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https://www.readbyqxmd.com/read/28441853/-differentially-expressed-genes-analysis-in-expression-profile-data-of-pulmonary-fibrosis-with-pulmonary-hypertension
#1
R Miao, D Leng, Y Wang, J F Li, J N Gong, Y Liang, Y H Yang
Objective: To analyze the differential gene expression of patients with idiopathic pulmonary fibrosis and pulmonary hypertension (IPF-PH). Methods: The expression profile data of GSE15197 was downloaded from the Gene Expression Omnibus (GEO) database. Bonferroni algorithm was used to identify the differentially expressed genes of pulmonary tissues from IPF-PH, idiopathic pulmonary arterial hypertension (IPAH) and Normal groups. Principal component analysis was used to extract the principal components of three types of samples and differentially expressed genes were obtained...
April 25, 2017: Zhonghua Yi Xue za Zhi [Chinese medical journal]
https://www.readbyqxmd.com/read/28440329/role-of-the-virulence-plasmid-in-acid-resistance-of-shigella-flexneri
#2
Chang Niu, Jing Yang, Hongsheng Liu, Yong Cui, Huijie Xu, Ruifeng Wang, Xiankai Liu, Erling Feng, Dongshu Wang, Chao Pan, Wei Xiao, Xiaoqing Liu, Li Zhu, Hengliang Wang
Virulence plasmid (VP) acquisition was a key step in the evolution of Shigella from a non-pathogenic Escherichia coli ancestor to a pathogenic genus. In addition, the co-evolution and co-ordination of chromosomes and VPs was also a very important step in the evolutionary process. To investigate the cross-talk between VPs and bacterial chromosomes, we analyzed the expression profiles of protein complexes and protein monomers in three wild-type Shigella flexneri strains and their corresponding VP deletion mutants...
April 25, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28439295/production-of-high-concentration-n-caproic-acid-from-lactate-through-fermentation-using-a-newly-isolated-ruminococcaceae-bacterium-cpb6
#3
Xiaoyu Zhu, Yan Zhou, Yi Wang, Tingting Wu, Xiangzhen Li, Daping Li, Yong Tao
BACKGROUND: n-Caproic acid (CA), as a medium-chain carboxylic acid, is a valuable chemical feedstock for various industrial applications. The fermentative production of CA from renewable carbon sources has attracted a lot of attentions. Lactate is a significant intermediate waste in the anaerobic breakdown of carbohydrates that comprise 18-70% of the chemical oxygen demand (COD) in municipal and some industrial wastewaters. Recently, researchers (including our own group) reported the CA production using lactate as electron donor with newly identified microbiome systems...
2017: Biotechnology for Biofuels
https://www.readbyqxmd.com/read/28438686/expression-purification-and-molecular-characterization-of-a-novel-endoglucanase-protein-from-bacillus-subtilis-sb13
#4
Xuefang Guan, Penglian Chen, Qingxian Xu, Lei Qian, Juqing Huang, Bin Lin
Bacillus subtilis strain SB13 which is isolated in our previous work was confirmed to produce endoglucanase. In this study, a novel endoglucanase gene (accession number: KX576676) was identified and cloned from SB13. Compared with other consensus sequence of reported endoglucanase genes in the GenBank database, this gene displays five differences (including T740C,A874G,A983G, T1210G and T1301C), which leading to five amino acid changes. Homology modeling has indicated that these five changes were located in the α-helix and random coil regions of the glycosyl hydrolase family 5 (GH5) domain, the random coil and β-sandwich of the type 3 carbohydrate-binding module (CBM3) domain, and the random coil domain...
April 21, 2017: Protein Expression and Purification
https://www.readbyqxmd.com/read/28438671/alkaline-ph-induces-irr-mediated-phosphorylation-of-irs-1-and-actin-cytoskeleton-remodeling-in-a-pancreatic-beta-cell-line
#5
Igor E Deyev, Nadezhda V Popova, Oxana V Serova, Svetlana V Zhenilo, Marì Regoli, Eugenio Bertelli, Alexander G Petrenko
Secretion of mildly alkaline (pH 8.0-8.5) juice to intestines is one of the key functions of the pancreas. Recent reports indicate that the pancreatic duct system containing the alkaline juice may adjoin the endocrine cells of pancreatic islets. We have previously identified the insulin receptor-related receptor (IRR) that is expressed in islets as a sensor of mildly alkaline extracellular media. In this study, we show that those islet cells that are in contact with the excretory ducts are also IRR-expressing cells...
