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https://www.readbyqxmd.com/read/27913218/methylotrophic-yeast-pichia-pastoris-as-a-chassis-organism-for-polyketide-synthesis-via-the-full-citrinin-biosynthetic-pathway
#1
Ying Xue, Chuixing Kong, Wei Shen, Chenxiao Bai, Yanna Ren, Xiangshan Zhou, Yuanxing Zhang, Menghao Cai
With the rapid development of synthetic biology, exploring various chassis organisms has become necessary to improve the heterologous biosynthesis of natural products and pharmaceuticals. In this study, we tested the potential of the industrial methylotrophic yeast strain Pichia pastoris for the heterologous synthesis of polyketides. A recombinant P. pastoris GS-pksCT-npgA carrying the Monascus purpureus citrinin polyketide synthase gene pksCT and the Aspergillus nidulans phosphopantetheinyl transferase gene npgA was constructed...
November 29, 2016: Journal of Biotechnology
https://www.readbyqxmd.com/read/27913184/tolerance-of-hyperammonemia-in-brain-of-heteropneustes-fossilis-is-supported-by-glutamate-glutamine-cycle
#2
Suman Mishra, Rajnikant Mishra
This report presents analysis of molecular switches associated with tolerance to hyperammonemia in Heteropneustes fossilis because it tolerates about 100-fold more ammonia than mammals. Brains of Heteropneustes fossilis exposed to 100mM ammonium chloride were dissected after Zero hour as control, 16hrs and 20hrs exposure. The status of neuron and glia were analysed by Golgi staining, Luxol Fast Blue, and Nissl's staining. The expression patterns of genes associated to homeostasis of neuron and glia, management of oxidative stress and inflammation, ammonia metabolism and brain derived neurotrophic factor were analysed through reverse-transcriptase-polymerase chain reaction...
November 29, 2016: Journal of Chemical Neuroanatomy
https://www.readbyqxmd.com/read/27911652/trueness-and-minimal-detectable-change-of-smartphone-inclinometer-measurements-of-shoulder-range-of-motion
#3
Patrick Boissy, Serigne Diop-Fallou, Karina Lebel, Mikael Bernier, Frederic Balg, Yanick Tousignant-Laflamme
BACKGROUND: Digital inclinometer applications using data from embedded sensors on smartphone/multi-purpose pocket computers or "smart digital inclinometers" (SDIs) are now used to clinically assess range of motion (ROM). OBJECTIVES: The objectives of this study were to assess, compared with a biomechanical gold standard (GS), the trueness and minimal detectable change (MDC) of shoulder range of motion (SROM) measurements obtained from an SDI. METHODS: Twenty-five (n = 25) asymptomatic healthy participants performed three trials of shoulder flexion (SF), shoulder abduction (SA), and shoulder external rotation (SER) at full-range and mid-range...
December 2, 2016: Telemedicine Journal and E-health: the Official Journal of the American Telemedicine Association
https://www.readbyqxmd.com/read/27910540/the-thomson-scattering-system-at-wendelstein-7-x
#4
E Pasch, M N A Beurskens, S A Bozhenkov, G Fuchert, J Knauer, R C Wolf
This paper describes the design of the Thomson scattering system at the Wendelstein 7-X stellarator. For the first operation campaign we installed a 10 spatial channel system to cover a radial half profile of the plasma cross section. The start-up system is based on one Nd:YAG laser with 10 Hz repetition frequency, one observation optics, five fiber bundles with one delay line each, and five interference filter polychromators with five spectral channels and silicon avalanche diodes as detectors. High dynamic range analog to digital converters with 14 bit, 1 GS/s are used to digitize the signals...
November 2016: Review of Scientific Instruments
https://www.readbyqxmd.com/read/27908836/gq-and-gs-signaling-acting-in-synergy-to-control-glp-1-secretion
#5
Maria Hauge, Jeppe Pio Ekberg, Maja Storm Engelstoft, Pascal Timshel, Andreas N Madsen, Thue W Schwartz
GPR40 is generally known to signal through Gq. However, in transfected cells, certain synthetic agonists can make the receptor signal also through Gs and cAMP (Hauge et al., 2015). Here we find that, in colonic crypt cultures, the GLP-1 secretion induced by such Gq + Gs GPR40 agonists is indeed inhibited by blockers of both Gq and Gs and is eliminated by combining these. This in contrast to Gq-only GPR40 agonists which only are affected by the Gq inhibitor. Importantly, Gq-only GPR40 agonists in combination with low doses of selective synthetic agonists for Gs coupled receptors, e...
