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https://www.readbyqxmd.com/read/29775926/chlorophyll-a-%C3%AF-uorescence-and-transcriptome-reveal-the-toxicological-effects-of-bisphenol-a-on-an-invasive-cyanobacterium-cylindrospermopsis-raciborskii
#1
Rong Xiang, Junqiong Shi, Hongbo Zhang, Congcong Dong, Li Liu, JunKe Fu, Xinyu He, Yanjun Yan, Zhongxing Wu
Bisphenol A has attracted worldwide attention due to its harmful effects on humans, animals and plants. In this study, the toxicological effects of BPA on Cylindrospermopsis raciborskii were assessed based on chlorophyll a fluorescence and transcriptome analyses. The results showed that the growth of C. raciborskii was significantly inhibited when BPA exceeded 0.1 mg L-1 . A marked rise of phase J was observed at a concentration greater than 0.1 mg L-1 , while a K phase appeared at 20 mg L-1 . The chlorophyll a fluorescence parameters of RC/CS0 , F0 , φP0 , φE0 , and ψ0 , underwent a significant decline under all treatments of BPA, whereas a significant increase in both VJ and M0 occurred under all concentrations of BPA...
May 9, 2018: Aquatic Toxicology
https://www.readbyqxmd.com/read/29775779/metabolomics-in-breast-cancer-a-decade-in-review
#2
REVIEW
Amelia McCartney, Alessia Vignoli, Laura Biganzoli, Richard Love, Leonardo Tenori, Claudio Luchinat, Angelo Di Leo
Breast cancer (BC) is a heterogeneous disease which has been characterised and stratified by many platforms such as clinicopathological risk factors, genomic assays, computer generated models, and various "-omic" technologies. Genomic, proteomic and transcriptomic analysis in breast cancer research is well established, and metabolomics, which can be considered a downstream manifestation of the former disciplines, is of growing interest. The past decade has seen significant progress made within the field of clinical metabolomic BC research, with several groups demonstrating results with significant promise in the setting of BC screening and biological characterisation, as well as future potential for prognostic metabolomic biomarkers...
May 3, 2018: Cancer Treatment Reviews
https://www.readbyqxmd.com/read/29775690/molecular-subtyping-of-colorectal-cancer-recent-progress-new-challenges-and-emerging-opportunities
#3
REVIEW
Wei Wang, Raju Kandimalla, Hao Huang, Lina Zhu, Ying Li, Feng Gao, Ajay Goel, Xin Wang
Colorectal cancer (CRC) is one of the leading causes of cancer-related deaths worldwide. Similar to many other malignancies, CRC is a heterogeneous disease, making it a clinical challenge for optimization of treatment modalities in reducing the morbidity and mortality associated with this disease. A more precise understanding of the biological properties that distinguish patients with colorectal tumors, especially in terms of their clinical features, is a key requirement towards a more robust, targeted-drug design, and implementation of individualized therapies...
May 15, 2018: Seminars in Cancer Biology
https://www.readbyqxmd.com/read/29775636/epithelial-proliferation-in-inflammatory-skin-disease-is-regulated-by-ttc7-in-fibroblasts-and-lymphocytes
#4
Ursina Nüesch, Andrea A Mauracher, Lennart Opitz, Benjamin Volkmer, Katarzyna Michalak-Mićka, Jivko Kamarachev, Tom Hartwig, Ernst Reichmann, Burkhard Becher, Stefano Vavassori, Jana Pachlopnik Schmid
BACKGROUND: Mutations in tetratricopeptide repeat domain 7A (TTC7A) and its mouse orthologue Ttc7 result in a multisystemic disease, mostly affecting epithelial barriers and the immune system. Despite successful hematopoietic stem cell transplantation, ongoing progression of gastrointestinal manifestations can be life-threatening in TTC7A-deficient patients. OBJECTIVE: To identify whether TTC7A mutations dysregulate epithelial cells only, or whether a cell-intrinsic defect in lymphocytes or other cells contributes to disease manifestations...
May 15, 2018: Journal of Allergy and Clinical Immunology
https://www.readbyqxmd.com/read/29775430/gene-expression-profile-analysis-of-aortic-vascular-smooth-muscle-cells-reveals-upregulation-of-cadherin-genes-in-myocardial-infarction-patients
#5
Anselm A Derda, Chin Cheng Woo, Thidathip Wongsurawat, Mark Richards, Chuen Neng Lee, Theo Kofidis, Vladimir A Kuznetsov, Vitaly A Sorokin
Myocardial infarction (MI) induced by acute coronary arterial occlusion is usually secondary to atherosclerotic plaque rupture. Dysregulated response of vascular smooth muscle cells (VSMCs) in atherosclerotic plaques may promote plaque rupture. Cadherins (CDHs) form adherens junctions and are known stabilizers of atherosclerotic plaques. To date, the expression patterns of cadherin have not been well investigated in MI aortic VSMCs. We aimed to investigate the expression of cadherin genes in the aortic wall of patients with and without MI...
