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https://www.readbyqxmd.com/read/27909932/complete-nucleotide-sequences-of-seven-soybean-mosaic-viruses-smv-isolated-from-wild-soybeans-glycine-soja-in-china
#1
Yun-Xia Chen, Mian Wu, Fang-Fang Ma, Jian-Qun Chen, Bin Wang
Soybean mosaic virus (SMV) is a devastating plant virus classified in the family Potyviridae, and known to infect cultivated soybeans (Glycine max). In this study, seven new SMVs were isolated from wild soybean samples and analyzed by whole-genome sequencing. An updated SMV phylogeny was built with the seven new and 83 known SMV genomic sequences. Results showed that three northeastern SMV isolates were distributed in clade III and IV, while four southern SMVs were grouped together in clade II and all contained a recombinant BCMV fragment (~900 bp) in the upstream part of the genome...
December 1, 2016: Archives of Virology
https://www.readbyqxmd.com/read/27909912/identification-and-characterization-of-the-lysine-rich-matrix-protein-family-in-pinctada-fucata-indicative-of-roles-in-shell-formation
#2
Jian Liang, Jun Xie, Jing Gao, Chao-Qun Xu, Yi Yan, Gan-Chu Jia, Liang Xiang, Li-Ping Xie, Rong-Qing Zhang
Mantle can secret matrix proteins playing key roles in regulating the process of shell formation. The genes encoding lysine-rich matrix proteins (KRMPs) are one of the most highly expressed matrix genes in pearl oysters. However, the expression pattern of KRMPs is limited and the functions of them still remain unknown. In this study, we isolated and identified six new members of lysine-rich matrix proteins, rich in lysine, glycine and tyrosine, and all of them are basic matrix proteins. Combined with four members of the KRMPs previously reported, all these proteins can be divided into three subclasses according to the results of phylogenetic analyses: KRMP1-3 belong to subclass KPI, KRMP4-5 belong to KPII, and KRMP6-10 belong to KPIII...
December 2, 2016: Marine Biotechnology
https://www.readbyqxmd.com/read/27909292/crystal-structures-of-the-tric-trimeric-intracellular-cation-channel-orthologues
#3
Go Kasuya, Masahiro Hiraizumi, Andrés D Maturana, Kaoru Kumazaki, Yuichiro Fujiwara, Keihong Liu, Yoshiko Nakada-Nakura, So Iwata, Keisuke Tsukada, Tomotaka Komori, Sotaro Uemura, Yuhei Goto, Takanori Nakane, Mizuki Takemoto, Hideaki E Kato, Keitaro Yamashita, Miki Wada, Koichi Ito, Ryuichiro Ishitani, Motoyuki Hattori, Osamu Nureki
Ca(2+) release from the sarcoplasmic reticulum (SR) and endoplasmic reticulum (ER) is crucial for muscle contraction, cell growth, apoptosis, learning and memory. The trimeric intracellular cation (TRIC) channels were recently identified as cation channels balancing the SR and ER membrane potentials, and are implicated in Ca(2+) signaling and homeostasis. Here we present the crystal structures of prokaryotic TRIC channels in the closed state and structure-based functional analyses of prokaryotic and eukaryotic TRIC channels...
December 2016: Cell Research
https://www.readbyqxmd.com/read/27909247/integration-of-transmembrane-domains-is-regulated-by-their-downstream-sequences
#4
Tina Junne, Martin Spiess
The Sec61 translocon catalyzes translocation of proteins into the endoplasmic reticulum and the lateral integration of transmembrane segments into the lipid bilayer. Integration is mediated by the hydrophobicity of a polypeptide segment consistent with thermodynamic equilibration between the translocon and the lipid membrane. Integration efficiency of a generic series of increasingly hydrophobic sequences (H-segments) was found to diverge significantly in different reporter constructs as a function of the ∼100 residues carboxyterminal of the H-segments...
December 1, 2016: Journal of Cell Science
https://www.readbyqxmd.com/read/27908452/kinetics-and-mechanisms-of-nitrate-and-ammonium-formation-during-ozonation-of-dissolved-organic-nitrogen
#5
Glen Andrew de Vera, Wolfgang Gernjak, Howard Weinberg, Maria José Farré, Jurg Keller, Urs von Gunten
Dissolved organic nitrogen (DON) is an emerging concern in oxidative water treatment because it exerts oxidant demand and may form nitrogenous oxidation/disinfection by-products. In this study, we investigated the reactions of ozone with DON with a special emphasis on the formation of nitrate (NO3(-)) and ammonium (NH4(+)). In batch ozonation experiments, the formation of NO3(-) and NH4(+) was investigated for natural organic matter standards, surface water, and wastewater effluent samples. A good correlation was found between NO3(-) formation and the O3 exposure (R(2) > 0...
