keyword
MENU ▼
Read by QxMD icon Read
search

gene profile

keyword
https://www.readbyqxmd.com/read/28724243/extensively-and-multi-drug-resistant-acinetobacter-baumannii-recovered-from-technosol-at-a-dump-site-in-croatia
#1
Jasna Hrenovic, Goran Durn, Martina Seruga Music, Svjetlana Dekic, Tamara Troskot-Corbic, Dijana Skoric
In a karst pit above City of Rijeka in Croatia the hazardous industrial waste was continuously disposed from 1955 to 1990, and later it was periodically used as an illegal dump site. The surface part of a technosol at the edge of dump was analysed mineralogically, geochemically and bacteriologically. From the technosol rich in petroleum hydrocarbons and heavy metals three isolates of Acinetobacter baumannii were recovered. Isolates from technosol shared many features that are previously described for clinically isolates: the affiliation to IC1 and 2, multi-drug resistant (MDR) or extensively drug-resistant (XDR) antibiotic resistance profile, carbapenem resistance mediated by blaOXA72 and blaOXA23 genes, and the expression of virulence factors...
July 15, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/28724080/qtls-associated-with-crown-root-angle-stomatal-conductance-and-maturity-in-sorghum
#2
Jose R Lopez, John E Erickson, Patricio Munoz, Ana Saballos, Terry J Felderhoff, Wilfred Vermerris
Three factors that directly affect the water inputs in cropping systems are root architecture, length of the growing season, and stomatal conductance to water vapor (). Deeper-rooted cultivars will perform better under water-limited conditions because they can access water stored deeper in the soil profile. Reduced limits transpiration rate () and thus throughout the vegetative phase conserves water that may be used during grain filling in water-limited environments. Additionally, growing early-maturing varieties in regions that rely on soil-stored water is a key water management strategy...
July 2017: Plant Genome
https://www.readbyqxmd.com/read/28723953/analysis-of-the-differential-gene-and-protein-expression-profile-of-the-rolled-leaf-mutant-of-transgenic-rice-oryza-sativa-l
#3
Qiuqiang Zhu, Shuguang Yu, Guanshui Chen, Lanlan Ke, Daren Pan
The importance of leaf rolling in rice (Oryza sativa L.) has been widely recognized. Although several studies have investigated rice leaf rolling and identified some related genes, knowledge of the molecular mechanism underlying rice leaf rolling, especially outward leaf rolling, is limited. Therefore, in this study, differential proteomics and gene expression profiling were used to analyze rolled leaf mutant of transgenic rice in order to investigate differentially expressed genes and proteins related to rice leaf rolling...
2017: PloS One
https://www.readbyqxmd.com/read/28723942/comparative-analysis-of-vaginal-microbiota-sampling-using-16s-rrna-gene-analysis
#4
Seppo Virtanen, Ilkka Kalliala, Pekka Nieminen, Anne Salonen
BACKGROUND: Molecular methods such as next-generation sequencing are actively being employed to characterize the vaginal microbiota in health and disease. Previous studies have focused on characterizing the biological variation in the microbiota, and less is known about how factors related to sampling contribute to the results. Our aim was to investigate the impact of a sampling device and anatomical sampling site on the quantitative and qualitative outcomes relevant for vaginal microbiota research...
2017: PloS One
https://www.readbyqxmd.com/read/28723896/maternal-h3k27me3-controls-dna-methylation-independent-imprinting
#5
Azusa Inoue, Lan Jiang, Falong Lu, Tsukasa Suzuki, Yi Zhang
Mammalian sperm and oocytes have different epigenetic landscapes and are organized in different fashions. After fertilization, the initially distinct parental epigenomes become largely equalized with the exception of certain loci, including imprinting control regions. How parental chromatin becomes equalized and how imprinting control regions escape from this reprogramming is largely unknown. Here we profile parental allele-specific DNase I hypersensitive sites in mouse zygotes and morula embryos, and investigate the epigenetic mechanisms underlying these allelic sites...
July 19, 2017: Nature
https://www.readbyqxmd.com/read/28723667/resistance-to-ctla-4-checkpoint-inhibition-reversed-through-selective-elimination-of-granulocytic-myeloid-cells
#6
Paul E Clavijo, Ellen C Moore, Jianhong Chen, Ruth J Davis, Jay Friedman, Young Kim, Carter Van Waes, Zhong Chen, Clint T Allen
PURPOSE: Local immunosuppression remains a critical problem that limits clinically meaningful response to checkpoint inhibition in patients with head and neck cancer. Here, we assessed the impact of MDSC elimination on responses to CTLA-4 checkpoint inhibition. EXPERIMENTAL DESIGN: Murine syngeneic carcinoma immune infiltrates were characterized by flow cytometry. Granulocytic MDSCs (gMDSCs) were depleted and T-lymphocyte antigen-specific responses were measured...