May 18, 2018: Physiological Genomics
https://www.readbyqxmd.com/read/29774544/functional-molecules-in-mesothelial-to-mesenchymal-transition-revealed-by-transcriptome-analyses
#6
Sara Namvar, Adrian S Woolf, Leo A H Zeef, Thomas Wilm, Bettina Wilm, Sarah E Herrick
Peritoneal fibrosis is a common complication of abdominal and pelvic surgery, and can also be triggered by peritoneal dialysis, resulting in treatment failure. In these settings, fibrosis is driven by activated myofibroblasts that are considered to be partly derived by mesothelial-to-mesenchymal transition (MMT). We hypothesised that if the molecular signature of MMT could be better defined, these insights could be exploited to block this pathological cellular transition. Rat peritoneal mesothelial cells were purified, using an antibody to HBME1, a protein present on mesothelial cell microvilli, and streptavidin nanobead technology...
May 17, 2018: Journal of Pathology
https://www.readbyqxmd.com/read/29774351/diversity-of-biologically-active-secondary-metabolites-from-endophytic-and-saprotrophic-fungi-of-the-ascomycete-order-xylariales
#7
REVIEW
Soleiman E Helaly, Benjarong Thongbai, Marc Stadler
Covering: up to December 2017The diversity of secondary metabolites in the fungal order Xylariales is reviewed with special emphasis on correlations between chemical diversity and biodiversity as inferred from recent taxonomic and phylogenetic studies. The Xylariales are arguably among the predominant fungal endophytes, which are the producer organisms of pharmaceutical lead compounds including the antimycotic sordarins and the antiparasitic nodulisporic acids, as well as the marketed drug, emodepside. Many Xylariales are "macromycetes", which form conspicuous fruiting bodies (stromata), and the metabolite profiles that are predominant in the stromata are often complementary to those encountered in corresponding mycelial cultures of a given species...
May 18, 2018: Natural Product Reports
https://www.readbyqxmd.com/read/29774113/ezh2-inhibitors-sensitize-myeloma-cell-lines-to-panobinostat-resulting-in-unique-combinatorial-transcriptomic-changes
#8
Taylor Harding, Jessica Swanson, Brian Van Ness
Multiple myeloma (MM) remains a largely incurable hematologic cancer due to an inability to broadly target inevitable drug-resistant relapse. Epigenetic abnormalities are abundantly present in multiple myeloma and have increasingly demonstrated critical roles for tumor development and relapse to standard therapies. Accumulating evidence suggests that the histone methyltransferase EZH2 is aberrantly active in MM. We tested the efficacy of EZH2 specific inhibitors in a large panel of human MM cell lines (HMCLs) and found that only a subset of HMCLs demonstrate single agent sensitivity despite ubiquitous global H3K27 demethylation...
April 24, 2018: Oncotarget
https://www.readbyqxmd.com/read/29774072/twist-promotes-tumor-metastasis-in-basal-like-breast-cancer-by-transcriptionally-upregulating-ror1
#9
Jingying Cao, Xin Wang, Tao Dai, Yuanzhong Wu, Meifang Zhang, Renxian Cao, Ruhua Zhang, Gang Wang, Rou Jiang, Binhua P Zhou, Jian Shi, Tiebang Kang
Rationale: Twist is a key transcription factor for induction of epithelial-mesenchymal transition (EMT), which promotes cell migration, invasion, and cancer metastasis, confers cancer cells with stem cell-like characteristics, and provides therapeutic resistance. However, the functional roles and targeted genes of Twist in EMT and cancer progression remain elusive. Methods: The potential targeted genes of Twist were identified from the global transcriptomes of T47D/Twist cells by microarray analysis. EMT phenotype was detected by western blotting and immunofluorescence of marker proteins...
