skip to main content
DOE PAGES title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: High Throughput Screening Technologies in Biomass Characterization

; ; ; ; ; ; ; ; ; ;
Publication Date:
Research Org.:
Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States). Oak Ridge Leadership Computing Facility (OLCF); National Renewable Energy Lab. (NREL), Golden, CO (United States)
Sponsoring Org.:
USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23); USDOE Office of Energy Efficiency and Renewable Energy (EERE), Bioenergy Technologies Office (EE-3B)
OSTI Identifier:
Alternate Identifier(s):
OSTI ID: 1493117; OSTI ID: 1558897
Report Number(s):
Journal ID: ISSN 2296-598X; 120
Grant/Contract Number:  
AC36-08GO28308; AC05-00OR22725; AC02-05CH11231
Resource Type:
Published Article
Journal Name:
Frontiers in Energy Research
Additional Journal Information:
Journal Name: Frontiers in Energy Research Journal Volume: 6; Journal ID: ISSN 2296-598X
Frontiers Research Foundation
Country of Publication:
09 BIOMASS FUELS; biomass recalcitrance, biomass compositional analysis, high throughput analysis, neural networks, biomass conversion; biomass recalcitrance; biomass compositional analysis; high throughput analysis; neural networks; biomass conversion

Citation Formats

Decker, Stephen R., Harman-Ware, Anne E., Happs, Renee M., Wolfrum, Edward J., Tuskan, Gerald A., Kainer, David, Oguntimein, Gbekeloluwa B., Rodriguez, Miguel, Weighill, Deborah, Jones, Piet, and Jacobson, Daniel. High Throughput Screening Technologies in Biomass Characterization. Switzerland: N. p., 2018. Web. doi:10.3389/fenrg.2018.00120.
Decker, Stephen R., Harman-Ware, Anne E., Happs, Renee M., Wolfrum, Edward J., Tuskan, Gerald A., Kainer, David, Oguntimein, Gbekeloluwa B., Rodriguez, Miguel, Weighill, Deborah, Jones, Piet, & Jacobson, Daniel. High Throughput Screening Technologies in Biomass Characterization. Switzerland. doi:10.3389/fenrg.2018.00120.
Decker, Stephen R., Harman-Ware, Anne E., Happs, Renee M., Wolfrum, Edward J., Tuskan, Gerald A., Kainer, David, Oguntimein, Gbekeloluwa B., Rodriguez, Miguel, Weighill, Deborah, Jones, Piet, and Jacobson, Daniel. Tue . "High Throughput Screening Technologies in Biomass Characterization". Switzerland. doi:10.3389/fenrg.2018.00120.
title = {High Throughput Screening Technologies in Biomass Characterization},
author = {Decker, Stephen R. and Harman-Ware, Anne E. and Happs, Renee M. and Wolfrum, Edward J. and Tuskan, Gerald A. and Kainer, David and Oguntimein, Gbekeloluwa B. and Rodriguez, Miguel and Weighill, Deborah and Jones, Piet and Jacobson, Daniel},
abstractNote = {},
doi = {10.3389/fenrg.2018.00120},
journal = {Frontiers in Energy Research},
number = ,
volume = 6,
place = {Switzerland},
year = {2018},
month = {11}

Journal Article:
Free Publicly Available Full Text
Publisher's Version of Record
DOI: 10.3389/fenrg.2018.00120

Citation Metrics:
Cited by: 4 works
Citation information provided by
Web of Science

Figures / Tables:

TABLE 1 TABLE 1 : Summary of HTP methods in biomass conversion.