November 28, 2016: Molecular and Cellular Endocrinology
https://www.readbyqxmd.com/read/27907889/denovo-db-a-compendium-of-human-de-novo-variants
#6
Tychele N Turner, Qian Yi, Niklas Krumm, John Huddleston, Kendra Hoekzema, Holly A F Stessman, Anna-Lisa Doebley, Raphael A Bernier, Deborah A Nickerson, Evan E Eichler
Whole-exome and whole-genome sequencing have facilitated the large-scale discovery of de novo variants in human disease. To date, most de novo discovery through next-generation sequencing focused on congenital heart disease and neurodevelopmental disorders (NDDs). Currently, de novo variants are one of the most significant risk factors for NDDs with a substantial overlap of genes involved in more than one NDD. To facilitate better usage of published data, provide standardization of annotation, and improve accessibility, we created denovo-db (http://denovo-db...
October 5, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27904705/paclitaxel-suppresses-collagen-induced-arthritis-a-reevaluation
#7
Yi Zhao, Zhi-Fang Chang, Ru Li, Zhan-Guo Li, Xiao-Xia Li, Lin Li
OBJECTIVE: To reevaluate the suppressive effect of paclitaxel (PTX) liposome on collagen-induced arthritis (CIA) in rats and explore its mechanisms. METHODS: Female Lewis rats were immunized with bovine type II collagen (CII) to induce arthritis. The rats with CIA were randomly divided into three groups: 5% GS control group, 2.5 mg/kg PTX treatment group and 1 mg/kg methotrexate (MTX) positive control group. The drugs were administered by intraperitoneal injection on the second day after arthritis onset...
2016: American Journal of Translational Research
https://www.readbyqxmd.com/read/27904455/profiling-of-disease-related-metabolites-in-grapevine-internode-tissues-infected-with-agrobacterium-vitis
#8
Sung-Min Jung, Youn-Young Hur, John E Preece, Oliver Fiehn, Young-Ho Kim
Green shoot cuttings of 10 different grapevine species were inoculated with Agrobacterium vitis to find disease-related metabolites in the grapevine. Crown galls formed 60 days after inoculation varied in gall severity (GS) evaluated by gall incidence (GI) and gall diameter (GD), which were classified into three response types as RR (low GI and small GD), SR (high GI and small GD), and SS (high GI and large GD), corresponding to resistant, moderately resistant, and susceptible responses, respectively. In this, 4, 4, and 2 Vitis species were classified into RR, SR, and SS, respectively...
December 2016: Plant Pathology Journal
https://www.readbyqxmd.com/read/27903632/genomic-prediction-with-pedigree-and-genotype-%C3%A3-environment-interaction-in-spring-wheat-grown-in-south-and-west-asia-north-africa-and-mexico
#9
Sivakumar Sukumaran, Jose Crossa, Diego Jarquin, Marta Lopes, Mathew P Reynolds
Developing genomic selection (GS) models is an important step in applying GS to accelerate the rate of genetic gain in grain yield in plant breeding. In this study, seven genomic prediction models under two cross-validation scenarios were tested on 287 advanced elite spring wheat lines phenotyped for grain yield (GY), thousand-grain weight (GW), grain number (GN), and thermal time for flowering (TTF) in 18 international environments (year-location combinations) in major wheat producing countries in 2010 and 2011...
November 30, 2016: G3: Genes—Genomes—Genetics
https://www.readbyqxmd.com/read/27902799/genomic-prediction-of-genotype-%C3%A3-environment-interaction-kernel-regression-models
#10
Jaime Cuevas, José Crossa, Víctor Soberanis, Sergio Pérez-Elizalde, Paulino Pérez-Rodríguez, Gustavo de Los Campos, O A Montesinos-López, Juan Burgueño
In genomic selection (GS), genotype × environment interaction (G × E) can be modeled by a marker × environment interaction (M × E). The G × E may be modeled through a linear kernel or a nonlinear (Gaussian) kernel. In this study, we propose using two nonlinear Gaussian kernels: the reproducing kernel Hilbert space with kernel averaging (RKHS KA) and the Gaussian kernel with the bandwidth estimated through an empirical Bayesian method (RKHS EB). We performed single-environment analyses and extended to account for G × E interaction (GBLUP-G × E, RKHS KA-G × E and RKHS EB-G × E) in wheat ( L...