April 21, 2017: Biochimie
https://www.readbyqxmd.com/read/28438574/extreme-hypertriglyceridemia-pseudohyponatremia-and-pseudoacidosis-in-a-neonate-with-lipoprotein-lipase-deficiency-due-to-segmental-uniparental-disomy
#6
Ambika P Ashraf, Anna C E Hurst, Abhimanyu Garg
Extreme hypertriglyceridemia is rare in the neonatal period. We report a neonate with lipoprotein lipase (LPL) deficiency who presented with diagnostic and management conundrum. A full-term 36-day-old female was noted to have "Pepto-Bismol like" blood when repeating a newborn screening. The initial plasma triglyceride level was 24,318 mg/dL. The laboratory tests revealed serum bicarbonate level of <5 mmol/L, sodium of 127 mmol/L, and severe anemia. There were no signs of acute distress. The point of care capillary blood testing, however, demonstrated normal serum pH (7...
April 3, 2017: Journal of Clinical Lipidology
https://www.readbyqxmd.com/read/28438014/characterization-of-a-glutamate-decarboxylase-gad-from-enterococcus-avium-m5-isolated-from-jeotgal-a-fermented-korean-sea-food
#7
Kang Wook Lee, Jae Min Shim, Zhuang Yao, Jeong A Kim, Hyun-Jin Kim, Jeong Hwan Kim
To develop starters for the production of functional foods or materials, lactic acid bacteria producing γ-aminobutyric acid (GABA) were screened from jeotgals, Korean fermented sea foods. One isolate producing high amount of GABA from monosodium L-glutamate (MSG) was identified as Enterococcus avium by 16S rRNA gene sequencing. E. avium M5 produced 18.47 ± 1.26 mg/ml GABA when incubated for 48 h at 37°C in MRS broth with MSG (3%, w/v). A gadB gene encoding glutamate decarboxylase (GAD) was cloned and overexpressed in E...
April 25, 2017: Journal of Microbiology and Biotechnology
https://www.readbyqxmd.com/read/28437776/large-scale-seaweed-cultivation-diverges-water-and-sediment-microbial-communities-in-the-coast-of-nan-ao-island-south-china-sea
#8
Xinfei Xie, Zhili He, Xiaojuan Hu, Huaqun Yin, Xueduan Liu, Yufeng Yang
Seaweed cultivation not only provides economy benefits, but also remediates the environment contaminated by mariculture of animals (e.g., fish, shrimps). However, the response of microbial communities to seaweed cultivation is poorly understood. In this study, we analyzed the diversity, composition, and structure of water and sediment microbial communities at a seaweed, Gracilaria lemaneiformis, cultivation zone and a control zone near Nan'ao Island, South China Sea by MiSeq sequencing of 16S rRNA gene amplicons...
April 21, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/28436598/the-expression-of-helicobacter-pylori-tfs-plasticity-zone-cluster-is-regulated-by-ph-and-adherence-and-its-composition-is-associated-with-differential-gastric-il-8-secretion
#9
Bruno Silva, Alexandra Nunes, Filipa F Vale, Raquel Rocha, João Paulo Gomes, Ricardo Dias, Mónica Oleastro
BACKGROUND: Helicobacter pylori virulence is associated with different clinical outcomes. The existence of an intact dupA gene from tfs4b cluster has been suggested as a predictor for duodenal ulcer development. However, the role of tfs plasticity zone clusters in the development of ulcers remains unclear. We studied several H. pylori strains to characterize the gene arrangement of tfs3 and tfs4 clusters and their impact in the inflammatory response by infected gastric cells. METHODS: The genome of 14 H...
April 24, 2017: Helicobacter
https://www.readbyqxmd.com/read/28433571/antitumor-and-chemosensitizing-action-of-3-bromopyruvate-implication-of-deregulated-metabolism
#10
Saveg Yadav, Shrish Kumar Pandey, Ajay Kumar, Praveen Kumar Kujur, Rana Pratap Singh, Sukh Mahendra Singh
3-Bromopyruvate (3-BP), brominated derivative of pyruvate, possesses strong antitumor potential, owing to its ability to inhibit multiple target molecules crucial for survival of neoplastic cells. Although, 3-BP displays cytotoxicity against a wide variety of tumors, there is no report with respect to malignancies of thymic origin. Therefore, we investigated its antineoplastic action in vitro against tumor cells of a murine transplantable lymphoma of thymoma origin, designated as Dalton's lymphoma (DL). 3-BP treatment of tumor cells inhibited metabolism and survival with augmented induction of apoptosis and necrosis...