Save / Share:

Works referenced in this record:

Automated saccharification assay for determination of digestibility in plant materials
journal, January 2010

  • Gomez, Leonardo D.; Whitehead, Caragh; Barakate, Abdellah
  • Biotechnology for Biofuels, Vol. 3, Issue 1
  • DOI: 10.1186/1754-6834-3-23

Within tree variability of lignin composition in Populus
journal, June 2008

A robust high-throughput fungal biosensor assay for the detection of estrogen activity
journal, October 2017

Sugar release and growth of biofuel crops are improved by downregulation of pectin biosynthesis
journal, February 2018

  • Biswal, Ajaya K.; Atmodjo, Melani A.; Li, Mi
  • Nature Biotechnology, Vol. 36, Issue 3
  • DOI: 10.1038/nbt.4067

High-throughput estimation of specific activities of enzyme/mutants in cell lysates through immunoturbidimetric assay of proteins
journal, October 2017

Small-scale and automatable high-throughput compositional analysis of biomass
journal, October 2010

  • DeMartini, Jaclyn D.; Studer, Michael H.; Wyman, Charles E.
  • Biotechnology and Bioengineering, Vol. 108, Issue 2, p. 306-312
  • DOI: 10.1002/bit.22937

Variation in corn stover composition and energy content with crop maturity
journal, April 2005

Estimation of terpene content in loblolly pine biomass using a hybrid fast-GC and pyrolysis-molecular beam mass spectrometry method
journal, March 2017

  • Harman-Ware, Anne E.; Davis, Mark F.; Peter, Gary F.
  • Journal of Analytical and Applied Pyrolysis, Vol. 124
  • DOI: 10.1016/j.jaap.2017.01.011

A comparison of different methods to estimate prediction uncertainty using Partial Least Squares (PLS): A practitioner's perspective
journal, July 2009

Metabolomics: Creating new potentials for unraveling the mechanisms in response to salt and drought stress and for the biotechnological improvement of xero-halophytes
journal, November 2010

Engineering central metabolism - a grand challenge for plant biologists
journal, March 2017

  • Sweetlove, Lee J.; Nielsen, Jens; Fernie, Alisdair R.
  • The Plant Journal, Vol. 90, Issue 4
  • DOI: 10.1111/tpj.13464

Concentration Measurement by Proton NMR Using the ERETIC Method
journal, July 1999

  • Akoka, Serge; Barantin, Laurent; Trierweiler, Michel
  • Analytical Chemistry, Vol. 71, Issue 13
  • DOI: 10.1021/ac981422i

ORIGINAL RESEARCH: Lignocellulose recalcitrance screening by integrated high-throughput hydrothermal pretreatment and enzymatic saccharification
journal, April 2010

  • Selig, Michael J.; Tucker, Melvin P.; Sykes, Robert W.
  • Industrial Biotechnology, Vol. 6, Issue 2
  • DOI: 10.1089/ind.2010.0009

1H HRMAS NMR spectroscopy and chemometrics for evaluation of metabolic changes in citrus sinensis Caused by Xanthomonas axonopodis pv. citri
journal, January 2012

  • Silva, Lorena M. A.; Alves Filho, Elenilson G.; Choze, Rafael
  • Journal of the Brazilian Chemical Society, Vol. 23, Issue 6
  • DOI: 10.1590/S0103-50532012000600009

Association genetics of traits controlling lignin and cellulose biosynthesis in black cottonwood (Populus trichocarpa, Salicaceae) secondary xylem
journal, September 2010

High-throughput protein purification and quality assessment for crystallization
journal, September 2011

Rapid selection and identification of Miscanthus genotypes with enhanced glucan and xylan yields from hydrothermal pretreatment followed by enzymatic hydrolysis
journal, January 2012

  • Zhang, Taiying; Wyman, Charles E.; Jakob, Katrin
  • Biotechnology for Biofuels, Vol. 5, Issue 1
  • DOI: 10.1186/1754-6834-5-56

High-Throughput Method for Determining the Sugar Content in Biomass with Pyrolysis Molecular Beam Mass Spectrometry
journal, April 2015

  • Sykes, Robert W.; Gjersing, Erica L.; Doeppke, Crissa L.
  • BioEnergy Research, Vol. 8, Issue 3
  • DOI: 10.1007/s12155-015-9610-5

Multivariate Analysis of Quality. An Introduction
journal, September 2001

Automated Filter Paper Assay for Determination of Cellulase Activity
journal, January 2003

  • Decker, Stephen R.; Adney, William S.; Jennings, Edward
  • Applied Biochemistry and Biotechnology, Vol. 107, Issue 1-3
  • DOI: 10.1385/ABAB:107:1-3:689

