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https://www.readbyqxmd.com/read/28092137/isolation-and-characterization-of-rhizobium-sp-strain-ys-1r-that-degrades-lignin-in-plant-biomass
#1
Colin A Jackson, Matthew B Couger, Madhu Prabhakaran, Karthikeyan D Ramachandriya, Patricia Canaan, Babu Z Fathepure
AIMS: The aim of this work was to isolate novel lignin degrading organisms. METHODS AND RESULTS: Several pure cultures of bacteria that degrade lignin were isolated from bacterial consortia developed from decaying biomass. Among the isolates, Rhizobium sp. strain YS-1r (closest relative of Rhizobium petrolearium Strain SL-1) was explored for its lignin degrading ability. Microcosm studies showed that strain YS-1r was able to degrade a variety of lignin monomers, dimers, and also native lignin in switchgrass and alfalfa...
January 16, 2017: Journal of Applied Microbiology
https://www.readbyqxmd.com/read/28077967/integrated-omics-analyses-reveal-the-details-of-metabolic-adaptation-of-clostridium-thermocellum-to-lignocellulose-derived-growth-inhibitors-released-during-the-deconstruction-of-switchgrass
#2
Suresh Poudel, Richard J Giannone, Miguel Rodriguez, Babu Raman, Madhavi Z Martin, Nancy L Engle, Jonathan R Mielenz, Intawat Nookaew, Steven D Brown, Timothy J Tschaplinski, David Ussery, Robert L Hettich
BACKGROUND: Clostridium thermocellum is capable of solubilizing and converting lignocellulosic biomass into ethanol. Although much of the work-to-date has centered on characterizing this microbe's growth on model cellulosic substrates, such as cellobiose, Avicel, or filter paper, it is vitally important to understand its metabolism on more complex, lignocellulosic substrates to identify relevant industrial bottlenecks that could undermine efficient biofuel production. To this end, we have examined a time course progression of C...
2017: Biotechnology for Biofuels
https://www.readbyqxmd.com/read/28053668/study-of-traits-and-recalcitrance-reduction-of-field-grown-comt-down-regulated-switchgrass
#3
Mi Li, Yunqiao Pu, Chang Geun Yoo, Erica Gjersing, Stephen R Decker, Crissa Doeppke, Todd Shollenberger, Timothy J Tschaplinski, Nancy L Engle, Robert W Sykes, Mark F Davis, Holly L Baxter, Mitra Mazarei, Chunxiang Fu, Richard A Dixon, Zeng-Yu Wang, C Neal Stewart, Arthur J Ragauskas
BACKGROUND: The native recalcitrance of plants hinders the biomass conversion process using current biorefinery techniques. Down-regulation of the caffeic acid O-methyltransferase (COMT) gene in the lignin biosynthesis pathway of switchgrass reduced the thermochemical and biochemical conversion recalcitrance of biomass. Due to potential environmental influences on lignin biosynthesis and deposition, studying the consequences of physicochemical changes in field-grown plants without pretreatment is essential to evaluate the performance of lignin-altered plants...
2017: Biotechnology for Biofuels
https://www.readbyqxmd.com/read/28034316/high-temperature-carbonized-grass-as-a-high-performance-sodium-ion-battery-anode
#4
Fang Zhang, Yonggang Yao, Jiayu Wan, Doug Henderson, Xiaogang Zhang, Liangbing Hu
Hard carbon is currently considered the most promising anode candidate for room temperature sodium ion batteries because of its relatively high capacity, low cost, and good scalability. In this work, switchgrass as a biomass example was carbonized under an ultrahigh temperature, 2050 °C, induced by Joule heating to create hard carbon anodes for sodium ion batteries. Switchgrass derived carbon materials intrinsically inherit its three-dimensional porous hierarchical architecture, with an average interlayer spacing of 0...
December 30, 2016: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/28012044/a-survey-of-yeast-from-the-yarrowia-clade-for-lipid-production-in-dilute-acid-pretreated-lignocellulosic-biomass-hydrolysate
#5
Josh Quarterman, Patricia J Slininger, Cletus P Kurtzman, Stephanie R Thompson, Bruce S Dien
Yarrowia lipolytica is an oleaginous yeast species that has attracted attention as a model organism for synthesis of single cell oil. Among over 50 isolates of Y. lipolytica identified, only a few of the strains have been studied extensively. Furthermore, 12 other yeast species were recently assigned to the Yarrowia clade, and most are not well characterized in terms of cell growth and lipid accumulation, especially in industrially relevant conditions. In the present study, we investigated biomass and lipid production by 57 yeast isolates, representing all 13 species in the Yarrowia clade, on a non-detoxified dilute acid-pretreated switchgrass hydrolysate under highly aerobic conditions...
