A5108133776- Biofuel production and bioconversion
- Bioenergy crop production and management
- Genomics and Phylogenetic Studies
- Bioinformatics and Genomic Networks
- Polysaccharides and Plant Cell Walls
- Plant Gene Expression Analysis
- Plant nutrient uptake and metabolism
- RNA and protein synthesis mechanisms
- Microbial Metabolic Engineering and Bioproduction
- Chromosomal and Genetic Variations
- Gene expression and cancer classification
- Plant Molecular Biology Research
- Microbial Community Ecology and Physiology
- Cancer-related molecular mechanisms research
- Bacterial Genetics and Biotechnology
- Nonlinear Waves and Solitons
- Bacteriophages and microbial interactions
- MicroRNA in disease regulation
- Protein Structure and Dynamics
- Advanced Cellulose Research Studies
- Legume Nitrogen Fixing Symbiosis
- Photosynthetic Processes and Mechanisms
- Machine Learning in Bioinformatics
- Advanced Proteomics Techniques and Applications
- Listeria monocytogenes in Food Safety
Southern University of Science and Technology
2024
Hong Kong Baptist University
2023
Southwest Forestry University
2023
Southwest University of Science and Technology
2022
PLA Army Engineering University
2022
Zhejiang University
2022
Henan Polytechnic University
2022
Ocean University of China
2022
Baotou Teachers College
2022
Children's Hospital of Fudan University
2022
Carbohydrate-active enzymes (CAZymes) are very important to the biotech industry, particularly emerging biofuel industry because CAZymes responsible for synthesis, degradation and modification of all carbohydrates on Earth. We have developed a web resource, dbCAN (http://csbl.bmb.uga.edu/dbCAN/annotate.php), provide capability automated CAZyme signature domain-based annotation any given protein data set (e.g. proteins from newly sequenced genome) submitted our server. To accomplish this, we...
Fungal disease meets its match Fusarium head blight (FHB), caused by a fungus, reduces wheat crop yield and introduces toxins into the harvest. From assembly of genome Thinopyrum elongatum , wild relative used in breeding programs to improve cultivated wheat, Wang et al. cloned gene that can address both problems (see Perspective Wulff Jones). The encoded glutathione S -transferase detoxifies trichothecene toxin and, when expressed confers resistance FHB. Science this issue p. eaba5435 ; see also 822
Abstract Background The cellulose synthase superfamily has been classified into nine synthase-like (Csl) families and one (CesA) family. Csl have proposed to be involved in the synthesis of backbones hemicelluloses plant cell walls. With 17 algal genomes fully sequenced, we sought conduct a genome-wide systematic investigation this through in-depth phylogenetic analyses. Results A single-copy gene is found six chlorophyte green algae, which most closely related CslA CslC that are present...
Abstract Carbohydrate-active enzyme glycosyltransferase family 8 (GT8) includes the plant galacturonosyltransferase1-related gene of proven and putative α-galacturonosyltransferase (GAUT) GAUT-like (GATL) genes. We computationally identified investigated this in 15 fully sequenced green algal genomes National Center for Biotechnology Information nonredundant protein database to determine phylogenetic relatedness GAUTs GATLs other GT8 members. The proteins fall into three well-delineated...
• The down-regulation of enzymes the monolignol pathway results in reduced recalcitrance biomass for lignocellulosic ethanol production. Cinnamoyl CoA reductase (CCR) catalyzes first step phenylpropanoid specifically dedicated to biosynthesis. However, plants contain multiple CCR-like genes, complicating selection lignin-specific targets. This study was undertaken understand complexity CCR gene family tetraploid switchgrass (Panicum virgatum) and determine biochemical properties encoded...
Abstract Understanding ethanol-induced stresses and responses in biofuel-producing bacteria at systems level has significant implications engineering more efficient biofuel producers. We present a computational study of transcriptomic genomic data both ethanol-stressed ethanol-adapted E. coli cells with computationally predicated ethanol-binding proteins experimentally identified ethanol tolerance genes. Our analysis suggests: (1) damages cell wall membrane integrity, causing increased...
Abstract The influence of external stimulus currents on the propagation neural energy is a significant domain in neuroscience research. Appropriate can activate neurons and trigger action potentials. Within networks, these either facilitate or inhibit synchronization between neurons. Elucidating effects crucial for understanding brain function design network models. This study, which based Hindmarsh–Rose (HR) model, investigates impact noise variation distribution. First, changes single...
Abstract Background Phosphorus is an essential element for all life forms. However, it limiting in most ecological environments where cyanobacteria inhabit. Elucidation of the phosphorus assimilation pathways will further our understanding physiology and ecology this important group microorganisms. a systematic study Pho regulon, core pathway cyanobacterium, hitherto lacking. Results We have predicted analyzed regulons 19 sequenced cyanobacterial genomes using highly effective scanning...
