Production of methyl ethyl ketone from biomass using a hybrid biochemical/catalytic approach

The recent demand for sustainable routes to fuels and chemicals has led to an increased amount of research in conversion of natural resources. A potential approach for conversion of biomass to fuels and chemicals is to combine biochemical and chemical processes. This research used microbial fermentation to produce 2,3-butanediol, which was then converted to methyl ethyl ketone by dehydration over a solid acid catalyst. The fermentation process was performed using the bacteria Klebsiella oxytoca (K.O). 2,3-butanediol then dehydrated to form methyl ethyl ketone on a solid acid catalyst, the proton form of ZSM-5, and heat. The goal was to determine the reaction kinetics of 2,3-butanediol dehydration over ZSM-5, and to demonstrate the hybrid biochemical/thermochemical approach for synthesizing chemicals from biomass. It was found that ZSM-5 produced methyl ethyl ketone with high selectivity (greater than 90%), and could convert fermentative 2,3-butanediol to methyl ethyl ketone. The reaction order of 2,3-butanediol dehydration was found to be slightly large than one, and an activation energy of 32.3 kJ/mol was measured

A severe case of Pembrolizumab-induced triad of myasthenic crisis, myocarditis, and anti-SSA myositis

A man in his late 70s presented with one week of progressive chest and muscle pain, generalized weakness, and fatigue. He received a single infusion of pembrolizumab three weeks prior as adjuvant immunotherapy for stage IIb malignant melanoma after undergoing wide local surgical excision. He was started on steroids for pembrolizumab-induced myositis and myocarditis. Symptoms progressed to include severe dyspnea, dysphagia and eyelid ptosis requiring tracheostomy and PEG tube placement. Serologic studies ultimately confirmed myasthenia gravis and anti-SSA myositis.  He was emergently treated with plasma exchange, pyridostigmine, Intravenous Immunoglobulin (IVIG) and is making gradual improvement with physical therapy and oral prednisone taper. We report a severe case of Pembrolizumab-induced triad of myasthenic crisis, myocarditis with myositis specific anti-SSA 52kD Ab IgG autoantibody for the first time. More studies are needed to assess the clinical significance and prognostic value of this autoantibody in patients presenting with Pembrolizumab-induced triad

Economic Contribution of the Agricultural Sector to the Arkansas Economy in 2008

This report is the fifth in a series of reports examining agriculture’s economic contribution to the Arkansas economy. Utilizing data from the United States Bureau of Economic Analysis (BEA), USDA Economics Research Service (ERS), USDA National Agricultural Statistics Service (NASS), and Minnesota IMPLAN Group, Inc. (MIG), the economic contribution of agriculture on the Arkansas economy was estimated for the most recent year available, 2008. Gross Domestic Product (GDP) by State information for Arkansas was compared with those of other states in the southeast U.S. to give a measure of the relative importance of agriculture in Arkansas.2 The total economic contribution of agriculture (direct, indirect, and induced effects) on value added, employment, and labor income was estimated by employing the Impact Analysis for Planning System (IMPLAN). The economic contributions of agricultural production and processing were estimated for agriculture as a whole and also separately for the Crops Sector, the Animal Agriculture Sector, and the Forestry Secto

A diploid wheat TILLING resource for wheat functional genomics

Citation: Rawat, N., . . . & Gill, B. (2012). A diploid wheat TILLING resource for wheat functional genomics. BMC Plant Biology, 12(1), 205. https://doi.org/10.1186/1471-2229-12-205Background: Triticum monococcum L., an A genome diploid einkorn wheat, was the first domesticated crop. As a diploid, it is attractive genetic model for the study of gene structure and function of wheat-specific traits. Diploid wheat is currently not amenable to reverse genetics approaches such as insertion mutagenesis and post-transcriptional gene silencing strategies. However, TILLING offers a powerful functional genetics approach for wheat gene analysis. Results: We developed a TILLING population of 1,532 M[subscript 2] families using EMS as a mutagen. A total of 67 mutants were obtained for the four genes studied. Waxy gene mutation frequencies are known to be 1/17.6 - 34.4 kb DNA in polyploid wheat TILLING populations. The T. monococcum diploid wheat TILLING population had a mutation frequency of 1/90 kb for the same gene. Lignin biosynthesis pathway genes- COMT1, HCT2, and 4CL1 had mutation frequencies of 1/86 kb, 1/92 kb and 1/100 kb, respectively. The overall mutation frequency of the diploid wheat TILLING population was 1/92 kb. Conclusion: The mutation frequency of a diploid wheat TILLING population was found to be higher than that reported for other diploid grasses. The rate, however, is lower than tetraploid and hexaploid wheat TILLING populations because of the higher tolerance of polyploids to mutations. Unlike polyploid wheat, most mutants in diploid wheat have a phenotype amenable to forward and reverse genetic analysis and establish diploid wheat as an attractive model to study gene function in wheat. We estimate that a TILLING population of 5, 520 will be needed to get a non-sense mutation for every wheat gene of interest with 95% probability

