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https://www.readbyqxmd.com/read/28231327/functionally-focused-algorithmic-analysis-of-high-resolution-microarray-cgh-genomic-landscapes-demonstrates-comparable-genomic-copy-number-aberrations-in-msi-and-mss-sporadic-colorectal-cancer
#1
Hamad Ali, Milad S Bitar, Ashraf Al Madhoun, Makia Marafie, Fahd Al-Mulla
Array-based comparative genomic hybridization (aCGH) emerged as a powerful technology for studying copy number variations at higher resolution in many cancers including colorectal cancer. However, the lack of standardized systematic protocols including bioinformatic algorithms to obtain and analyze genomic data resulted in significant variation in the reported copy number aberration (CNA) data. Here, we present genomic aCGH data obtained using highly stringent and functionally relevant statistical algorithms from 116 well-defined microsatellites instable (MSI) and microsatellite stable (MSS) colorectal cancers...
2017: PloS One
https://www.readbyqxmd.com/read/28230863/oncogenic-role-of-rab-escort-protein-1-through-egfr-and-stat3-pathway
#2
Un-Jung Yun, Jee Young Sung, Seog-Yun Park, Sang-Kyu Ye, Jaegal Shim, Jae-Seon Lee, Masahiko Hibi, Young-Ki Bae, Yong-Nyun Kim
Rab escort protein-1 (REP1) is linked to choroideremia (CHM), an X-linked degenerative disorder caused by mutations of the gene encoding REP1 (CHM). REP1 mutant zebrafish showed excessive cell death throughout the body, including the eyes, indicating that REP1 is critical for cell survival, a hallmark of cancer. In the present study, we found that REP1 is overexpressed in human tumor tissues from cervical, lung, and colorectal cancer patients, whereas it is expressed at relatively low levels in the normal tissue counterparts...
February 23, 2017: Cell Death & Disease
https://www.readbyqxmd.com/read/28230857/protein-phosphatase-4-coordinates-glial-membrane-recruitment-and-phagocytic-clearance-of-degenerating-axons-in-drosophila
#3
Lilly M Winfree, Sean D Speese, Mary A Logan
Neuronal damage induced by injury, stroke, or neurodegenerative disease elicits swift immune responses from glial cells, including altered gene expression, directed migration to injury sites, and glial clearance of damaged neurons through phagocytic engulfment. Collectively, these responses hinder further cellular damage, but the mechanisms that underlie these important protective glial reactions are still unclear. Here, we show that the evolutionarily conserved trimeric protein phosphatase 4 (PP4) serine/threonine phosphatase complex is a novel set of factors required for proper glial responses to nerve injury in the adult Drosophila brain...
February 23, 2017: Cell Death & Disease
https://www.readbyqxmd.com/read/28229564/diversification-of-hox-gene-clusters-in-osteoglossomorph-fish-in-comparison-to-other-teleosts-and-the-spotted-gar-outgroup
#4
Kyle J Martin, Peter W H Holland
An ancient genome duplication (TGD or 3R) occurred in teleost fish after divergence from the lineage leading to gar. This genome duplication is shared by the three extant teleost lineages: Osteoglossomorpha (bony-tongues), Elopomorpha (eels and tarpons), and Clupeocephala (a large clade including salmon, carp, medaka, zebrafish, cichlids, pufferfish, stickleback, and ∼26,000 other species). After TGD, different clupeocephalan species retained different gene duplicates; this is seen clearly in Hox gene clusters but extends to all genes...
February 23, 2017: Journal of Experimental Zoology. Part B, Molecular and Developmental Evolution
https://www.readbyqxmd.com/read/28228515/intrafamily-and-intragenomic-conflicts-in-human-warfare
#5
Alberto J C Micheletti, Graeme D Ruxton, Andy Gardner
Recent years have seen an explosion of multidisciplinary interest in ancient human warfare. Theory has emphasized a key role for kin-selected cooperation, modulated by sex-specific demography, in explaining intergroup violence. However, conflicts of interest remain a relatively underexplored factor in the evolutionary-ecological study of warfare, with little consideration given to which parties influence the decision to go to war and how their motivations may differ. We develop a mathematical model to investigate the interplay between sex-specific demography and human warfare, showing that: the ecology of warfare drives the evolution of sex-biased dispersal; sex-biased dispersal modulates intrafamily and intragenomic conflicts in relation to warfare; intragenomic conflict drives parent-of-origin-specific patterns of gene expression-i...