October 8, 2016: Water Research
https://www.readbyqxmd.com/read/27907139/contribution-towards-a-metabolite-profile-of-the-detoxification-of-benzoic-acid-through-glycine-conjugation-an-intervention-study
#6
Cindy Irwin, Mari van Reenen, Shayne Mason, Lodewyk J Mienie, Johan A Westerhuis, Carolus J Reinecke
Benzoic acid is widely used as a preservative in food products and is detoxified in humans through glycine conjugation. Different viewpoints prevail on the physiological significance of the glycine conjugation reaction and concerns have been raised on potential public health consequences following uncontrolled benzoic acid ingestion. We performed a metabolomics study which used commercial benzoic acid containing flavored water as vehicle for designed interventions, and report here on the controlled consumption of the benzoic acid by 21 cases across 6 time points for a total of 126 time points...
2016: PloS One
https://www.readbyqxmd.com/read/27907068/investigating-the-influence-of-mos2-nanosheets-on-e-coli-from-metabolomics-level
#7
Na Wu, Yadong Yu, Tao Li, Xiaojun Ji, Ling Jiang, Jiajun Zong, He Huang
Molybdenum disulfide, a type of two-dimensional layered material with unique properties, has been widely used in many fields. However, an exact understanding of its toxicity remains elusive, let alone its effects on the environmental microbial community. In this study, we utilized metabolomics technology to explore the effects of different concentrations of molybdenum disulfide nanosheets on Escherichia coli for the first time. The results showed that with increasing concentration of molybdenum disulfide nanosheets, the survival rate of Escherichia coli was decreased and the release of lactic dehydrogenase was increased...
2016: PloS One
https://www.readbyqxmd.com/read/27904938/peptide-based-fluorescence-biosensors-for-detection-measurement-of-nanoparticles
#8
Oluyemi Akinloye, Ramanarayan Krishnamurthy, David Wishart, Greg G Goss
The ability to detect and quantify nanoparticles is essential but there is currently no simple, sensitive, and rapid method for the detection of nanomaterials. We have developed a novel peptide-based fluorescence-based biosensor for detection and measurement of negatively charged engineered nanoparticles (ENPs). A peptide biosensor (seven lysine residues linked to a cysteine through a three glycine residue linker) with attached fluorescent probes-fluorescein-5-maleimide (F5M) and tetramethylrhodamine-5-maleimide (TMR5M)-was constructed...
November 30, 2016: Analytical and Bioanalytical Chemistry
https://www.readbyqxmd.com/read/27904456/methylome-analysis-of-two-xanthomonas-spp-using-single-molecule-real-time-sequencing
#9
Hoon Je Seong, Hye-Jee Park, Eunji Hong, Sung Chul Lee, Woo Jun Sul, Sang-Wook Han
Single-molecule real-time (SMRT) sequencing allows identification of methylated DNA bases and methylation patterns/motifs at the genome level. Using SMRT sequencing, diverse bacterial methylomes including those of Helicobacter pylori, Lactobacillus spp., and Escherichia coli have been determined, and previously unreported DNA methylation motifs have been identified. However, the methylomes of Xanthomonas species, which belong to the most important plant pathogenic bacterial genus, have not been documented. Here, we report the methylomes of Xanthomonas axonopodis pv...
December 2016: Plant Pathology Journal
https://www.readbyqxmd.com/read/27903101/d-cycloserine-an-nmda-glutamate-receptor-glycine-site-partial-agonist-induces-acute-increases-in-brain-glutamate-plus-glutamine-and-gaba-comparable-to-ketamine
#10
Joshua T Kantrowitz, Matthew S Milak, Xiangling Mao, Dikoma C Shungu, J John Mann
No abstract text is available yet for this article.
December 1, 2016: American Journal of Psychiatry
https://www.readbyqxmd.com/read/27902216/flavobacterium-gilvum-sp-nov-isolated-from-stream-water
#11
Su-Kyoung Shin, Yongheon Ha, Yong-Joon Cho, Soonsung Kwon, Dongeun Yong, Hana Yi
A cream-colored, non-gliding, aerobic Flavobacterium strain, designated EM1308T, was isolated from stream water. Gene sequence analysis of the 16S rRNA indicated that this isolate is closely related to Flavobacterium glycines NBRC 105008T (97.3 %) and Flavobacterium piscis CCUG 60099T (97.2 %). To evaluate the genomic relatedness of the isolate with its neighbors, the whole genome sequences of strain EM1308T and type strains of F. glycines and F. piscis were determined. The average nucleotide identities revealed that strain EM1308T is independent from other Flavobacterium species...
