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https://www.readbyqxmd.com/read/28823120/deoxynivalenol-and-zearalenone-contaminated-feeds-alter-gene-expression-profiles-in-the-livers-of-piglets
#1
Kondreddy Eswar Reddy, Jin Young Jeong, Yookyung Lee, Hyun-Jeong Lee, Min Seok Kim, Dong-Wook Kim, Hyun Jung Jung, Changyong Choe, Young Kyoon Oh, Sung Dae Lee
Objective: The Fusarium mycotoxins of deoxynivalenol (DON) and zerolenone (ZEN) cause health hazards for both humans and farm animals. Therefore, the main intention of this study was to reveal DON and ZEN effects on the mRNA expression of pro-inflammatory cytokines and other immune related genes in the liver of piglets. Methods: In the present study, 15 six-week-old piglets were randomly assigned to the following three different dietary treatments for 4 weeks: control diet, diet containing 8 mg DON/kg feed, and diet containing 0...
August 16, 2017: Asian-Australasian Journal of Animal Sciences
https://www.readbyqxmd.com/read/28822908/pseudophyllomitus-vesiculosus-larsen-and-patterson-1990-lee-2002-a-poorly-studied-phagotrophic-biflagellate-is-the-first-characterized-member-of-stramenopile-environmental-clade-mast-6
#2
Takashi Shiratori, Rabindra Thakur, Ken-Ichiro Ishida
There are many eukaryotic lineages that are exclusively composed of environmental sequences and lack information about which species are included. Regarding stramenopiles, at least 18 environmental lineages, known as marine stramenopiles (MAST), have been recognized. Since each MAST lineage forms deep branches in the stramenopiles, the characterization of MAST members is key to understanding the diversity and evolution of stramenopiles. In this study, we established a culture of Pseudophyllomitus vesiculosus, which is a poorly studied phagotrophic flagellate of uncertain taxonomic position...
July 6, 2017: Protist
https://www.readbyqxmd.com/read/28822827/host-genes-regulate-transcription-of-sperm-introduced-hepatitis-b-virus-genes-in-embryo
#3
Ying Zhong, Dong-Ling Liu, Mohamed Morsi M Ahmed, Peng-Hao Li, Xiao-Ling Zhou, Qing-Dong Xie, Xiao-Qing Xu, Ting-Ting Han, Zhi-Wei Hou, Chen-Yao Zhong, Ji-Hua Huang, Fei Zeng, Tian-Hua Huang
Hepatitis B virus (HBV) can invade the male germline, and sperm-introduced HBV genes could be transcribed in embryo. This study was to explore whether viral gene transcription is regulated by host genes. Embryos were produced by in vitro fertilization of hamster oocytes with human sperm containing the HBV genome. Total RNA extracted from test and control embryos were subjected to SMART-PCR, SSH, microarray hybridization, sequencing and BLAST analysis. Twenty-nine sequences showing significant identity to five human gene families were identified, with CSH2, EIF4G2, PCBD2, PSG4 and TTN selected to represent target genes...
August 16, 2017: Reproductive Toxicology
https://www.readbyqxmd.com/read/28821911/erratum-to-unique-sequence-organization-and-small-rna-expression-of-a-selfish-b-chromosome
#4
Yue Li, Xueyuan A Jing, John C Aldrich, C Clifford, Jian Chen, Omar S Akbari, Patrick M Ferree
No abstract text is available yet for this article.
August 19, 2017: Chromosoma
https://www.readbyqxmd.com/read/28821885/the-expression-profiles-of-mirna-mrna-of-early-response-in-genetically-improved-farmed-tilapia-oreochromis-niloticus-liver-by-acute-heat-stress
#5
Jun Qiang, Wen J Bao, Fan Y Tao, Jie He, Xia H Li, Pao Xu, Lan Y Sun
Genetically improved farmed tilapia (GIFT, Oreochromis niloticus) are commercially important fish that are cultured in China. GIFT are highly susceptible to diseases when exposed to high temperatures in summer. Better understanding the GIFT regulatory response to heat stress will not only help in determining the relationship between heat stress signalling pathways and adaption mechanisms, but will also contribute to breeding new high-temperature tolerant strains of GIFT. In this study, we built control (28 °C) and heat-treated (37...
August 18, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28821760/a-database-of-breast-oncogenic-specific-sirnas
#6
Atul Tyagi, Manoj Semwal, Ashok Sharma
Breast cancer is a serious problem causing the death of women across the world. At present, one of the major challenges is to design drugs to target breast cancer specific gene(s). RNA interference (RNAi) is an important technique for targeted gene silencing that may lead to promising novel therapeutic strategies for breast cancer. Therefore, identification of such molecules having high oncogene specificity is the need of the hour. Here, we have developed a database named as Breast Oncogenic Specific siRNAs (BOSS, http://bioinformatics...