December 23, 2016: Applied Microbiology and Biotechnology
https://www.readbyqxmd.com/read/28003194/laci-transcriptional-regulatory-networks-in-clostridium-thermocellum-dsm1313
#6
Charlotte M Wilson, Dawn M Klingeman, Caleb Schlachter, Mustafa H Syed, Chia-Wei Wu, Adam M Guss, Steven D Brown
: Organisms regulate gene expression in response to the environment to coordinate metabolic reactions. Clostridium thermocellum expresses enzymes for both lignocellulose solubilization and its fermentation to produce ethanol. One LacI regulator termed GlyR3 in C. thermocellum ATCC27405 was previously identified as a repressor of neighboring genes with repression relieved by laminaribiose (a β-1,3 disaccharide). To better understand the three C. thermocellum LacI regulons, deletion mutants were constructed using the genetically tractable DSM1313 strain...
December 21, 2016: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/27986076/transcriptome-analysis-in-switchgrass-discloses-ecotype-difference-in-photosynthetic-efficiency
#7
Desalegn D Serba, Srinivasa Rao Uppalapati, Nick Krom, Shreyartha Mukherjee, Yuhong Tang, Kirankumar S Mysore, Malay C Saha
BACKGROUND: Switchgrass, a warm-season perennial grass studied as a potential dedicated biofuel feedstock, is classified into two main taxa - lowland and upland ecotypes - that differ in morphology and habitat of adaptation. But there is limited information on their inherent molecular variations. RESULTS: Transcriptome analysis by RNA-sequencing (RNA-Seq) was conducted for lowland and upland ecotypes to document their gene expression variations. Mapping of transcriptome to the reference genome (Panicum virgatum v1...
December 16, 2016: BMC Genomics
https://www.readbyqxmd.com/read/27981239/ionic-liquids-impact-the-bioenergy-feedstock-degrading-microbiome-and-transcription-of-enzymes-relevant-to-polysaccharide-hydrolysis
#8
Yu-Wei Wu, Brendan Higgins, Chaowei Yu, Amitha P Reddy, Shannon Ceballos, Lawrence D Joh, Blake A Simmons, Steven W Singer, Jean S VanderGheynst
Ionic liquid (IL) pretreatment is a promising approach for the conversion of lignocellulose to biofuels. The toxicity of residual IL, however, negatively impacts the performance of industrial enzymes and microorganisms in hydrolysis and fermentation. In this study, a thermophilic microbial community was cultured on switchgrass amended with various levels of the ionic liquid 1-ethyl-3-methylimidazolium acetate. Changes in the microbial community composition and transcription of genes relevant to IL tolerance and lignocellulose hydrolysis were quantified...
November 2016: MSystems
https://www.readbyqxmd.com/read/27976872/evaluating-the-potential-of-marginal-land-for-cellulosic-feedstock-production-and-carbon-sequestration-in-the-united-states
#9
Isaac Emery, Steffen Mueller, Zhangcai Qin, Jennifer B Dunn
Land availability for growing feedstocks at scale is a crucial concern for the bioenergy industry. Feedstock production on land not well-suited to growing conventional crops, or marginal land, is often promoted as ideal, although there is a poor understanding of the qualities, quantity, and distribution of marginal lands in the United States. We examine the spatial distribution of land complying with several key marginal land definitions at the United States county, agro-ecological zone, and national scales, and compare the ability of both marginal land and land cover data sets to identify regions for feedstock production...
January 3, 2017: Environmental Science & Technology
https://www.readbyqxmd.com/read/27966736/identification-and-characterization-of-the-14-3-3-gene-family-in-switchgrass
#10
S Wu, H D Yan, A L Zhang, L K Huang, G H Yin, S Lee
Members of the 14-3-3 family of proteins are conserved regulatory proteins that are widely found in eukaryotes and play crucial roles in diverse physiological processes, including responses to different stresses. Although genome-wide analysis of 14-3-3 proteins has been performed in a few plant species, it has not been performed in switchgrass. In this study, we identified 21 switchgrass 14-3-3 proteins (designated PvGF14a to PvGF14u) and examined genes for improved stress tolerance in this species. A phylogenetic tree was constructed to demonstrate that PvGF14 proteins can be divided into six groups, and that PvGF14 proteins belonging to each class exhibit similar gene structure...