November 2016: Plant Genome
https://www.readbyqxmd.com/read/27902790/accuracy-of-genomic-prediction-in-a-commercial-perennial-ryegrass-breeding-program
#11
Dario Fè, Bilal H Ashraf, Morten G Pedersen, Luc Janss, Stephen Byrne, Niels Roulund, Ingo Lenk, Thomas Didion, Torben Asp, Christian S Jensen, Just Jensen
The implementation of genomic selection (GS) in plant breeding, so far, has been mainly evaluated in crops farmed as homogeneous varieties, and the results have been generally positive. Fewer results are available for species, such as forage grasses, that are grown as heterogenous families (developed from multiparent crosses) in which the control of the genetic variation is far more complex. Here we test the potential for implementing GS in the breeding of perennial ryegrass ( L.) using empirical data from a commercial forage breeding program...
November 2016: Plant Genome
https://www.readbyqxmd.com/read/27902339/progressive-glycosylation-of-the-hemagglutinin-of-avian-influenza-h5n1-modulates-virus-replication-virulence-and-chicken-to-chicken-transmission-without-significant-impact-on-antigenic-drift
#12
El-Sayed M Abdelwhab, Jutta Veits, Kerstin Tauscher, Mario Ziller, Christian Grund, Mohamed K Hassan, Momtaz Shaheen, Timm C Harder, Jens P Teifke, Jürgen Stech, Thomas C Mettenleiter
Highly pathogenic H5N1 avian influenza virus (A/H5N1) devastated the poultry industry and continues to pose a pandemic threat. Studying the progressive genetic changes in A/H5N1 after long term circulation in poultry may help to better understand A/H5N1 biology in birds. A/H5N1 clade 2.2.1.1 antigenic drift viruses have been isolated from vaccinated commercial poultry in Egypt. They exhibit a peculiar stepwise accumulation of glycosylation sites (GS) in the hemagglutinin (HA) with viruses carrying, beyond the conserved 5 GS, additional GS at amino acid residues 72, 154, 236 and 273 resulting in 6, 7, 8 or 9 GS in the HA...
October 28, 2016: Journal of General Virology
https://www.readbyqxmd.com/read/27899644/the-dbgap-data-browser-a-new-tool-for-browsing-dbgap-controlled-access-genomic-data
#13
Kira M Wong, Kristofor Langlais, Geoffrey S Tobias, Colette Fletcher-Hoppe, Donna Krasnewich, Hilary S Leeds, Laura Lyman Rodriguez, Georgy Godynskiy, Valerie A Schneider, Erin M Ramos, Stephen T Sherry
The database of Genotypes and Phenotypes (dbGaP) Data Browser (https://www.ncbi.nlm.nih.gov/gap/ddb/) was developed in response to requests from the scientific community for a resource that enable view-only access to summary-level information and individual-level genotype and sequence data associated with phenotypic features maintained in the controlled-access tier of dbGaP. Until now, the dbGaP controlled-access environment required investigators to submit a data access request, wait for Data Access Committee review, download each data set and locally examine them for potentially relevant information...
November 29, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27898832/genome-wide-association-and-prediction-reveals-genetic-architecture-of-cassava-mosaic-disease-resistance-and-prospects-for-rapid-genetic-improvement
#14
Marnin D Wolfe, Ismail Y Rabbi, Chiedozie Egesi, Martha Hamblin, Robert Kawuki, Peter Kulakow, Roberto Lozano, Dunia Pino Del Carpio, Punna Ramu, Jean-Luc Jannink
C ( Crantz) is a crucial, under-researched crop feeding millions worldwide, especially in Africa. Cassava mosaic disease (CMD) has plagued production in Africa for over a century. Biparental mapping studies suggest primarily a single major gene mediates resistance. To investigate this genetic architecture, we conducted the first genome-wide association mapping study in cassava with up to 6128 genotyping-by-sequenced African breeding lines and 42,113 reference genome-mapped single-nucleotide polymorphism (SNP) markers...
July 2016: Plant Genome
https://www.readbyqxmd.com/read/27898822/genomic-prediction-of-manganese-efficiency-in-winter-barley
#15
Florian Leplat, Just Jensen, Per Madsen
Manganese efficiency is a quantitative abiotic stress trait controlled by several genes each with a small effect. Manganese deficiency leads to yield reduction in winter barley ( L.). Breeding new cultivars for this trait remains difficult because of the lack of visual symptoms and the polygenic features of the trait. Hence, Mn efficiency is a potential suitable trait for a genomic selection (GS) approach. A collection of 248 winter barley varieties was screened for Mn efficiency using Chlorophyll (Chl ) fluorescence in six environments prone to induce Mn deficiency...