October 21, 2016: International Journal of Systematic and Evolutionary Microbiology
https://www.readbyqxmd.com/read/27902211/flavobacterium-eburneum-sp-nov-isolated-from-reclaimed-saline-land-soil
#12
Woon Mo Hwang, Dohak Kim, Keunsoo Kang, Tae-Young Ahn
A novel Gram-stain-negative, motile by gliding, and aerobic bacterial strain, designated SA31T, was isolated from reclaimed saline land soil near a lake in Taean-gun, South Korea. Cells of the isolate formed ivory-colored colonies. Growth occurred at 10-35 ºC (optimum 25-30 ºC), pH 6.0-9.0 (optimum pH 7.0-7.5), and 0-2.0 % (w/v) NaCl (optimum 0 %). Based on similarities of 16S rRNA gene sequences, strain SA31T was mostly affiliated with the genus Flavobacterium, exhibiting the highest sequence similarities with Flavobacterium palustre S44T (96...
October 12, 2016: International Journal of Systematic and Evolutionary Microbiology
https://www.readbyqxmd.com/read/27901474/cerebellar-neurochemical-and-histopathological-changes-in-rat-model-of-parkinson-s-disease-induced-by-intrastriatal-injection-of-rotenone
#13
Yasser A Khadrawy, Iman M Mourad, Haitham S Mohammed, Neveen A Noor, Heba S Aboul Ezz
The aim of the present work was to investigate the neurochemical changes induced in the cerebellum of rat model of Parkinson's disease (PD). Rats were divided into two groups; control and rat model of PD induced by the intrastriatal injection of rotenone. As compared to control, a significant increase in the excitatory amino acid neurotransmitters; glutamate and aspartate together with a significant decrease in the inhibitory amino acids, GABA, glycine and taurine were observed in the cerebellum of rat model of PD...
November 30, 2016: General Physiology and Biophysics
https://www.readbyqxmd.com/read/27901317/dendrimer-stabilized-gold-nanostars-as-a-multifunctional-theranostic-nanoplatform-for-ct-imaging-photothermal-therapy-and-gene-silencing-of-tumors
#14
Ping Wei, Jingwen Chen, Yong Hu, Xin Li, Han Wang, Mingwu Shen, Xiangyang Shi
Development of versatile nanomaterials combining diagnostic and therapeutic functionalities within one single nanoplatform is extremely important for tumor theranostics. In this work, the authors report the synthesis of a gold nanostar (Au NS)-based theranostic platform stabilized with cyclic arginine-glycine-aspartic (Arg-Gly-Asp, RGD) peptide-modified amine-terminated generation 3 poly(amidoamine) dendrimers. The formed RGD-modified dendrimer-stabilized Au NSs (RGD-Au DSNSs) are used as a gene delivery vector to complex small interfering RNA (siRNA) for computed tomography (CT) imaging, thermal imaging, photothermal therapy (PTT), and gene therapy of tumors...
November 30, 2016: Advanced Healthcare Materials
https://www.readbyqxmd.com/read/27901057/digital-gene-expression-profiling-analysis-of-duodenum-transcriptomes-in-sd-rats-administered-ferrous-sulfate-or-ferrous-glycine-chelate-by-gavage
#15
Zhao Zhuo, Shenglin Fang, Qiaoling Hu, Danping Huang, Jie Feng
The absorption of different iron sources is a trending research topic. Many studies have revealed that organic iron exhibits better bioavailability than inorganic iron, but the concrete underlying mechanism is still unclear. In the present study, we examined the differences in bioavailability of ferrous sulfate and ferrous glycinate in the intestines of SD rats using Illumina sequencing technology. Digital gene expression analysis resulted in the generation of almost 128 million clean reads, with expression data for 17,089 unigenes...