August 18, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28821654/wnt9a-can-influence-cell-fates-and-neural-connectivity-across-the-radial-axis-of-the-developing-cochlea
#7
Vidhya Munnamalai, Ulrike J Sienknecht, R Keith Duncan, M Katie Scott, Ankita Thawani, Kristen N Fantetti, Nadia M Atallah, Deborah J Biesemeier, Kuhn H Song, Kirsten Luethy, Eric Traub, Donna M Fekete
Vertebrate hearing organs manifest cellular asymmetries across the radial axis that underlie afferent versus efferent circuits between the inner ear and the brain. Thus, understanding the molecular control of patterning across this axis has important functional implications. Radial axis patterning begins before the cells become postmitotic, and is likely linked to the onset of asymmetric expression of secreted factors adjacent to the sensory primordium. This study explores one such asymmetrically-expressed gene, Wnt9a, that becomes restricted to the neural edge of the avian auditory organ, the basilar papilla, by embryonic day (E) 5...
August 14, 2017: Journal of Neuroscience: the Official Journal of the Society for Neuroscience
https://www.readbyqxmd.com/read/28821552/differences-in-temperature-and-water-chemistry-shape-distinct-diversity-patterns-in-thermophilic-microbial-communities
#8
Cecilia M Chiriac, Edina Szekeres, Knut Rudi, Andreea Baricz, Adriana Hegedus, Nicolae Dragoş, Cristian Coman
This study presents the biodiversity and ecology of microbial mats developed in thermal gradients (20-65 °C) in the surroundings of three drillings (CH, CI, MB) tapping a hyperthermal aquifer from Romania. Using a metabarcoding approach, 16S rRNA genes were sequenced from both DNA and RNA transcripts (cDNA) and compared. The relationships between the microbial diversity and the physico-chemical factors were explored. Additionally, the cDNA data was used for in silico functionality predictions, bringing new insights into the functional potential and dynamics of these communities...
August 18, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28821551/coordinated-regulation-of-the-eii-man-and-frurki-operons-of-streptococcus-mutans-by-global-and-fructose-specific-pathways
#9
Lin Zeng, Brinta Chakraborty, Tanaz Farivar, Robert A Burne
The glucose/mannose-PTS permease EII(Man) encoded by manLMN in the dental caries pathogen Streptococcus mutans has a dominant influence on sugar-specific, CcpA-independent catabolite repression (CR). Mutations in manL affect energy metabolism and virulence-associated traits, including biofilm formation, acid tolerance and competence. Using promoter:reporter fusions, expression of the manLMN and the fruRKI operons, encoding a transcriptional regulator, a fructose-1-P kinase and a fructose-PTS permease EII(Fru), respectively, was monitored in response to carbohydrate source and in mutants lacking CcpA, FruR, and components of EII(Man) Expression of genes for EII(Man) and EII(Fru) was directly regulated by CcpA and CR, as evinced by in vivo and in vitro methods...
August 18, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28821273/a-practical-guide-to-single-cell-rna-sequencing-for-biomedical-research-and-clinical-applications
#10
REVIEW
Ashraful Haque, Jessica Engel, Sarah A Teichmann, Tapio Lönnberg
RNA sequencing (RNA-seq) is a genomic approach for the detection and quantitative analysis of messenger RNA molecules in a biological sample and is useful for studying cellular responses. RNA-seq has fueled much discovery and innovation in medicine over recent years. For practical reasons, the technique is usually conducted on samples comprising thousands to millions of cells. However, this has hindered direct assessment of the fundamental unit of biology-the cell. Since the first single-cell RNA-sequencing (scRNA-seq) study was published in 2009, many more have been conducted, mostly by specialist laboratories with unique skills in wet-lab single-cell genomics, bioinformatics, and computation...