2018: Theranostics
https://www.readbyqxmd.com/read/29774067/estrogen-receptors-orchestrate-cell-growth-and-differentiation-to-facilitate-liver-regeneration
#10
Ta-Lun Kao, Yu-Ping Kuan, Wei-Chung Cheng, Wei-Chun Chang, Long-Bin Jeng, Shuyuan Yeh, Wen-Lung Ma
Background and Aims: Improving liver regeneration (LR) capacity and thereby liver function reserve is a critical bridging strategy for managing liver failure patients. Since estrogen signaling may participate in LR, our aim was to characterize the roles of ERα and ERβ in LR. Methods: LR capacity and estradiol levels following 2/3rd partial hepatectomy (PHx) were compared in ERα-KO or ERβ-KO vs. wildtype mice. The ERα- or ERβ-related transcriptome and interactome were analyzed from regenerating livers, and then bioinformatics was used for pathway discovery and analysis of interactome-transcriptome relationships...
2018: Theranostics
https://www.readbyqxmd.com/read/29774046/identification-of-rice-genes-associated-with-enhanced-cold-tolerance-by-comparative-transcriptome-analysis-with-two-transgenic-rice-plants-overexpressing-dacbf4-or-dacbf7-isolated-from-antarctic-flowering-plant-deschampsia-antarctica
#11
Mi Young Byun, Li Hua Cui, Jungeun Lee, Hyun Park, Andosung Lee, Woo Taek Kim, Hyoungseok Lee
Few plant species can survive in Antarctica, the harshest environment for living organisms. Deschampsia antarctica is the only natural grass species to have adapted to and colonized the maritime Antarctic. To investigate the molecular mechanism of the Antarctic adaptation of this plant, we identified and characterized D. antarctica C-repeat binding factor 4 ( DaCBF4 ), which belongs to monocot CBF group IV. The transcript level of DaCBF4 in D. antarctica was markedly increased by cold and dehydration stress...
2018: Frontiers in Plant Science
https://www.readbyqxmd.com/read/29774045/transposon-derived-non-coding-rnas-and-their-function-in-plants
#12
REVIEW
Jungnam Cho
Transposable elements (TEs) are often regarded as harmful genomic factors and indeed they are strongly suppressed by the epigenetic silencing mechanisms. On the other hand, the mobilization of TEs brings about variability of genome and transcriptome which are essential in the survival and evolution of the host species. The vast majority of such controlling TEs influence the neighboring genes in cis by either promoting or repressing the transcriptional activities. Although TEs are highly repetitive in the genomes and transcribed in specific stress conditions or developmental stages, the trans -acting regulatory roles of TE-derived RNAs have been rarely studied...
2018: Frontiers in Plant Science
https://www.readbyqxmd.com/read/29774043/integration-of-the-pokeweed-mirna-and-mrna-transcriptomes-reveals-targeting-of-jasmonic-acid-responsive-genes
#13
Kira C M Neller, Alexander Klenov, Juan C Guzman, Katalin A Hudak
The American pokeweed plant, Phytolacca americana , displays broad-spectrum resistance to plant viruses and is a heavy metal hyperaccumulator. However, little is known about the regulation of biotic and abiotic stress responses in this non-model plant. To investigate the control of miRNAs in gene expression, we sequenced the small RNA transcriptome of pokeweed treated with jasmonic acid (JA), a hormone that mediates pathogen defense and stress tolerance. We predicted 145 miRNAs responsive to JA, most of which were unique to pokeweed...
2018: Frontiers in Plant Science
https://www.readbyqxmd.com/read/29774040/-oligocellula1-high-expression-of-osmotically-responsive-genes15-promotes-cell-proliferation-with-histone-deacetylase9-and-powerdress-during-leaf-development-in-arabidopsis-thaliana
#14
Marina Suzuki, Nanae Shinozuka, Tomohiro Hirakata, Miyuki T Nakata, Taku Demura, Hirokazu Tsukaya, Gorou Horiguchi
Organ size regulation is dependent on the precise spatial and temporal regulation of cell proliferation and cell expansion. A number of transcription factors have been identified that play a key role in the determination of aerial lateral organ size, but their functional relationship to various chromatin modifiers has not been well understood. To understand how leaf size is regulated, we previously isolated the oligocellula1 ( oli1 ) mutant of Arabidopsis thaliana that develops smaller first leaves than the wild type (WT) mainly due to a reduction in the cell number...
2018: Frontiers in Plant Science
https://www.readbyqxmd.com/read/29773992/functional-analysis-of-rna-interference-related-soybean-pod-borer-lepidoptera-genes-based-on-transcriptome-sequences
#15
Fanli Meng, Mingyu Yang, Yang Li, Tianyu Li, Xinxin Liu, Guoyue Wang, Zhanchun Wang, Xianhao Jin, Wenbin Li
RNA interference (RNAi) is useful for controlling pests of agriculturally important crops. The soybean pod borer (SPB) is the most important soybean pest in Northeastern Asia. In an earlier study, we confirmed that the SPB could be controlled via transgenic plant-mediated RNAi. Here, the SPB transcriptome was sequenced to identify RNAi-related genes, and also to establish an RNAi-of-RNAi assay system for evaluating genes involved in the SPB systemic RNAi response. The core RNAi genes, as well as genes potentially involved in double-stranded RNA (dsRNA) uptake were identified based on SPB transcriptome sequences...