High throughput automated microbial bioreactor system used for clone selection and rapid scale-down process optimization
journal, August 2017

  • Velez-Suberbie, M. Lourdes; Betts, John P. J.; Walker, Kelly L.
  • Biotechnology Progress, Vol. 34, Issue 1
  • DOI: 10.1002/btpr.2534

Measurement of cellulase activities
journal, January 1987

Anaerobic microplate assay for direct microbial conversion of switchgrass and Avicel using Clostridium thermocellum
journal, November 2017

  • Oguntimein, Gbekeloluwa B.; Rodriguez, Miguel; Dumitrache, Alexandru
  • Biotechnology Letters, Vol. 40, Issue 2
  • DOI: 10.1007/s10529-017-2467-2

Strategy for choosing extraction procedures for NMR-based metabolomic analysis of mammalian cells
journal, August 2011

  • Martineau, Estelle; Tea, Illa; Loaëc, Gregory
  • Analytical and Bioanalytical Chemistry, Vol. 401, Issue 7
  • DOI: 10.1007/s00216-011-5310-y

A High-Throughput Platform for Screening Milligram Quantities of Plant Biomass for Lignocellulose Digestibility
journal, January 2010

  • Santoro, Nicholas; Cantu, Shane L.; Tornqvist, Carl-Erik
  • BioEnergy Research, Vol. 3, Issue 1
  • DOI: 10.1007/s12155-009-9074-6

Low-Conductivity Buffers for High-Sensitivity NMR Measurements
journal, October 2002

  • Kelly, Alexander E.; Ou, Horng D.; Withers, Richard
  • Journal of the American Chemical Society, Vol. 124, Issue 40
  • DOI: 10.1021/ja026121b

Extraction of Algal Lipids and Their Analysis by HPLC and Mass Spectrometry
journal, March 2012

  • Jones, Jessica; Manning, Schonna; Montoya, Morela
  • Journal of the American Oil Chemists' Society
  • DOI: 10.1007/s11746-012-2044-8

An Outlook on Microalgal Biofuels
journal, August 2010

High-Throughput Screening Techniques for Biomass Conversion
journal, October 2009

Consolidated bioprocessing of transgenic switchgrass by an engineered and evolved Clostridium thermocellum strain
journal, January 2014

  • Yee, Kelsey L.; Rodriguez Jr, Miguel; Thompson, Olivia A.
  • Biotechnology for Biofuels, Vol. 7, Issue 1
  • DOI: 10.1186/1754-6834-7-75

Validation of PyMBMS as a High-throughput Screen for Lignin Abundance in Lignocellulosic Biomass of Grasses
journal, January 2014

  • Penning, Bryan W.; Sykes, Robert W.; Babcock, Nicholas C.
  • BioEnergy Research, Vol. 7, Issue 3
  • DOI: 10.1007/s12155-014-9410-3

A high throughput Nile red method for quantitative measurement of neutral lipids in microalgae
journal, April 2009

Simultaneous achievement of high ethanol yield and titer in Clostridium thermocellum
journal, June 2016

High-Resolution Quantitative Metabolome Analysis of Urine by Automated Flow Injection NMR
journal, May 2013

  • Da Silva, Laeticia; Godejohann, Markus; Martin, François-Pierre J.
  • Analytical Chemistry, Vol. 85, Issue 12
  • DOI: 10.1021/ac4004776

Lignin content in natural Populus variants affects sugar release
journal, March 2011

  • Studer, M. H.; DeMartini, J. D.; Davis, M. F.
  • Proceedings of the National Academy of Sciences, Vol. 108, Issue 15, p. 6300-6305
  • DOI: 10.1073/pnas.1009252108

Pleiotropic and Epistatic Network-Based Discovery: Integrated Networks for Target Gene Discovery
journal, May 2018

Compositional analysis of biomass feedstocks by near infrared reflectance spectroscopy
journal, January 1996

Biodiesel from microalgae
journal, May 2007

Analysis of Forages by Infrared Reflectance
journal, May 1979

Network biology: understanding the cell's functional organization
journal, February 2004