April 19, 2017: Chemico-biological Interactions
https://www.readbyqxmd.com/read/28429169/nocardioides-suum-sp-nov-isolated-from-the-air-environment-in-an-indoor-pig-farm
#11
Siwon Lee, Wonseok Lee, Hyen-Mi Chung, Sangjung Park
A bacterial strain PBT33-2(T) was isolated from the air environment in an indoor pig farm. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain PBT33-2(T) belonged to the genus Nocardioides in the phylum Actinobacteria, and was most closely related to Nocardioides daphnia D287(T) in a maximum-likelihood and neighbor-joining phylogenetic trees. Strain PBT33-2(T) shared 95.3% sequence identity with N. daphnia D287(T). However, the highest sequence similarity was shown with N. sediminis MSL-01(T) (96...
April 20, 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28429167/corynebacterium-defluvii-sp-nov-isolated-from-sewage
#12
Qiu-Li Yu, Zheng-Fei Yan, Xin He, Feng-Hua Tian, Chuan-Wen Jia, Chang-Tian Li
A Gram-positive, aerobic, non-motile, rod-shapeds, cata-lase-positive, and oxidase-negative strain, designated Y49(T), was isolated from sewage collected from Jilin Agricultural University, China. It grew at 20-40°C (optimum at 30°C), at pH 6.0-8.0 (optimum at 7.0) and at 0-1.0% sodium chloride (optimum at 0%). The major isoprenoid quinone was menaquinone-8 (MK-8) and the polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylmethylethanolamine, four unidentified lipids, and two unidentified aminolipids...
April 20, 2017: Journal of Microbiology / the Microbiological Society of Korea
https://www.readbyqxmd.com/read/28428821/genome-wide-search-for-candidate-genes-for-yeast-robustness-improvement-against-formic-acid-reveals-novel-susceptibility-trk1-and-positive-regulators-and-resistance-haa1-regulon-determinants
#13
Sílvia F Henriques, Nuno P Mira, Isabel Sá-Correia
BACKGROUND: Formic acid is an inhibitory compound present in lignocellulosic hydrolysates. Understanding the complex molecular mechanisms underlying Saccharomyces cerevisiae tolerance to this weak acid at the system level is instrumental to guide synthetic pathway engineering for robustness improvement of industrial strains envisaging their use in lignocellulosic biorefineries. RESULTS: This study was performed to identify, at a genome-wide scale, genes whose expression confers protection or susceptibility to formic acid, based on the screening of a haploid deletion mutant collection to search for these phenotypes in the presence of 60, 70 and 80 mM of this acid, at pH 4...
2017: Biotechnology for Biofuels
https://www.readbyqxmd.com/read/28428249/crystal-structure-and-redox-properties-of-a-novel-cyanobacterial-heme-protein-with-a-his-cys-heme-axial-ligation-and-a-per-arnt-sim-pas-like-domain
#14
Taiki Motomura, Michihiro Suga, Rainer Hienerwadel, Akiko Nakagawa, Thanh-Lan Lai, Wolfgang Nitschke, Takahiro Kuma, Miwa Sugiura, Alain Boussac, Jain-Ren Shen
Photosystem II (PSII) catalyzes the light-induced water oxidation leading to the generation of dioxygen indispensable for sustaining aerobic life on Earth. The PSII reaction center is composed of D1 and D2 proteins encoded by the psbA and psbD genes, respectively. In cyanobacteria, different psbA genes are present in the genome. The thermophilic cyanobacterium Thermosynechococcus elongatus contains 3 psbA genes, psbA1, psbA2 and psbA3 and a new c-type heme protein, Tll0287, was found to be expressed in a strain expressing the psbA2 gene only, but the structure and function of Tll0287 are unknown...
April 20, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/28427886/identification-of-excipients-for-stabilizing-fiberless-adenovirus-as-biopharmaceuticals
#15
Grit Kupgan, Shyamal P Choudhari, Nicholas H Flynn, Adane Nigatu, Sravanthi Vupputuri, William D Picking, Wendy L Picking, Joshua D Ramsey
Reducing the promiscuous tropism of native adenovirus by using fiberless adenovirus is advantageous towards its use as a gene therapy vector or vaccine component. The removal of the fiber protein on native adenovirus abrogates several undesirable interactions; however, this approach decreases the particle's physical stability. In order to create stable fiberless adenovirus for pharmaceutical use, the effects of temperature and pH on the particle's stability profile must be addressed. Our results indicate that the stability of fiberless adenovirus is increased when it is stored in mildly acidic conditions around pH 6...