June 11, 2017: Oncotarget
https://www.readbyqxmd.com/read/28723614/generating-a-robust-prediction-model-for-stage-i-lung-adenocarcinoma-recurrence-after-surgical-resection
#7
Yu-Chung Wu, Nien-Chih Wei, Jung-Jyh Hung, Yi-Chen Yeh, Li-Jen Su, Wen-Hu Hsu, Teh-Ying Chou
Lung cancer mortality remains high even after successful resection. Adjuvant treatment benefits stage II and III patients, but not stage I patients, and most studies fail to predict recurrence in stage I patients. Our study included 211 lung adenocarcinoma patients (stages I-IIIA; 81% stage I) who received curative resections at Taipei Veterans General Hospital between January 2001 and December 2012. We generated a prediction model using 153 samples, with validation using an additional 58 clinical outcome-blinded samples...
July 11, 2017: Oncotarget
https://www.readbyqxmd.com/read/28723281/imaging-correlates-of-adult-glioma-genotypes
#8
Marion Smits, Martin J van den Bent
Primary brain tumors, most commonly gliomas, are histopathologically typed and graded as World Health Organization (WHO) grades I-IV according to increasing degrees of malignancy. These grades provide prognostic information and guidance on treatment such as radiation therapy and chemotherapy after surgery. Despite the confirmed value of the WHO grading system, results of a multitude of studies and prospective interventional trials now indicate that tumors with identical morphologic criteria can have highly different outcomes...
August 2017: Radiology
https://www.readbyqxmd.com/read/28722833/targeted-next-generation-sequencing-using-a-multigene-panel-in-myeloid-neoplasms-implementation-in-clinical-diagnostics
#9
B Maes, J Willemse, A Broekmans, R Smets, B Cruys, N Put, V Madoe, M Janssen, O Soepenberg, G Bries, I Vrelust, R Achten, K Van Pelt, K Buvé, K Theunissen, V Peeters, G Froyen
INTRODUCTION: Detection of mutations in patients with myeloid neoplasms (MNs) has shown great potential for diagnostic and prognostic purposes. Next-generation sequencing (NGS) is currently implemented for the diagnostic profiling of the four major MN subgroups. METHODS: First, we validated the targeted NGS approach using the TruSight Myeloid panel. Next, we screened 287 patients with a clinical suspicion of MN and 61 follow-up patients with documented MN. RESULTS: Validation of the NGS workflow resulted in maximal precision, accuracy, sensitivity, and specificity for gene variants with an allele frequency of at least 5% and a minimal read depth of 300...
July 19, 2017: International Journal of Laboratory Hematology
https://www.readbyqxmd.com/read/28722224/integrating-high-resolution-and-solid-state-magic-angle-spinning-nmr-spectroscopy-and-a-transcriptomic-analysis-of-soybean-tissues-in-response-to-water-deficiency
#10
Isabel D Coutinho, Tiago Bueno Moraes, Liliane Marcia Mertz-Henning, Alexandre Lima Nepomuceno, Willian Giordani, Juliana Marcolino-Gomes, Silvia Santagneli, Luiz Alberto Colnago
INTRODUCTION: Solid-state NMR (SSNMR) spectroscopy methods provide chemical environment and ultrastructural details that are not easily accessible by other non-destructive, high-resolution spectral techniques. High-resolution magic angle spinning (HR-MAS) has been widely used to obtain the metabolic profile of a heterogeneous sample, combining the resolution enhancement provided by MAS in SSNMR with the shimming and locking procedures in liquid-state NMR. OBJECTIVE: In this work, we explored the feasibility of using the HR-MAS and SSNMR techniques to identify metabolic changes in soybean leaves subjected to water-deficient conditions...
July 19, 2017: Phytochemical Analysis: PCA
https://www.readbyqxmd.com/read/28722115/transcriptional-profiling-of-mechanically-and-genetically-sink-limited-soybeans
#11
Anne V Brown, Karen A Hudson
The absence of a reproductive sink causes physiological and morphological changes in soybean plants. These include increased accumulation of nitrogen and starch in the leaves and delayed leaf senescence. To identify transcriptional changes that occur in leaves of these sink-limited plants, we used RNAseq to compare gene expression levels in trifoliate leaves from depodded and ms6 male sterile soybean plants and control plants. In both sink-limited tissues, we observed a deferral of the expression of senescence-associated genes and a continued expression of genes associated with leaf maturity...