Glucuronoxylans with a backbone of 1,4-linked β-d-xylosyl residues are ubiquitous in the secondary walls gymnosperms and angiosperms. Xylans have been reported to be present hornwort cell walls, but their structures not determined. In contrast, presence xylans mosses liverworts remains subject debate. Here we data that unequivocally establishes leafy tissue axillary hair cells moss Physcomitrella patens contain glucuronoxylan is structurally similar glucuronoxylans vascular plants. Some...
Nucleotide-diphospho-sugars (NDP-sugars) are the building blocks of diverse polysaccharides and glycoconjugates in all organisms. In plants, 11 families NDP-sugar interconversion enzymes (NSEs) have been identified, each which interconverts one to another. While functions these enzyme characterized various very little is known about their evolution origin. Our phylogenetic analyses indicate that plant NSE distantly related most them originated from different progenitor genes, already...
Switchgrass (Panicum virgatum L.) is a perennial C4 grass with the potential to become major bioenergy crop. To help realize this potential, set of RNA-based resources were developed. Expressed sequence tags (ESTs) generated from two tetraploid switchgrass genotypes, Alamo AP13 and Summer VS16. Over 11.5 million high-quality ESTs 454 sequencing technology, an additional 169 079 Sanger sequences obtained 5' 3' ends 93 312 clones normalized, full-length-enriched cDNA libraries. VS16 assembled...
Abstract We are studying a Galacturonosyltransferase-Like (GATL) gene family in Arabidopsis (Arabidopsis thaliana) that was identified bioinformatically as being closely related to group of 15 genes (Galacturonosyltransferase1 [GAUT1] -15), one which (GAUT1) has been shown encode functional galacturonosyltransferase. Here, we describe the phylogeny, structure, evolutionary history, genomic organization, protein topology, and expression pattern this Arabidopsis. Expression studies (reverse...
Abstract Background Identification of the novel genes relevant to plant cell-wall (PCW) synthesis represents a highly important and challenging problem. Although substantial efforts have been invested into studying this problem, vast majority PCW related remain unknown. Results Here we present computational study focused on identification in Arabidopsis based co-expression analyses transcriptomic data collected under 351 conditions, using bi-clustering technique. Our analysis identified 217...
Glycine betaine (GB) can enhance heat tolerance and the accumulation of heat-shock protein (HSP) in plants, but effects GB on HSP during salt stress were not previously known. To investigate mechanism how influences expression HSP, wild-type tobacco (Nicotiana tabacum) seedlings pretreated with exogenous BADH-transgenic plants that accumulated vivo studied NaCl stress. A transient Ca(2+) efflux was observed epidermal cells elongation zone roots after treatment for 1-2 min. After 24 h...
Switchgrass (Panicum virgatum L.) is an important bioenergy crop widely used for lignocellulosic research. While extensive transcriptomic analyses have been conducted on this species using short read-based sequencing techniques, very little has reliably derived regarding alternatively spliced (AS) transcripts. We present analysis of transcriptomes six switchgrass tissue types pooled together, sequenced Pacific Biosciences (PacBio) single-molecular long-read technology. Our identified 105,419...
Computational recognition of native-like folds an anonymous amino acid sequence from a protein fold database is considered to be promising approach the three-dimensional (3D) prediction sequence. We present new method for through optimally aligning and template (protein threading). The fitness with measured by (1) singleton fitness, representing compatibility substituting one another combined preference secondary structure solvent accessibility particular acid, (2) pairwise interaction,...
DMINDA (DNA motif identification and analyses) is an integrated web server for DNA analyses, which accessible at http://csbl.bmb.uga.edu/DMINDA/. This site freely available to all users there no login requirement. provides a suite of cis-regulatory analysis functions on sequences, are important elucidation the mechanisms transcriptional regulation: (i) de novo finding given set promoter sequences along with statistical scores predicted motifs derived based information extracted from control...
Improving nitrogen (N) remobilization from aboveground to underground organs during yearly shoot senescence is an important goal for sustainable production of switchgrass (Panicum virgatum) as a biofuel crop. Little known about the genetic control and N use efficiency in perennial grasses such switchgrass, which limits our ability improve process. Switchgrass (leaves, stems inflorescences) (crowns roots) were harvested every month over 3-yr period. Transcriptome analysis was performed...
We develop a general framework for realistic rate equation modeling of cellulose hydrolysis using non-complexed cellulase. Our proposed formalism, the first time, takes into account explicitly time evolution random substrate morphology resulting from hydrolytic chain fragmentation and solubilization. This is achieved by integrating novel geometrical concepts to quantitatively capture time-dependent morphology, together with enzymatic fragmentation, coupled morphology-plus-kinetics approach....