August 18, 2017: Genome Medicine
https://www.readbyqxmd.com/read/28820721/risk-factors-associated-with-blood-exposure-for-sporadic-hepatitis-e-in-dhaka-bangladesh
#11
Hossain M S Sazzad, Stephen P Luby, Alain B Labrique, Saleem Kamili, Tonya M Hayden, Nourine A Kamili, Chong-Gee Teo, Emily S Gurley
Fecal contamination of drinking water is associated with large hepatitis E virus (HEV) outbreaks of genotypes 1 and 2 in endemic areas. Sporadic transmission of HEV genotypes 3 and 4 in high-income countries has been associated with exposure to blood and animal contact. The objective of the study was to identify the risk factors for hepatitis E and the genotype(s) causing sporadic hepatitis E in Dhaka, Bangladesh. We selected, from a diagnostic center in Dhaka between November 2008 and November 2009, cases presenting with jaundice and anti-HEV IgM antibodies and age-matched controls were defined as those with no history of jaundice and normal blood test results...
August 14, 2017: American Journal of Tropical Medicine and Hygiene
https://www.readbyqxmd.com/read/28820494/immune-response-patterns-and-next-generation-sequencing-diagnostics-for-the-detection-of-mycoses-in-patients-with-septic-shock-results-of-a-combined-clinical-and-experimental-investigation
#12
Sebastian O Decker, Annette Sigl, Christian Grumaz, Philip Stevens, Yevhen Vainshtein, Stefan Zimmermann, Markus A Weigand, Stefan Hofer, Kai Sohn, Thorsten Brenner
Fungi are of increasing importance in sepsis. However, culture-based diagnostic procedures are associated with relevant weaknesses. Therefore, culture- and next-generation sequencing (NGS)-based fungal findings as well as corresponding plasma levels of β-d-glucan, interferon gamma (INF-γ), tumor necrosis factor alpha (TNF-α), interleukin (IL)-2, -4, -6, -10, -17A, and mid-regional proadrenomedullin (MR-proADM) were evaluated in 50 septic patients at six consecutive time points within 28 days after sepsis onset...
August 18, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/28820366/determination-of-ferret-enteric-coronavirus-genome-in-laboratory-ferrets
#13
Tian-Cheng Li, Sayaka Yoshizaki, Michiyo Kataoka, Yen Hai Doan, Yasushi Ami, Yuriko Suzaki, Tomofumi Nakamura, Naokazu Takeda, Takaji Wakita
Ferret enteric coronavirus (FRECV) RNA was detected in laboratory ferrets. Analysis of the complete genome sequence of 2 strains, FRCoV4370 and FRCoV063, revealed that FRECV shared 49.9%-68.9% nucleotide sequence identity with known coronaviruses. These results suggest that FRECV might be classified as a new species in the genus Alphacoronavirus.
September 2017: Emerging Infectious Diseases
https://www.readbyqxmd.com/read/28820325/small-alarmone-synthetases-as-novel-bacterial-rna-binding-proteins
#14
Vasili Hauryliuk, Gemma C Atkinson
The alarmone nucleotides guanosine pentaphosphate (pppGpp) and tetraphosphate (ppGpp), collectively referred to as (p)ppGpp, are key regulators of bacterial growth, stress adaptation, antibiotic tolerance and pathogenicity. We have recently shown that the Small Alarmone Synthetase (SAS) RelQ from the Gram-positive pathogen Enterococcus faecalis has an RNA-binding activity (Beljantseva et al. 2017). RelQ's activities as an enzyme and as a RNA-binding protein are mutually incompatible: binding of single-stranded RNA potently inhibits (p)ppGpp synthesis in a sequence-specific manner, and RelQ's enzymatic activity destabilizes the RNA:RelQ complex...
August 18, 2017: RNA Biology
https://www.readbyqxmd.com/read/28820243/interpreting-reverse-transcriptase-termination-and-mutation-events-for-greater-insight-into-the-chemical-probing-of-rna
#15
Alec N Sexton, Peter Y Wang, Michael Rutenberg-Schoenberg, Matthew D Simon
Chemical probing has the power to provide insight into RNA conformation in vivo and in vitro, but interpreting the results depends on methods to detect the chemically modified nucleotides. Traditionally, the presence of modified bases was inferred from their ability to halt reverse transcriptase during primer extension and the locations of termination sites observed by electrophoresis or sequencing. More recently, modification-induced mutations have been used as a readout for chemical probing data. Given the variable propensity for mismatch incorporation and read-through with different reverse transcriptases, we examined how termination and mutation events compare to each other in the same chemical probing experiments...