  • Barabási, Albert-László; Oltvai, Zoltán N.
  • Nature Reviews Genetics, Vol. 5, Issue 2
  • DOI: 10.1038/nrg1272

Hyperspectral imaging: a review of best practice, performance and pitfalls for inline and online applications
journal, January 2012

  • Boldrini, Barbara; Kessler, Waltraud; Rebner, Karsten
  • Journal of Near Infrared Spectroscopy, Vol. 20, Issue 5
  • DOI: 10.1255/jnirs.1003

Expression without boundaries: Cell-free protein synthesis in pharmaceutical research
journal, January 2013

  • Casteleijn, Marco G.; Urtti, Arto; Sarkhel, Sanjay
  • International Journal of Pharmaceutics, Vol. 440, Issue 1
  • DOI: 10.1016/j.ijpharm.2012.04.005

Mixture analysis by NMR as applied to fruit juice quality control
journal, November 2009

  • Spraul, Manfred; Schütz, Birk; Humpfer, Eberhard
  • Magnetic Resonance in Chemistry, Vol. 47, Issue S1
  • DOI: 10.1002/mrc.2528

The development and application of high throughput cultivation technology in bioprocess development
journal, December 2014

Structure of Linkage Disequilibrium in Plants
journal, June 2003

High-resolution genetic mapping of allelic variants associated with cell wall chemistry in Populus
journal, January 2015

Five Years of GWAS Discovery
journal, January 2012

  • Visscher, Peter M.; Brown, Matthew A.; McCarthy, Mark I.
  • The American Journal of Human Genetics, Vol. 90, Issue 1
  • DOI: 10.1016/j.ajhg.2011.11.029

Composition and Quantitation of Microalgal Lipids by ERETIC 1H NMR Method
journal, September 2013

  • Nuzzo, Genoveffa; Gallo, Carmela; d'Ippolito, Giuliana
  • Marine Drugs, Vol. 11, Issue 10
  • DOI: 10.3390/md11103742

Determination of metabolite profiles in tropical wines by 1H NMR spectroscopy and chemometrics
journal, October 2009

  • da Silva Neto, Humberto G.; da Silva, João B. P.; Pereira, Giuliano E.
  • Magnetic Resonance in Chemistry, Vol. 47, Issue S1
  • DOI: 10.1002/mrc.2520

A Rapid Method of Total Lipid Extraction and Purification
journal, January 1959

  • Bligh, E. G.; Dyer, W. J.
  • Canadian Journal of Biochemistry and Physiology, Vol. 37, Issue 1
  • DOI: 10.1139/y59-099

Metabolic response of maize plants to multi-factorial abiotic stresses
journal, January 2015

Consolidated bioprocessing of Populus using Clostridium (Ruminiclostridium) thermocellum: a case study on the impact of lignin composition and structure
journal, February 2016

  • Dumitrache, Alexandru; Akinosho, Hannah; Rodriguez, Miguel
  • Biotechnology for Biofuels, Vol. 9, Issue 1
  • DOI: 10.1186/s13068-016-0445-x

NIR and Py-mbms coupled with multivariate data analysis as a high-throughput biomass characterization technique: a review
journal, August 2014

Detecting outliers: Do not use standard deviation around the mean, use absolute deviation around the median
journal, July 2013

  • Leys, Christophe; Ley, Christophe; Klein, Olivier
  • Journal of Experimental Social Psychology, Vol. 49, Issue 4
  • DOI: 10.1016/j.jesp.2013.03.013

High throughput determination of glucan and xylan fractions in lignocelluloses
journal, February 2011

Pleiotropy in complex traits: challenges and strategies
journal, June 2013

  • Solovieff, Nadia; Cotsapas, Chris; Lee, Phil H.
  • Nature Reviews Genetics, Vol. 14, Issue 7
  • DOI: 10.1038/nrg3461

A rapid microassay to evaluate enzymatic hydrolysis of lignocellulosic substrates
journal, January 2006

  • Berlin, Alex; Maximenko, Vera; Bura, Renata
  • Biotechnology and Bioengineering, Vol. 93, Issue 5
  • DOI: 10.1002/bit.20783