April 17, 2017: Journal of Pharmaceutical Sciences
https://www.readbyqxmd.com/read/28427249/crystal-structure-of-the-regulatory-domain-of-aphb-from-vibrio-vulnificus-a-virulence-gene-regulator
#16
Nohra Park, Saemee Song, Garam Choi, Kyung Ku Jang, Inseong Jo, Sang Ho Choi, Nam-Chul Ha
The transcriptional activator AphB has been implicated in acid resistance and pathogenesis in the food borne pathogens Vibrio vulnificus and Vibrio cholerae. To date, the full-length AphB crystal structure of V. cholerae has been determined and characterized by a tetrameric assembly of AphB consisting of a DNA binding domain and a regulatory domain (RD). Although acidic pH and low oxygen tension might be involved in the activation of AphB, it remains unknown which ligand or stimulus activates AphB at the molecular level...
April 20, 2017: Molecules and Cells
https://www.readbyqxmd.com/read/28425950/diversity-analysis-and-bioresource-characterization-of-halophilic-bacteria-isolated-from-a-south-african-saltpan
#17
Ramganesh Selvarajan, Timothy Sibanda, Memory Tekere, Hlengilizwe Nyoni, Stephen Meddows-Taylor
Though intensive research has been channeled towards the biotechnological applications of halophiles and other extremophilic microbes, these studies have not been, by any means, exhaustive. Saline environments still offer a vast diversity of microbes with potential to produce an array of natural products which can only be unlocked by concerted research efforts. In this study, a combination of culture and molecular approaches were employed to characterize halophilic bacteria from saltpan water samples and profile their potential biotechnological applications...
April 20, 2017: Molecules: a Journal of Synthetic Chemistry and Natural Product Chemistry
https://www.readbyqxmd.com/read/28425570/elongation-of-barley-roots-in-high-ph-nutrient-solution-is-supported-by-both-cell-proliferation-and-differentiation-in-the-root-apex
#18
Kyoko Higuchi, Kota Ono, Satoru Araki, Shogo Nakamura, Tetsuya Uesugi, Taira Makishima, Atsushi Ikari, Takahiro Hanaoka, Masayuki Sue
Many crops grow well on neutral or weakly acidic soils. The ability of roots to elongate under high external pH would be advantageous for the survival of plants on alkaline soil. We found that root elongation was promoted in some plant species in alkaline nutrient solution. Barley, but not tomato, root growth was maintained in pH 8 nutrient solution. Fe and Mn were absorbed well from the pH 8 nutrient solution by both barley and tomato plants, suggesting that the different growth responses of these two species may not be caused by insolubilization of transition metals...
April 20, 2017: Plant, Cell & Environment
https://www.readbyqxmd.com/read/28425565/immunolocalization-of-jian-carp-cyprinus-carpio-var-jian-cathepsin-b-cloning-expression-characterization-and-antibody-preparation
#19
Shu-Hong Li, Ran Li, Hai-Xia Zhong, Xiu-Hua Chen, Ai-Ping Liu, Juan Yang, Qiang Hu, Qin-Qin Ke, Mei-Liang Li
Cathepsin B (CatB) cDNA of 759 bp from Jian carp (Cyprinus carpio var. Jian) with amino acid similarity of 99.6% to common carp was cloned. The mature CatB was expressed in Escherichia coli BL21 transferred with vector CatB-pET-30a. It was purified and identified as a single band (29 kDa) on SDS-PAGE. Optimum CatB activity was observed at 40 °C and pH 5.5. Mouse anti-CatB polyclonal antibody with a high titer of 1:256000 was prepared successfully and shown to specifically recognize the antigen both in prokaryotic cells and in the tissues of Jian carp according to western blotting and immunohistochemistry results...
April 20, 2017: Journal of Food Science
https://www.readbyqxmd.com/read/28425284/ph-triggered-size-increasing-gene-carrier-for-efficient-tumor-accumulation-and-excellent-antitumor-effect
#20
Zhaopei Guo, Jie Chen, Lin Lin, Xiuwen Guan, Pingjie Sun, Meiwan Chen, Huayu Tian, Xuesi Chen
High efficiency and serum resistant capacity are important for gene carrier in vivo usage. In this study, transfection efficiency and cell toxicity of polyethylenimine (PEI) (branched, Mw = 25K) was remarkably improved, when mixed with polyanion (polyethylene glycol-polyglutamic acid (PEG-PLG) or polyglutamic acid (PLG)). Different composite orders of PEI, polyanion, and gene, for example, PEI is first complexed with DNA, and then with polyanion, or PEI is first complexed with polyanion, and then with DNA, were studied...
April 25, 2017: ACS Applied Materials & Interfaces
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