February 22, 2017: Proceedings. Biological Sciences
https://www.readbyqxmd.com/read/28228393/protein-turnover-provides-pancreatic-cancer-target
#6
(no author information available yet)
Decreased activity of the chromatin remodeling factor gene SMARCB1 drives a switch in pancreatic cancer cells toward a more aggressive, mesenchymal state. This change makes the tumors more susceptible to drugs that target protein metabolism and associated stress responses.
February 22, 2017: Cancer Discovery
https://www.readbyqxmd.com/read/28228349/identification-of-prdm-genes-in-human-corneal-endothelium
#7
Kostadin Rolev, G O'Donovan Dominic, Christiana Georgiou, Rajan Madhavan, Alexandra Chittka
Corneal endothelial cells (CECs) are essential for maintaining corneal stromal hydration and ensuring its transparency, which is necessary for normal vision. Dysfunction of CECs leads to stromal decompensation, loss of transparency and corneal blindness. Corneal endothelium has low proliferative potential compared to surface epithelial cells leading to poor regeneration of CEC following injury or age related decline in cellular density. The mechanisms which control proliferation and differentiation of neural crest derived CEC progenitors are yet to be clearly elucidated...
February 19, 2017: Experimental Eye Research
https://www.readbyqxmd.com/read/28228280/autocrine-loop-involving-il-6-family-member-lif-lif-receptor-and-stat4-drives-sustained-fibroblast-production-of-inflammatory-mediators
#8
Hung N Nguyen, Erika H Noss, Fumitaka Mizoguchi, Christine Huppertz, Kevin S Wei, Gerald F M Watts, Michael B Brenner
Fibroblasts are major contributors to and regulators of inflammation and dominant producers of interleukin-6 (IL-6) in inflammatory diseases like rheumatoid arthritis. Yet, compared to leukocytes, the regulation of inflammatory pathways in fibroblasts is largely unknown. Here, we report that analyses of genes coordinately upregulated with IL-6 pointed to STAT4 and leukemia inhibitory factor (LIF) as potentially linked. Gene silencing revealed that STAT4 was required for IL-6 transcription. STAT4 was recruited to the IL-6 promoter after fibroblast activation, and LIF receptor (LIFR) and STAT4 formed a molecular complex that, together with JAK1 and TYK2 kinases, controlled STAT4 activation...
February 21, 2017: Immunity
https://www.readbyqxmd.com/read/28226420/posnar2-1-osnar2-1-expression-enhances-nitrogen-uptake-efficiency-and-grain-yield-in-transgenic-rice-plants
#9
Jingguang Chen, Xiaoru Fan, Kaiyun Qian, Yong Zhang, Miaoquan Song, Yu Liu, Guohua Xu, Xiaorong Fan
The nitrate (NO3(-) ) transporter has been selected as an important gene maker in the process of environmental adoption in rice cultivars. In this work, we transfered another native OsNAR2.1 promoter with driving OsNAR2.1 gene into rice plants. The transgenic lines with exogenous pOsNAR2.1:OsNAR2.1 constructs showed enhanced OsNAR2.1 expression level, compared with wild type (WT), and (15) N influx in roots increased 21-32% in response to 0.2 mM and 2.5 mM (15) NO3(-) and 1.25 mM (15) NH4(15) NO3 . Under these three N conditions, the biomass of the pOsNAR2...
February 22, 2017: Plant Biotechnology Journal
https://www.readbyqxmd.com/read/28225770/a-distal-intergenic-region-controls-pancreatic-endocrine-differentiation-by-acting-as-a-transcriptional-enhancer-and-as-a-polycomb-response-element
#10
Joris van Arensbergen, Sebastien Dussaud, Corinne Pardanaud-Glavieux, Javier García-Hurtado, Claire Sauty, Aline Guerci, Jorge Ferrer, Philippe Ravassard
Lineage-selective expression of developmental genes is dependent on the interplay between activating and repressive mechanisms. Gene activation is dependent on cell-specific transcription factors that recognize transcriptional enhancer sequences. Gene repression often depends on the recruitment of Polycomb group (PcG) proteins, although the sequences that underlie the recruitment of PcG proteins, also known as Polycomb response elements (PREs), remain poorly understood in vertebrates. While distal PREs have been identified in mammals, a role for positive-acting enhancers in PcG-mediated repression has not been described...