Fluorescent measurement of microalgal neutral lipids
journal, March 2007

  • Elsey, Danielle; Jameson, David; Raleigh, Barry
  • Journal of Microbiological Methods, Vol. 68, Issue 3
  • DOI: 10.1016/j.mimet.2006.11.008

Genetic Determinants for Enzymatic Digestion of Lignocellulosic Biomass Are Independent of Those for Lignin Abundance in a Maize Recombinant Inbred Population
journal, June 2014

  • Penning, Bryan W.; Sykes, Robert W.; Babcock, Nicholas C.
  • Plant Physiology, Vol. 165, Issue 4
  • DOI: 10.1104/pp.114.242446

NMR Techniques Coupled with Multivariate Statistical Analysis: Tools to Analyse Oryza sativa Metabolic Content under Stress Conditions
journal, April 2009

The evolution of the host microbiome as an ecosystem on a leash
journal, August 2017

  • Foster, Kevin R.; Schluter, Jonas; Coyte, Katharine Z.
  • Nature, Vol. 548, Issue 7665
  • DOI: 10.1038/nature23292

High-throughput fermentation screening for the yeast Yarrowia lipolytica with real-time monitoring of biomass and lipid production
journal, August 2016

  • Back, Alexandre; Rossignol, Tristan; Krier, François
  • Microbial Cell Factories, Vol. 15, Issue 1
  • DOI: 10.1186/s12934-016-0546-z

High-throughput microplate technique for enzymatic hydrolysis of lignocellulosic biomass
journal, January 2008

  • Chundawat, Shishir P. S.; Balan, Venkatesh; Dale, Bruce E.
  • Biotechnology and Bioengineering, Vol. 99, Issue 6
  • DOI: 10.1002/bit.21805

Parallel accelerated vector similarity calculations for genomics applications
journal, July 2018

Predicting Forage Quality by Infrared Replectance Spectroscopy
journal, October 1976

  • Norris, K. H.; Barnes, R. F.; Moore, J. E.
  • Journal of Animal Science, Vol. 43, Issue 4
  • DOI: 10.2527/jas1976.434889x

Variance component model to account for sample structure in genome-wide association studies
journal, March 2010

  • Kang, Hyun Min; Sul, Jae Hoon; Service, Susan K.
  • Nature Genetics, Vol. 42, Issue 4
  • DOI: 10.1038/ng.548

High-throughput enzymatic hydrolysis of lignocellulosic biomass via in-situ regeneration
journal, January 2011

Role of pretreatment and conditioning processes on toxicity of lignocellulosic biomass hydrolysates
journal, June 2009

Biodiesel from algae: challenges and prospects
journal, June 2010

Fluorometric determination of the neutral lipid content of microalgal cells using Nile Red
journal, September 1987

  • Cooksey, Keith E.; Guckert, James B.; Williams, Scott A.
  • Journal of Microbiological Methods, Vol. 6, Issue 6
  • DOI: 10.1016/0167-7012(87)90019-4

Evaluation of the bioconversion of genetically modified switchgrass using simultaneous saccharification and fermentation and a consolidated bioprocessing approach
journal, January 2012

  • Yee, Kelsey L.; Rodriguez Jr, Miguel; Tschaplinski, Timothy J.
  • Biotechnology for Biofuels, Vol. 5, Issue 1
  • DOI: 10.1186/1754-6834-5-81

Rapid analysis of composition and reactivity in cellulosic biomass feedstocks with near-infrared spectroscopy
journal, March 2015

Determination of Forage Quality by near Infrared Reflectance Spectroscopy: Efficacy of Broad-Based Calibration Equations
journal, April 1987

Near Infrared Calibration Models for Pretreated Corn Stover Slurry Solids, Isolated and in situ
journal, January 2013

  • Sluiter, Amie; Wolfrum, Ed
  • Journal of Near Infrared Spectroscopy, Vol. 21, Issue 4
  • DOI: 10.1255/jnirs.1065

The advantages and limitations of trait analysis with GWAS: a review
journal, January 2013

Biomass properties from different Miscanthus species
journal, May 2013

  • Liu, Chenchen; Xiao, Liang; Jiang, Jianxiong
  • Food and Energy Security, Vol. 2, Issue 1
  • DOI: 10.1002/fes3.19