November 30, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27900719/changes-of-soil-bacterial-activities-and-functions-after-different-n-additions-in-a-temperate-forest
#16
Peng Guo, Tiwen Han, Li Zhang, Shushan Li, Dongzhu Ma, Yuhan Du
It has been shown that different nitrogen (N) addition led to various influences on soil microbial activities in forest ecosystems; however, the changes of bacteria were still unclear. In this work, inorganic N (NH4NO3) and organic N (urea and glycine) were fertilized with different ratios (5:0, 1:4, 3:2, 2:3, and 1:4) on temperate forest soils, while fungicide (cycloheximide) was simultaneously added on half of each treatment to inhibit fungal activities (leaving only bacteria). After a 3-year field experiment, soil samples were harvested, then microbial enzymatic activities involved in carbon (C), and N and phosphorus (P) cycles were determined...
November 30, 2016: Environmental Science and Pollution Research International
https://www.readbyqxmd.com/read/27900236/identification-of-two-sulfated-cholesterol-metabolites-found-in-the-urine-of-a-patient-with-niemann-pick-disease-type-c-as-novel-candidate-diagnostic-markers
#17
Masamitsu Maekawa, Kaoru Omura, Shoutaro Sekiguchi, Takashi Iida, Daisuke Saigusa, Hiroaki Yamaguchi, Nariyasu Mano
In the urine of a Niemann-Pick disease type C (NPC) patient, we have identified three characteristic intense peaks that have not been observed in the urine of a 3β-hydroxysteroid-Δ(5)-C27-steroid dehydrogenase deficiency patient or a healthy infant and adult. Based on accurate masses of the protonated molecules, we focused on two of them as candidate NPC diagnostic markers. Two synthesized authentic preparations agreed with the two compounds found in NPC patient urine in regard to both chromatographic behavior and accurate masses of the deprotonated molecules...
2016: Mass Spectrometry
https://www.readbyqxmd.com/read/27897211/structural-insight-for-chain-selection-and-stagger-control-in-collagen
#18
Sergei P Boudko, Hans Peter Bächinger
Collagen plays a fundamental role in all known metazoans. In collagens three polypeptides form a unique triple-helical structure with a one-residue stagger to fit every third glycine residue in the inner core without disturbing the poly-proline type II helical conformation of each chain. There are homo- and hetero-trimeric types of collagen consisting of one, two or three distinct chains. Thus there must be mechanisms that control composition and stagger during collagen folding. Here, we uncover the structural basis for both chain selection and stagger formation of a collagen molecule...
November 29, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27896396/metabolic-profiling-of-ob-ob-mouse-fatty-liver-using-hr-mas-1-h-nmr-combined-with-gene-expression-analysis-reveals-alterations-in-betaine-metabolism-and-the-transsulfuration-pathway
#19
Mikheil Gogiashvili, Karolina Edlund, Kathrin Gianmoena, Rosemarie Marchan, Alexander Brik, Jan T Andersson, Jörg Lambert, Katrin Madjar, Birte Hellwig, Jörg Rahnenführer, Jan G Hengstler, Roland Hergenröder, Cristina Cadenas
Metabolic perturbations resulting from excessive hepatic fat accumulation are poorly understood. Thus, in this study, leptin-deficient ob/ob mice, a mouse model of fatty liver disease, were used to investigate metabolic alterations in more detail. Metabolites were quantified in intact liver tissues of ob/ob (n = 8) and control (n = 8) mice using high-resolution magic angle spinning (HR-MAS) (1)H-NMR. In addition, after demonstrating that HR-MAS (1)H-NMR does not affect RNA integrity, transcriptional changes were measured by quantitative real-time PCR on RNA extracted from the same specimens after HR-MAS (1)H-NMR measurements...
November 28, 2016: Analytical and Bioanalytical Chemistry
https://www.readbyqxmd.com/read/27895477/noninvasive-monitoring-of-early-antiangiogenic-therapy-response-in-human-nasopharyngeal-carcinoma-xenograft-model-using-mri-with-rgd-conjugated-ultrasmall-superparamagnetic-iron-oxide-nanoparticles
#20
Yanfen Cui, Caiyuan Zhang, Ran Luo, Huanhuan Liu, Zhongyang Zhang, Tianyong Xu, Yong Zhang, Dengbin Wang
PURPOSE: Arginine-glycine-aspartic acid (RGD)-based nanoprobes allow specific imaging of integrin αvβ3, a protein overexpressed during angiogenesis. Therefore, this study applied a novel RGD-coupled, polyacrylic acid (PAA)-coated ultrasmall superparamagnetic iron oxide (USPIO) (referred to as RGD-PAA-USPIO) in order to detect tumor angiogenesis and assess the early response to antiangiogenic treatment in human nasopharyngeal carcinoma (NPC) xenograft model by magnetic resonance imaging (MRI)...
2016: International Journal of Nanomedicine
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