2017: PloS One
https://www.readbyqxmd.com/read/28225764/cynomolgus-macaques-naturally-infected-with-trypanosoma-cruzi-i-exhibit-an-overall-mixed-pro-inflammatory-modulated-cytokine-signature-characteristic-of-human-chagas-disease
#11
Danielle Marquete Vitelli-Avelar, Renato Sathler-Avelar, Armanda Moreira Mattoso-Barbosa, Nicolas Gouin, Marcelo Perdigão-de-Oliveira, Leydiane Valério-Dos-Reis, Ronaldo Peres Costa, Silvana Maria Elói-Santos, Matheus de Souza Gomes, Laurence Rodrigues do Amaral, Andréa Teixeira-Carvalho, Olindo Assis Martins-Filho, Edward J Dick, Gene B Hubbard, Jane F VandeBerg, John L VandeBerg
BACKGROUND: Non-human primates have been shown to be useful models for Chagas disease. We previously reported that natural T. cruzi infection of cynomolgus macaques triggers clinical features and immunophenotypic changes of peripheral blood leukocytes resembling those observed in human Chagas disease. In the present study, we further characterize the cytokine-mediated microenvironment to provide supportive evidence of the utility of cynomolgus macaques as a model for drug development for human Chagas disease...
February 2017: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/28224921/lemna-minor-plants-chronically-exposed-to-ionising-radiation-rna-seq-analysis-indicates-a-dose-rate-dependent-shift-from-acclimation-to-survival-strategies
#12
Arne Van Hoeck, Nele Horemans, Robin Nauts, May Van Hees, Hildegarde Vandenhove, Ronny Blust
Ecotoxicological research provides knowledge on ionising radiation-induced responses in different plant species. However, the sparse data currently available are mainly extracted from acute exposure treatments. To provide a better understanding of environmental exposure scenarios, the response to stress in plants must be followed in more natural relevant chronic conditions. We previously showed morphological and biochemical responses in Lemna minor plants continuously exposed for 7days in a dose-rate dependent manner...
April 2017: Plant Science: An International Journal of Experimental Plant Biology
https://www.readbyqxmd.com/read/28223997/melatonin-regulates-root-architecture-by-modulating-auxin-response-in-rice
#13
Chengzhen Liang, Aifu Li, Hua Yu, Wenzhen Li, Chengzhi Liang, Sandui Guo, Rui Zhang, Chengcai Chu
It has been suggested that melatonin acts as an important regulator in controlling root growth and development, but the underlying molecular mechanism driving this relationship remains undetermined. In this study, we demonstrated that melatonin acts as a potent molecule to govern root architecture in rice. Treatments with melatonin significantly inhibited embryonic root growth, and promoted lateral root formation and development. Genome-wide expression profiling by RNA-sequencing revealed auxin-related genes were significantly activated under melatonin treatment...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28223994/enhanced-grain-iron-levels-in-rice-expressing-an-iron-regulated-metal-transporter-nicotianamine-synthase-and-ferritin-gene-cassette
#14
Kulaporn Boonyaves, Ting-Ying Wu, Wilhelm Gruissem, Navreet K Bhullar
Micronutrient malnutrition is widespread, especially in poor populations across the globe, and iron deficiency anemia is one of the most prevalent forms of micronutrient deficiencies. Iron deficiency anemia has severe consequences for human health, working ability, and quality of life. Several interventions including iron supplementation and food fortification have been attempted and met with varied degrees of success. Rice, which is a staple food for over half of the world's population, is an important target crop for iron biofortification...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28223442/periodic-lateral-root-priming-what-makes-it-tick
#15
Kirsten Hendrika Ten Tusscher, Marta Laskowski
Conditioning small groups of root pericycle cells for future lateral root formation has a major impact on overall plant root architecture. This priming of lateral roots occurs rhythmically, involving temporal oscillations in auxin response in the root tip. During growth, this process generates a spatial pattern of prebranch sites, an early stage in lateral root formation characterized by a stably maintained high auxin response. Thusfar, the molecular mechanism behind this rhythmicity has remained elusive. Some data implicate a cell-autonomous oscillation in gene expression, while others strongly support the importance of tissue-level modulations in auxin fluxes...