December 2, 2016: Genetics and Molecular Research: GMR
https://www.readbyqxmd.com/read/27957693/adsorption-of-metribuzin-from-aqueous-solution-using-magnetic-and-nonmagnetic-sustainable-low-cost-biochar-adsorbents
#11
Matthew Essandoh, Daniel Wolgemuth, Charles U Pittman, Dinesh Mohan, Todd Mlsna
Switchgrass biochar (SGB) was made by fast pyrolysis in an auger-fed reactor at 425 °C with a solid residence time of 60 s in the pyrolysis zone during bio-oil production. Magnetic switchgrass biochar (MSGB) was prepared by iron oxide precipitation onto the biochar surface using an aqueous Fe(3+)/Fe(2+) solution followed by NaOH treatment. Both the SGB and the MSGB were characterized by FTIR, SEM, SEM-EDX, TGA, pHpzc, elemental analysis, and surface area measurements. Batch sorption studies of metribuzin from aqueous solutions were carried out at different pH values, adsorbate concentrations, and temperatures...
December 12, 2016: Environmental Science and Pollution Research International
https://www.readbyqxmd.com/read/27930996/stabilization-of-mercury-in-sediment-by-using-biochars-under-reducing-conditions
#12
Peng Liu, Carol J Ptacek, David W Blowes, Y Zou Finfrock, Robert A Gordon
Mercury (Hg) is widely distributed in different localities around the world and poses a serious health threat to humans, especially when ingested in the form of methylmercury (MeHg). Efforts have been directed toward decreasing the production of MeHg by converting Hg to stable forms. Activated carbon and biochar have been evaluated as stabilization agents for Hg in contaminated sediments. However, the long-term fate of Hg stabilized by these materials remains unclear. Here, we compare the effectiveness of Hg stabilization using two biochars prepared from switchgrass at 300°C (lowT) and 600°C (highT)...
March 5, 2017: Journal of Hazardous Materials
https://www.readbyqxmd.com/read/27919534/adsorption-of-acid-extractable-organics-from-oil-sands-process-affected-water-onto-biomass-based-biochar-metal-content-matters
#13
Tazul I Bhuiyan, Jin K Tak, Sebastian Sessarego, Don Harfield, Josephine M Hill
The impact of biochar properties on acid-extractable organics (AEO) adsorption from oil sands process-affected water (OSPW) was studied. Biochar from wheat straw with the highest ash content (14%) had the highest adsorption capacity (0.59 mg/g) followed by biochar from pulp mill sludge, switchgrass, mountain pine, hemp shives, and aspen wood. The adsorption capacity had no obvious trend with surface area, total pore volume, bulk polarity and aromaticity. The large impact of metal content was consistent with the carboxylates (i...
February 2017: Chemosphere
https://www.readbyqxmd.com/read/27898826/quantitative-trait-loci-mapping-for-tillering-related-traits-in-two-switchgrass-populations
#14
Dan Chang, Yanqi Wu, Linglong Liu, Shuiyi Lu-Thames, Hongxu Dong, Carla Goad, Shiqie Bai, Shiva Makaju, Tilin Fang
Plant tillering and related traits are morphologically important components contributing to switchgrass ( L.) biomass yield. The objectives of this study were to estimate broad-sense heritabilities for tillering-related traits, to analyze correlations between biomass yield and the traits, and to identify quantitative trait loci (QTL) for them. A first-generation selfed population of NL94 plant and a hybrid population between NL94 and SL93 plants were field established in a randomized complete block design with three replications in Stillwater and Perkins, OK...
July 2016: Plant Genome
https://www.readbyqxmd.com/read/27893787/selection-signatures-in-four-lignin-genes-from-switchgrass-populations-divergently-selected-for-in-vitro-dry-matter-digestibility
#15
Shiyu Chen, Shawn M Kaeppler, Kenneth P Vogel, Michael D Casler
Switchgrass is undergoing development as a dedicated cellulosic bioenergy crop. Fermentation of lignocellulosic biomass to ethanol in a bioenergy system or to volatile fatty acids in a livestock production system is strongly and negatively influenced by lignification of cell walls. This study detects specific loci that exhibit selection signatures across switchgrass breeding populations that differ in in vitro dry matter digestibility (IVDMD), ethanol yield, and lignin concentration. Allele frequency changes in candidate genes were used to detect loci under selection...
2016: PloS One
https://www.readbyqxmd.com/read/27879392/characterization-of-class-iii-peroxidases-from-switchgrass
#16
Timothy W Moural, Kevin M Lewis, Carlo Barnaba, Fang Zhu, Nathan A Palmer, Gautam Sarath, Erin D Scully, Jeffrey P Jones, Scott E Sattler, ChulHee Kang
Class III peroxidases (CIIIPRX) catalyze the oxidation of monolignols, generate radicals, and ultimately lead to the formation of lignin. In general, CIIIPRX genes encode a large number of isozymes with ranges of in vitro substrate specificities. In order to elucidate the mode of substrate specificity of these enzymes, we characterized one of the CIIIPRXs (PviPRX9) from switchgrass (Panicum virgatum), a strategic plant for second-generation biofuels. The crystal structure, kinetic experiments, molecular docking, as well as expression patterns of PviPRX9 across multiple tissues and treatments, along with its levels of coexpression with the majority of genes in the monolignol biosynthesis pathway, revealed the function of PviPRX9 in lignification...
