterium thermosaccharolyticum GD17 journal September 2019
CRISPR/Cas9-Mediated Mutagenesis of Four Putative Symbiosis Genes of the Tropical Tree Parasponia andersonii Reveals Novel Phenotypes journal March 2018
Genome Editing in Trees: From Multiple Repair Pathways to Long-Term Stability journal November 2018
Xylan in the Middle: Understanding Xylan Biosynthesis and Its Metabolic Dependencies Toward Improving Wood Fiber for Industrial Processing journal February 2019
Lignin Engineering in Forest Trees journal July 2019
Transcriptional and Post-transcriptional Regulation of Lignin Biosynthesis Pathway Genes in Populus journal May 2020
Regulation of Lignin Biosynthesis by Post-translational Protein Modifications journal July 2020
Low-Input Crops as Lignocellulosic Feedstock for Second-Generation Biorefineries and the Potential of Chemometrics in Biomass Quality Control journal May 2019
Insights into Thermophilic Plant Biomass Hydrolysis from Caldicellulosiruptor Systems Biology journal March 2020

Similar Records

Metabolically engineered Caldicellulosiruptor bescii as a platform for producing acetone and hydrogen from lignocellulose
Journal Article · Sun Aug 23 20:00:00 EDT 2020 · Biotechnology and Bioengineering · OSTI ID:1786038

Systems Biology-Based Optimization of Extremely Thermophilic Lignocellulose Conversion to Bioproducts
Technical Report · Thu Oct 12 20:00:00 EDT 2023 · OSTI ID:2202361

Genus-wide assessment of lignocellulose utilization in the extremely thermophilic Caldicellulosiruptor by genomic, pan-genomic and metagenomic analysis
Journal Article · Thu Feb 22 19:00:00 EST 2018 · Applied and Environmental Microbiology · OSTI ID:1432145

Related Subjects