July 19, 2017: Plant, Cell & Environment
https://www.readbyqxmd.com/read/28721901/psmb8-as-a-candidate-marker-of-responsiveness-to-preoperative-radiation-therapy-in-rectal-cancer-patients
#12
Ye Jin Ha, Ka Hee Tak, Chan Wook Kim, Seon Ae Roh, Eun Kyung Choi, Dong Hyung Cho, Jeong Hwan Kim, Seon Kyu Kim, Seon Young Kim, Yong Sung Kim, Jin Cheon Kim
PURPOSE: The ability to predict individual responsiveness to cancer therapy is urgently needed. This is particularly true for patients with locally advanced rectal cancer (LARC) because a large proportion are resistant to preoperative chemoradiation therapy (CRT). In this study, we sought to identify markers that could predict response by comparing the gene expression profiles of the tumors of patients who received preoperative CRT. METHODS AND MATERIALS: The basal gene expression profiles of tumors from 22 LARC patients who were responders (n=9) and nonresponders (n=13) to preoperative CRT were analyzed using RNA sequencing (RNA-Seq)...
August 1, 2017: International Journal of Radiation Oncology, Biology, Physics
https://www.readbyqxmd.com/read/28721843/treponema-rectale-sp-nov-a-spirochete-isolated-from-the-bovine-rectum
#13
Gareth J Staton, Kerry Newbrook, Simon R Clegg, Richard J Birtles, Nicholas J Evans, Stuart D Carter
A Gram-stain-negative, obligatory anaerobic spirochete, CHPAT, was isolated from the rectal tissue of a Holstein-Friesian cow. On the basis of 16S rRNA gene comparisons, CHPAT was most closely related to the human oral spirochete, Treponema parvum, with 88.8 % sequence identity. Further characterisation on the basis of recA gene sequence analysis, cell morphology, pattern of growth and physiological profiling identified marked differences with respect to other recognised species of the genus Treponema. Microscopically, the helical cells measured approximately 1-5 µm long and 0...
July 18, 2017: International Journal of Systematic and Evolutionary Microbiology
https://www.readbyqxmd.com/read/28721629/epha3-targeting-reduces-in-vitro-adhesion-and-invasion-and-in-vivo-growth-and-angiogenesis-of-multiple-myeloma-cells
#14
Francesco La Rocca, Irma Airoldi, Emma Di Carlo, Pina Marotta, Geppino Falco, Vittorio Simeon, Ilaria Laurenzana, Stefania Trino, Luciana De Luca, Katia Todoerti, Oreste Villani, Martin Lackmann, Fiorella D'Auria, Francesco Frassoni, Antonino Neri, Luigi Del Vecchio, Pellegrino Musto, Daniela Cilloni, Antonella Caivano
PURPOSE: Multiple myeloma (MM) is a hematologic malignancy characterized by a clonal expansion of plasma cells (PCs) in the bone marrow (BM). Since MM has so far remained incurable, further insights into its pathogenesis and the concomitant identification of new therapeutic targets are urgently needed. The tyrosine kinase receptor EphA3 is known to be involved in various cellular processes including cell viability, cell movement and cell-cell interactions. Recently, EphA3 has emerged as a potential therapeutic target in several hematologic and solid tumors...
July 18, 2017: Cellular Oncology (Dordrecht)
https://www.readbyqxmd.com/read/28721580/gene-expression-profiles-of-the-thermotolerant-yeast-saccharomyces-cerevisiae-strain-kku-vn8-during-high-temperature-ethanol-fermentation-using-sweet-sorghum-juice
#15
Atiya Techaparin, Pornthap Thanonkeo, Preekamol Klanrit
OBJECTIVES: To investigate gene expression profiles of the thermotolerant yeast Saccharomyces cerevisiae strain KKU-VN8, a potential high-ethanol producer, in response to various stresses during high-temperature ethanol fermentation using sweet sorghum juice (SSJ) under optimal conditions. RESULTS: The maximal ethanol concentration obtained by S. cerevisiae KKU-VN8 using SSJ at 40 °C was 66.6 g/l, with a productivity of 1.39 g/l/h and a theoretical ethanol yield of 81%...