February 21, 2017: Plant Cell
https://www.readbyqxmd.com/read/28223406/sex-drives-dimorphic-immune-responses-to-viral-infections
#16
REVIEW
Soumitra Ghosh, Robyn S Klein
New attention to sexual dimorphism in normal mammalian physiology and disease has uncovered a previously unappreciated breadth of mechanisms by which females and males differentially exhibit quantitative phenotypes. Thus, in addition to the established modifying effects of hormones, which prenatally and postpubertally pattern cells and tissues in a sexually dimorphic fashion, sex differences are caused by extragonadal and dosage effects of genes encoded on sex chromosomes. Sex differences in immune responses, especially during autoimmunity, have been studied predominantly within the context of sex hormone effects...
March 1, 2017: Journal of Immunology: Official Journal of the American Association of Immunologists
https://www.readbyqxmd.com/read/28222435/extracorporal-shock-waves-activate-migration-proliferation-and-inflammatory-pathways-in-fibroblasts-and-keratinocytes-and-improve-wound-healing-in-an-open-label-single-arm-study-in-patients-with-therapy-refractory-chronic-leg-ulcers
#17
Ilknur Aschermann, Seema Noor, Sascha Venturelli, Tobias Sinnberg, Christian Busch, Christian D Mnich
BACKGROUND/AIMS: Chronic leg ulcers (CLUs) are globally a major cause of morbidity and mortality with increasing prevalence. Their treatment is highly challenging, and many conservative, surgical or advanced therapies have been suggested, but with little overall efficacy. Since the 1980s extracorporal shock wave therapy (ESWT) has gained interest as treatment for specific indications. Here, we report that patients with CLU showed wound healing after ESWT and investigated the underlying molecular mechanisms...
February 20, 2017: Cellular Physiology and Biochemistry
https://www.readbyqxmd.com/read/28222270/the-effects-of-pig-manure-application-on-the-spread-of-tetracycline-resistance-in-bulk-and-cucumber-rhizosphere-soils-a-greenhouse-experiment
#18
Yijun Kang, Yangyang Hao, Dan Xia, Min Shen, Qing Li, Jian Hu
Understanding the dynamics of tetracycline-resistant bacteria (TRB) and tetracycline resistance genes (TRGs) in bulk and rhizosphere soils is important to evaluate the spread of TRGs from pig manure to human. In this work, a greenhouse experiment was conducted to investigate the difference in abundance of TRB, tetracycline-resistant E. coli (TRE), tetracycline-resistant Pseudomonas spp. (TRP), as well as TRGs between bulk and cucumber rhizosphere soils. The application of pig manure resulted in the long-term persistence of TRB, TRE, TRP and TRGs in bulk soil and rhizosphere of cucumber for at least 65 days...
February 21, 2017: Canadian Journal of Microbiology
https://www.readbyqxmd.com/read/28221753/structure-activity-relationships-of-the-competence-stimulating-peptides-csps-in-streptococcus-pneumoniae-reveal-motifs-critical-for-intra-group-and-cross-group-comd-receptor-activation
#19
Yifang Yang, Bimal Koirala, Lucia A Sanchez, Naiya R Phillips, Sally R Hamry, Yftah Tal-Gan
Streptococcus pneumoniae is a highly recombinogenic human pathogen that utilizes the competence stimulating peptide (CSP)-based quorum sensing (QS) circuitry to acquire antibiotic resistance genes from the environment and initiate its attack on the human host. Modulation of QS in this bacterium, either inhibition or activation, can therefore be used to attenuate S. pneumoniae infectivity and slow down pneumococcal resistance development. In this study we set to determine the molecular mechanism that drives CSP:receptor binding and identify CSP-based QS modulators with distinct activity profiles...
February 21, 2017: ACS Chemical Biology
https://www.readbyqxmd.com/read/28220769/a-connexin30-mutation-rescues-hearing-and-reveals-roles-for-gap-junctions-in-cochlear-amplification-and-micromechanics
#20
Victoria A Lukashkina, Snezana Levic, Andrei N Lukashkin, Nicola Strenzke, Ian J Russell
Accelerated age-related hearing loss disrupts high-frequency hearing in inbred CD-1 mice. The p.Ala88Val (A88V) mutation in the gene coding for the gap-junction protein connexin30 (Cx30) protects the cochlear basal turn of adult CD-1Cx30(A88V/A88V) mice from degeneration and rescues hearing. Here we report that the passive compliance of the cochlear partition and active frequency tuning of the basilar membrane are enhanced in the cochleae of CD-1Cx30(A88V/A88V) compared to CBA/J mice with sensitive high-frequency hearing, suggesting that gap junctions contribute to passive cochlear mechanics and energy distribution in the active cochlea...
February 21, 2017: Nature Communications
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