July 2016: Plant Genome
https://www.readbyqxmd.com/read/27898810/genomic-selection-for-processing-and-end-use-quality-traits-in-the-cimmyt-spring-bread-wheat-breeding-program
#16
Sarah D Battenfield, Carlos Guzmán, R Chris Gaynor, Ravi P Singh, Roberto J Peña, Susanne Dreisigacker, Allan K Fritz, Jesse A Poland
Wheat ( L.) cultivars must possess suitable end-use quality for release and consumer acceptability. However, breeding for quality traits is often considered a secondary target relative to yield largely because of amount of seed needed and expense. Without testing and selection, many undesirable materials are advanced, expending additional resources. Here, we develop and validate whole-genome prediction models for end-use quality phenotypes in the CIMMYT bread wheat breeding program. Model accuracy was tested using forward prediction on breeding lines ( = 5520) tested in unbalanced yield trials from 2009 to 2015 at Ciudad Obregon, Sonora, Mexico...
July 2016: Plant Genome
https://www.readbyqxmd.com/read/27898764/genetic-gain-and-inbreeding-from-genomic-selection-in-a-simulated-commercial-breeding-program-for-perennial-ryegrass
#17
Zibei Lin, Noel O I Cogan, Luke W Pembleton, German C Spangenberg, John W Forster, Ben J Hayes, Hans D Daetwyler
Genomic selection (GS) provides an attractive option for accelerating genetic gain in perennial ryegrass () improvement given the long cycle times of most current breeding programs. The present study used simulation to investigate the level of genetic gain and inbreeding obtained from GS breeding strategies compared with traditional breeding strategies for key traits (persistency, yield, and flowering time). Base population genomes were simulated through random mating for 60,000 generations at an effective population size of 10,000...
March 2016: Plant Genome
https://www.readbyqxmd.com/read/27897252/soil-respiration-and-its-environmental-response-varies-by-day-night-and-by-growing-dormant-season-in-a-subalpine-forest
#18
Zongda Hu, Shirong Liu, Xingliang Liu, Liyong Fu, Jingxin Wang, Kuan Liu, Xueman Huang, Yuandong Zhang, Fei He
Comparisons of soil respiration (RS) and its components of heterotrophic (RH) and rhizospheric (RR) respiration during daytime and nighttime, growing (GS) and dormant season (DS), have not being well studied and documented. In this study, we compared RS, RH, RR, and their responses to soil temperature (T5) and moisture (θ5) in daytime vs. nighttime and GS vs. DS in a subalpine forest in 2011. In GS, nighttime RS and RH rates were 30.5 ± 4.4% (mean ± SE) and 30.2 ± 6.5% lower than in daytime, while in DS, they were 35...
November 29, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27896617/comprehensive-dna-methylation-and-mutation-analyses-reveal-a-methylation-signature-in-colorectal-sessile-serrated-adenomas
#19
Árpád V Patai, Barbara Kinga Barták, Bálint Péterfia, Tamás Micsik, Réka Horváth, Csaba Sumánszki, Zoltán Péter, Árpád Patai, Gábor Valcz, Alexandra Kalmár, Kinga Tóth, Tibor Krenács, Zsolt Tulassay, Béla Molnár
Colorectal sessile serrated adenomas (SSA) are hypothesized to be precursor lesions of an alternative, serrated pathway of colorectal cancer, abundant in genes with aberrant promoter DNA hypermethylation. In our present pilot study, we explored DNA methylation profiles and examined selected gene mutations in SSA. Biopsy samples from patients undergoing screening colonoscopy were obtained during endoscopic examination. After DNA isolation and quality analysis, SSAs (n = 4) and healthy controls (n = 5) were chosen for further analysis...
November 29, 2016: Pathology Oncology Research: POR
https://www.readbyqxmd.com/read/27896069/evaluation-of-de-novo-assembly-technique-in-the-south-african-abalone-haliotis-midae-transcriptome-a-comparison-from-illumina-and-454-systems
#20
Barbara Picone, Clint Rhode, Rouvay Roodt-Wilding
Next generation sequencing platforms have recently been used to rapidly characterize transcriptome sequences from a number of non-model organisms. The present study compares two of the most frequently used platforms, the Roche 454-pyrosequencing and the Illumina sequencing-by-synthesis (SBS), on the same RNA sample obtained from an intertidal gastropod mollusc species, Haliotis midae. All the sequencing reads were deposited in the Short Read Archive (SRA) database are retrievable under the accession number [SRR071314 (Illumina Genome Analyzer II)] and [SRR1737738, SRR1737737, SRR1737735, SRR1737734 (454 GS FLX)] in the SRA database of NCBI...
December 2016: Genomics Data
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