July 18, 2017: Biotechnology Letters
https://www.readbyqxmd.com/read/28721540/temporal-expression-of-cumulus-cell-marker-genes-during-in-vitro-maturation-and-oocyte-developmental-competence
#16
Arindam Dhali, Pradeep Krishna Javvaji, Atul P Kolte, Joseph Rabinson Francis, Sudhir C Roy, Veerasamy Sejian
PURPOSE: Cumulus cells (CC) play important roles in oocyte development and cumulus expressed genes can be used as markers for oocyte quality. This study aimed to investigate temporal changes in the expression of cumulus marker genes during oocyte maturation as possible biomarkers of embryo developmental competence in ovine. METHODS: Gene expression was assessed in the CC of the BCB+ (developmentally competent) and BCB- (developmentally poor) oocytes at 0, 12, and 24 h of in vitro maturation (IVM)...
July 18, 2017: Journal of Assisted Reproduction and Genetics
https://www.readbyqxmd.com/read/28721073/exploration-of-the-molecular-mechanism-of-prostate-cancer-based-on-mrna-and-mirna-expression-profiles
#17
Xing Zhang, YuYan Sun, Peng Wang, Changfu Yang, Shengwei Li
Prostate cancer, the second most common cancer in men, has been rarely explored by integrating mRNA and miRNA expression profiles. In this study, we combined two mRNA expression datasets and six documented miRNAs to uncover the comprehensive molecular mechanism of prostate cancer. Results showed that a total of 30 genes were significantly differentially expressed in 49 tumor samples by comparing with 22 normal samples. Importantly, all samples from the two datasets can be clearly classified into two groups, tumor group and normal group, based on the selected differentially expressed genes (DEGs)...
2017: OncoTargets and Therapy
https://www.readbyqxmd.com/read/28720843/clinical-study-of-genomic-drivers-in-pancreatic-ductal-adenocarcinoma
#18
Michael T Barrett, Ray Deiotte, Elizabeth Lenkiewicz, Smriti Malasi, Tara Holley, Lisa Evers, Richard G Posner, Timothy Jones, Haiyong Han, Mark Sausen, Victor E Velculescu, Jeffrey Drebin, Peter O'Dwyer, Gayle Jameson, Ramesh K Ramanathan, Daniel D Von Hoff
BACKGROUND: Pancreatic ductal adenocarcinoma (PDA) is a lethal cancer with complex genomes and dense fibrotic stroma. This study was designed to identify clinically relevant somatic aberrations in pancreatic cancer genomes of patients with primary and metastatic disease enrolled and treated in two clinical trials. METHODS: Tumour nuclei were flow sorted prior to whole genome copy number variant (CNV) analysis. Targeted or whole exome sequencing was performed on most samples...
July 18, 2017: British Journal of Cancer
https://www.readbyqxmd.com/read/28720800/itraq-based-quantitative-proteomic-analysis-reveals-alterations-in-the-metabolism-of-actinidia-arguta
#19
Miaomiao Lin, Jinbao Fang, Xiujuan Qi, Yukuo Li, Jinyong Chen, Leiming Sun, Yunpeng Zhong
Actinidia arguta 'Tianyuanhong' is a new kiwifruit variety with an all-red pericarp and pulp, in contrast to the all-green pulp of A. arguta 'Yongfengyihao'. Transcriptome profile analysis of fruit color has been reported, however, the metabolic mechanisms producing red flesh remain unknown, and it is unclear why the pulp of 'Tianyuanhong' is red rather than green. Herein, we identified differences between the proteomes of two A. arguta cultivars with different fruit color by using iTRAQ-based quantitative proteomic methods during the stage of color change...
July 18, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28720793/genome-wide-identification-and-characterization-of-natural-antisense-transcripts-by-strand-specific-rna-sequencing-in-ganoderma-lucidum
#20
Junjie Shao, Haimei Chen, Dan Yang, Mei Jiang, Hui Zhang, Bin Wu, Jianqin Li, Lichai Yuan, Chang Liu
Ganoderma lucidum is a white-rot fungus best-known for its medicinal and ligninolytic activities. To discover the underlying genes responsible for these activities, we identified and characterized the natural antisense transcripts (NATs) using strand-specific (ss) RNA-seq data obtained from the mycelia, primordia and fruiting bodies. NATs were identified using a custom pipeline and then subjected to functional enrichment and differential expression analyses. A total of 1613 cis- and 244 trans- sense and antisense transcripts were identified...
July 18, 2017: Scientific Reports
keyword
keyword
76949
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"