August 18, 2017: Biochemistry
https://www.readbyqxmd.com/read/28819692/molecular-characterization-of-atypical-antigenic-variants-of-canine-rabies-virus-reveals-its-reintroduction-by-wildlife-vectors-in-southeastern-mexico
#16
Fabiola Garcés-Ayala, Nidia Aréchiga-Ceballos, Joanna M Ortiz-Alcántara, Elizabeth González-Durán, Sandra I Pérez-Agüeros, Alfonso Méndez-Tenorio, Belem Torres-Longoria, Irma López-Martínez, Lucía Hernández-Rivas, José Alberto Díaz-Quiñonez, José Ernesto Ramírez-González
Rabies is an infectious viral disease that is practically always fatal following the onset of clinical signs. In Mexico, the last case of human rabies transmitted by dogs was reported in 2006 and canine rabies has declined significantly due to vaccination campaigns implemented in the country. Here we report on the molecular characterization of six rabies virus strains found in Yucatan and Chiapas, remarkably, four of them showed an atypical reaction pattern when antigenic characterization with a reduced panel of eight monoclonal antibodies was performed...
August 17, 2017: Archives of Virology
https://www.readbyqxmd.com/read/28819455/microvesicles-as-potential-biomarkers-for-the-identification-of-senescence-in-human-mesenchymal-stem-cells
#17
Qian Lei, Teng Liu, Fei Gao, Hui Xie, Li Sun, Aiqi Zhao, Wenxiang Ren, Hao Guo, Liming Zhang, Hongxiang Wang, Zhichao Chen, An-Yuan Guo, Qiubai Li
Senescence in human mesenchymal stem cells (MSCs) not only contributes to organism aging and the development of a variety of diseases but also severely impairs their therapeutic properties as a promising cell therapy. Studies searching for efficient biomarkers that represent cellular senescence have attracted much attention; however, no single marker currently provides an accurate cell-free representation of cellular senescence. Here, we studied characteristics of MSC-derived microvesicles (MSC-MVs) that may reflect the senescence in their parental MSCs...
2017: Theranostics
https://www.readbyqxmd.com/read/28819439/development-and-validation-of-a-serum-biomarker-panel-for-the-detection-of-esophageal-squamous-cell-carcinoma-through-rna-transcriptome-sequencing
#18
Shan Xing, Xin Zheng, Li-Qiang Wei, Shi-Jian Song, Dan Liu, Ning Xue, Xiao-Min Liu, Mian-Tao Wu, Qian Zhong, Chu-Mei Huang, Mu-Sheng Zeng, Wan-Li Liu
Serum tumor markers for the diagnosis of esophageal squamous cell carcinoma (ESCC) have low sensitivity. This study aims to identify new serum markers for ESCC diagnosis from RNA sequencing (RNA-seq) data. RNA-seq was performed using six pairs of ESCC and matched normal tissues. The candidates for ESCC were screened from the differentially expressed genes. The candidates were analyzed by ELISA from the serum of a test group and a validation group. Real-time PCR, Western blotting and immunohistochemistry were used to detect the expression of the candidates in tumor cell lines and tumor tissues...
2017: Journal of Cancer
https://www.readbyqxmd.com/read/28819320/genome-wide-identification-and-expression-analysis-of-e2-ubiquitin-conjugating-enzymes-in-tomato
#19
Bhaskar Sharma, Tarun Kumar Bhatt
The ubiquitin-proteasomal degradation mechanism has gained the attention over the past decade. The E2 ubiquitin conjugating enzymes are the crucial part of ubiquitination mechanism and they are believed to hold imperative association for plant development. It accepts ubiquitin from the E1 enzyme and interacts with the E3 ligase to transfer ubiquitin or directly transfers ubiquitin to the substrate. The functional aspects of E2 ubiquitin enzymes in plant systems are unclear. Tomato is being used as a model plant and rarely explored to study E2 ubiquitin enzyme...
August 17, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28819278/interleukin-4-induces-apoptosis-of-acute-myeloid-leukemia-cells-in-a-stat6-dependent-manner
#20
P Peña-Martínez, M Eriksson, R Ramakrishnan, M Chapellier, C Högberg, C Orsmark-Pietras, J Richter, A Andersson, T Fioretos, M Järås
Cytokines provide signals that regulate immature normal and acute myeloid leukemia (AML) cells in the bone marrow microenvironment. We here identify interleukin 4 (IL4) as a selective inhibitor of AML cell growth and survival in a cytokine screen using fluorescently labeled AML cells. RNA-sequencing of the AML cells revealed an IL4-induced upregulation of Stat6 target genes and enrichment of apoptosis-related gene expression signatures. Consistent with these findings, we found that IL4 stimulation of AML cells induced Stat6 phosphorylation and that disruption of Stat6 using CRISPR/Cas9-genetic engineering rendered cells partially resistant to IL4-induced apoptosis...
August 18, 2017: Leukemia: Official Journal of the Leukemia Society of America, Leukemia Research Fund, U.K
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