January 2017: Plant Physiology
https://www.readbyqxmd.com/read/27877177/comparative-transcriptomic-analyses-of-differentially-expressed-genes-in-transgenic-melatonin-biosynthesis-ovine-hiomt-gene-in-switchgrass
#17
Shan Yuan, Cong Guan, Sijia Liu, Yanhua Huang, Danyang Tian, Xin Cui, Yunwei Zhang, Fuyu Yang
Melatonin serves pleiotropic functions in prompting plant growth and resistance to various stresses. The accurate biosynthetic pathway of melatonin remains elusive in plant species, while the N-acetyltransferase and O-methyltransferase were considered to be the last two key enzymes during its biosynthesis. To investigate the biosynthesis and metabolic pathway of melatonin in plants, the RNA-seq profile of overexpression of the ovine HIOMT was analyzed and compared with the previous transcriptome of transgenic oAANAT gene in switchgrass, a model plant for cellulosic ethanol production...
2016: Frontiers in Plant Science
https://www.readbyqxmd.com/read/27862852/transgenic-switchgrass-panicum-virgatum-l-targeted-for-reduced-recalcitrance-to-bioconversion-a-two-year-comparative-analysis-of-field-grown-lines-modified-for-target-gene-or-genetic-element-expression
#18
Alexandru Dumitrache, Jace Natzke, Miguel Rodriguez, Kelsey L Yee, Olivia A Thompson, Charleson R Poovaiah, Hui Shen, Mitra Mazarei, Holly L Baxter, Chunxiang Fu, Zeng-Yu Wang, Ajaya K Biswal, Guifen Li, Yuhong Tang, C Neal Stewart, Richard A Dixon, Richard S Nelson, Debra Mohnen, Jonathan Mielenz, Steven D Brown, Brian H Davison
Transgenic Panicum virgatum L. silencing (KD) or over-expressing (OE) specific genes or a small RNA (GAUT4-KD, miRNA156-OE, MYB4-OE, COMT-KD and FPGS-KD) were grown in the field and aerial tissue analyzed for biofuel production traits. Clones representing independent transgenic lines were established and senesced tissue sampled after year one and two growth cycles. Biomass was analyzed for wall sugars, recalcitrance to enzymatic digestibility, and biofuel production using separate hydrolysis and fermentation (SHF)...
November 18, 2016: Plant Biotechnology Journal
https://www.readbyqxmd.com/read/27862819/expression-in-grasses-of-multiple-transgenes-for-degradation-of-munitions-compounds-on-live-fire-training-ranges
#19
Long Zhang, Ryan Routsong, Quyen Nguyen, Elizabeth L Rylott, Neil C Bruce, Stuart E Strand
The deposition of toxic munitions compounds, such as hexahydro-1, 3, 5-trinitro-1, 3, 5-triazine (RDX), on soils around targets in live-fire training ranges is an important source of groundwater contamination. Plants take up RDX but do not significantly degrade it. Reported here is the transformation of two perennial grass species, switchgrass (Panicum virgatum) and creeping bentgrass (Agrostis stolonifera), with the genes for degradation of RDX. These species possess a number of agronomic traits making them well equipped for the uptake and removal of RDX from root zone leachates...
November 10, 2016: Plant Biotechnology Journal
https://www.readbyqxmd.com/read/27833622/downregulation-of-a-udp-arabinomutase-gene-in-switchgrass-panicum-virgatum-l-results-in-increased-cell-wall-lignin-while-reducing-arabinose-glycans
#20
Jonathan D Willis, James A Smith, Mitra Mazarei, Ji-Yi Zhang, Geoffrey B Turner, Stephen R Decker, Robert W Sykes, Charleson R Poovaiah, Holly L Baxter, David G J Mann, Mark F Davis, Michael K Udvardi, Maria J Peña, Jason Backe, Maor Bar-Peled, C N Stewart
Background: Switchgrass (Panicum virgatum L.) is a C4 perennial prairie grass and a dedicated feedstock for lignocellulosic biofuels. Saccharification and biofuel yields are inhibited by the plant cell wall's natural recalcitrance against enzymatic degradation. Plant hemicellulose polysaccharides such as arabinoxylans structurally support and cross-link other cell wall polymers. Grasses predominately have Type II cell walls that are abundant in arabinoxylan, which comprise nearly 25% of aboveground biomass...
2016: Frontiers in Plant Science
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