Rapid Assessment of Lignin Content and Structure in Switchgrass (Panicum virgatum L.) Grown Under Different Environmental Conditions
journal, October 2009

New options to engineer biofuel microbes: Development and application of a high-throughput screening system
journal, May 2013

Comprehensive Compositional Analysis of Plant Cell Walls (Lignocellulosic biomass) Part II: Carbohydrates
journal, January 2010

  • Foster, Cliff E.; Martin, Tina M.; Pauly, Markus
  • Journal of Visualized Experiments, Issue 37
  • DOI: 10.3791/1837

Assessing corn stover composition and sources of variability via NIRS
journal, June 2009

Quantitative analysis of sugars in wood hydrolyzates with 1H NMR during the autohydrolysis of hardwoods
journal, December 2009

Methodology for enabling high-throughput simultaneous saccharification and fermentation screening of yeast using solid biomass as a substrate
journal, January 2015

  • Elliston, Adam; Wood, Ian P.; Soucouri, Marie J.
  • Biotechnology for Biofuels, Vol. 8, Issue 1
  • DOI: 10.1186/s13068-014-0181-z

NMR metabolomics and drug discovery
journal, June 2009

  • Powers, Robert
  • Magnetic Resonance in Chemistry, Vol. 47, Issue S1
  • DOI: 10.1002/mrc.2461

Compositional Analysis of Lignocellulosic Feedstocks. 1. Review and Description of Methods
journal, August 2010

  • Sluiter, Justin B.; Ruiz, Raymond O.; Scarlata, Christopher J.
  • Journal of Agricultural and Food Chemistry, Vol. 58, Issue 16, p. 9043-9053
  • DOI: 10.1021/jf1008023

Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks
journal, November 2003

Microscale and miniscale fermentation and screening
journal, December 2015

Ecometabolomics: optimized NMR-based method
journal, February 2013

  • Rivas-Ubach, Albert; Pérez-Trujillo, Miriam; Sardans, Jordi
  • Methods in Ecology and Evolution, Vol. 4, Issue 5
  • DOI: 10.1111/2041-210X.12028

High-throughput Screening of Recalcitrance Variations in Lignocellulosic Biomass: Total Lignin, Lignin Monomers, and Enzymatic Sugar Release
journal, January 2015

  • Decker, Stephen R.; Sykes, Robert W.; Turner, Geoffrey B.
  • Journal of Visualized Experiments, Issue 103
  • DOI: 10.3791/53163

Biodiesel fuel production by transesterification of oils
journal, January 2001

A Review of Calibration Transfer Practices and Instrument Differences in Spectroscopy
journal, October 2017

Engineering of a high-throughput screening system to identify cellulosic biomass, pretreatments, and enzyme formulations that enhance sugar release
journal, February 2010

  • Studer, Michael H.; DeMartini, Jaclyn D.; Brethauer, Simone
  • Biotechnology and Bioengineering, Vol. 105, Issue 2, p. 231-238
  • DOI: 10.1002/bit.22527

Lights, camera, action: high-throughput plant phenotyping is ready for a close-up
journal, April 2015

Applications of near-infrared spectroscopy (NIRS) in biomass energy conversion processes: A review
journal, January 2017

Characterization and enzymatic hydrolysis of wood from transgenic Pinus taeda engineered with syringyl lignin or reduced lignin content
journal, February 2017

Improved multivariate calibration models for corn stover feedstock and dilute-acid pretreated corn stover
journal, June 2009

    Works referencing / citing this record:

    Genetic variation of biomass recalcitrance in a natural Salix viminalis (L.) population
    journal, June 2019

    • Ohlsson, Jonas A.; Hallingbäck, Henrik R.; Jebrane, Mohamed
    • Biotechnology for Biofuels, Vol. 12, Issue 1
    • DOI: 10.1186/s13068-019-1479-7

    Lignocellulosic Biomass: Understanding Recalcitrance and Predicting Hydrolysis
    journal, December 2019

      Figures/Tables have been extracted from DOE-funded journal article accepted manuscripts.