Pan-Cancer Analysis of lncRNA Regulation Supports Their Targeting of Cancer Genes in Each Tumor Context

Long noncoding RNAs (lncRNAs) are commonly dys-regulated in tumors, but only a handful are known toplay pathophysiological roles in cancer. We inferredlncRNAs that dysregulate cancer pathways, onco-genes, and tumor suppressors (cancer genes) bymodeling their effects on the activity of transcriptionfactors, RNA-binding proteins, and microRNAs in5,185 TCGA tumors and 1,019 ENCODE assays.Our predictions included hundreds of candidateonco- and tumor-suppressor lncRNAs (cancerlncRNAs) whose somatic alterations account for thedysregulation of dozens of cancer genes and path-ways in each of 14 tumor contexts. To demonstrateproof of concept, we showed that perturbations tar-geting OIP5-AS1 (an inferred tumor suppressor) andTUG1 and WT1-AS (inferred onco-lncRNAs) dysre-gulated cancer genes and altered proliferation ofbreast and gynecologic cancer cells. Our analysis in-dicates that, although most lncRNAs are dysregu-lated in a tumor-specific manner, some, includingOIP5-AS1, TUG1, NEAT1, MEG3, and TSIX, synergis-tically dysregulate cancer pathways in multiple tumorcontexts

Pan-cancer Alterations of the MYC Oncogene and Its Proximal Network across the Cancer Genome Atlas

Although theMYConcogene has been implicated incancer, a systematic assessment of alterations ofMYC, related transcription factors, and co-regulatoryproteins, forming the proximal MYC network (PMN),across human cancers is lacking. Using computa-tional approaches, we define genomic and proteo-mic features associated with MYC and the PMNacross the 33 cancers of The Cancer Genome Atlas.Pan-cancer, 28% of all samples had at least one ofthe MYC paralogs amplified. In contrast, the MYCantagonists MGA and MNT were the most frequentlymutated or deleted members, proposing a roleas tumor suppressors.MYCalterations were mutu-ally exclusive withPIK3CA,PTEN,APC,orBRAFalterations, suggesting that MYC is a distinct onco-genic driver. Expression analysis revealed MYC-associated pathways in tumor subtypes, such asimmune response and growth factor signaling; chro-matin, translation, and DNA replication/repair wereconserved pan-cancer. This analysis reveals insightsinto MYC biology and is a reference for biomarkersand therapeutics for cancers with alterations ofMYC or the PMN

Genomic, Pathway Network, and Immunologic Features Distinguishing Squamous Carcinomas

This integrated, multiplatform PanCancer Atlas study co-mapped and identified distinguishing molecular features of squamous cell carcinomas (SCCs) from five sites associated with smokin

Spatial Organization and Molecular Correlation of Tumor-Infiltrating Lymphocytes Using Deep Learning on Pathology Images

Beyond sample curation and basic pathologic characterization, the digitized H&E-stained images of TCGA samples remain underutilized. To highlight this resource, we present mappings of tumorinfiltrating lymphocytes (TILs) based on H&E images from 13 TCGA tumor types. These TIL maps are derived through computational staining using a convolutional neural network trained to classify patches of images. Affinity propagation revealed local spatial structure in TIL patterns and correlation with overall survival. TIL map structural patterns were grouped using standard histopathological parameters. These patterns are enriched in particular T cell subpopulations derived from molecular measures. TIL densities and spatial structure were differentially enriched among tumor types, immune subtypes, and tumor molecular subtypes, implying that spatial infiltrate state could reflect particular tumor cell aberration states. Obtaining spatial lymphocytic patterns linked to the rich genomic characterization of TCGA samples demonstrates one use for the TCGA image archives with insights into the tumor-immune microenvironment