2018: Frontiers in Physiology
https://www.readbyqxmd.com/read/29773913/auxin-decreases-chromatin-accessibility-through-the-tir1-afbs-auxin-signaling-pathway-in-proliferative-cells
#16
Junko Hasegawa, Takuya Sakamoto, Satoru Fujimoto, Tomoe Yamashita, Takamasa Suzuki, Sachihiro Matsunaga
Chromatin accessibility is closely associated with chromatin functions such as gene expression, DNA replication, and maintenance of DNA integrity. However, the relationship between chromatin accessibility and plant hormone signaling has remained elusive. Here, based on the correlation between chromatin accessibility and DNA damage, we used the sensitivity to DNA double strand breaks (DSBs) as an indicator of chromatin accessibility and demonstrated that auxin regulates chromatin accessibility through the TIR1/AFBs signaling pathway in proliferative cells...
May 17, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29773905/establishing-anaerobic-hydrocarbon-degrading-enrichment-cultures-of-microorganisms-under-strictly-anoxic-conditions
#17
Rafael Laso-Pérez, Viola Krukenberg, Florin Musat, Gunter Wegener
Traditionally, the description of microorganisms starts with their isolation from an environmental sample. Many environmentally relevant anaerobic microorganisms grow very slowly, and often they rely on syntrophic interactions with other microorganisms. This impedes their isolation and characterization by classic microbiological techniques. We developed and applied an approach for the successive enrichment of syntrophic hydrocarbon-degrading microorganisms from environmental samples. We collected samples from microbial mat-covered hydrothermally heated hydrocarbon-rich sediments of the Guaymas Basin and mixed them with synthetic mineral medium to obtain sediment slurries...
June 2018: Nature Protocols
https://www.readbyqxmd.com/read/29773851/modeling-transcriptional-rewiring-in-neutrophils-through-the-course-of-treated-juvenile-idiopathic-arthritis
#18
Zihua Hu, Kaiyu Jiang, Mark Barton Frank, Yanmin Chen, James N Jarvis
Neutrophils in children with the polyarticular form of juvenile idiopathic arthritis (JIA) display abnormal transcriptional patterns linked to fundamental metabolic derangements. In this study, we sought to determine the effects of therapy on mRNA and miRNA expression networks in polyarticular JIA. Using exon and miRNA microarrays, we studied children with untreated active JIA (ADU, n = 35), children with active disease on therapy with methotrexate ± etanercept (ADT, n = 26), and children with inactive disease also on therapy (ID, n = 14)...
May 17, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29773848/identification-and-tissue-distribution-of-chemosensory-protein-and-odorant-binding-protein-genes-in-tropidothorax-elegans-distant-hemiptera-lygaeidae
#19
Yue-Qin Song, Hui-Zhong Sun, Jun Du
Tropidothorax elegans Distant (Hemiptera: Lygaeidae) is an insect pest that inflicts damage to vegetables and flowering plants across China. The olfactory system regulates insect behavior, such as feeding, mating, oviposition and predator avoidance. Odorant-binding proteins (OBPs) and the chemosensory proteins (CSPs) are two groups of small soluble proteins that initiate olfactory signal transduction in insects. In this study, we generated antennal transcriptomes of male and female T. elegans, and identified 19 putative OBP (14 classic OBPs and five plus-C OBPs) and seven CSP genes...
May 17, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29773840/rna-seq-and-uhplc-q-tof-ms-based-lipidomics-study-in-lysiphlebia-japonica
#20
Xueke Gao, Junyu Luo, Limin Lü, LiJuan Zhang, Shuai Zhang, Jinjie Cui
Lipids play an important role in energy storage, membrane structure stabilization and signaling. Parasitoids are excellent models to study lipidomics because a majority of them do not accumulate during their free-living life-stage. Studies on parasitoids have mostly focused on the changes in the lipids and gene transcripts in hosts and little attention has been devoted to lipidomics and transcriptomics changes in parasitoids. In this study, a relative quantitative analysis of lipids and their gene transcripts in 3-days-old Lysiphlebia japonica larva (3 days after spawning) and pupae were performed using liquid chromatography, mass spectrometry and RNA-seq...
May 17, 2018: Scientific Reports
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