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https://www.readbyqxmd.com/read/27906134/tumour-suppressor-micrornas-regulate-ovarian-cancer-cell-physical-properties-and-invasive-behaviour
#1
Clara K Chan, Yinghong Pan, Kendra Nyberg, Marco A Marra, Emilia L Lim, Steven J M Jones, Dianna Maar, Ewan A Gibb, Preethi H Gunaratne, A Gordon Robertson, Amy C Rowat
The activities of pathways that regulate malignant transformation can be influenced by microRNAs (miRs). Recently, we showed that increased expression of five tumour-suppressor miRs, miR-508-3p, miR-508-5p, miR-509-3p, miR-509-5p and miR-130b-3p, correlate with improved clinical outcomes in human ovarian cancer patients, and that miR-509-3p attenuates invasion of ovarian cancer cell lines. Here, we investigate the mechanism underlying this reduced invasive potential by assessing the impact of these five miRs on the physical properties of cells...
November 2016: Open Biology
https://www.readbyqxmd.com/read/27906133/the-plastid-genome-of-some-eustigmatophyte-algae-harbours-a-bacteria-derived-six-gene-cluster-for-biosynthesis-of-a-novel-secondary-metabolite
#2
Tatiana Yurchenko, Tereza Ševčíková, Hynek Strnad, Anzhelika Butenko, Marek Eliáš
Acquisition of genes by plastid genomes (plastomes) via horizontal gene transfer (HGT) seems to be a rare phenomenon. Here, we report an interesting case of HGT revealed by sequencing the plastomes of the eustigmatophyte algae Monodopsis sp. MarTras21 and Vischeria sp. CAUP Q 202. These plastomes proved to harbour a unique cluster of six genes, most probably acquired from a bacterium of the phylum Bacteroidetes, with homologues in various bacteria, typically organized in a conserved uncharacterized putative operon...
November 2016: Open Biology
https://www.readbyqxmd.com/read/27906132/the-distinct-fate-of-smooth-and-rough-mycobacterium-abscessus-variants-inside-macrophages
#3
Anne-Laure Roux, Albertus Viljoen, Aïcha Bah, Roxane Simeone, Audrey Bernut, Laura Laencina, Therese Deramaudt, Martin Rottman, Jean-Louis Gaillard, Laleh Majlessi, Roland Brosch, Fabienne Girard-Misguich, Isabelle Vergne, Chantal de Chastellier, Laurent Kremer, Jean-Louis Herrmann
Mycobacterium abscessus is a pathogenic, rapidly growing mycobacterium responsible for pulmonary and cutaneous infections in immunocompetent patients and in patients with Mendelian disorders, such as cystic fibrosis (CF). Mycobacterium abscessus is known to transition from a smooth (S) morphotype with cell surface-associated glycopeptidolipids (GPL) to a rough (R) morphotype lacking GPL. Herein, we show that M. abscessus S and R variants are able to grow inside macrophages and are present in morphologically distinct phagosomes...
November 2016: Open Biology
https://www.readbyqxmd.com/read/27906131/the-mir-125-family-is-an-important-regulator-of-the-expression-and-maintenance-of-maternal-effect-genes-during-preimplantational-embryo-development
#4
Kyeoung-Hwa Kim, You-Mi Seo, Eun-Young Kim, Su-Yeon Lee, Jini Kwon, Jung-Jae Ko, Kyung-Ah Lee
Previously, we reported that Sebox is a new maternal effect gene (MEG) that is required for early embryo development beyond the two-cell (2C) stage because this gene orchestrates the expression of important genes for zygotic genome activation (ZGA). However, regulators of Sebox expression remain unknown. Therefore, the objectives of the present study were to use bioinformatics tools to identify such regulatory microRNAs (miRNAs) and to determine the effects of the identified miRNAs on Sebox expression. Using computational algorithms, we identified a motif within the 3'UTR of Sebox mRNA that is specific to the seed region of the miR-125 family, which includes miR-125a-5p, miR-125b-5p and miR-351-5p...
November 2016: Open Biology
https://www.readbyqxmd.com/read/27881741/correction-to-identification-of-the-critical-residues-responsible-for-differential-reactivation-of-the-triosephosphate-isomerases-of-two-trypanosomes
#5
Monica Rodríguez-Bolaños, Nallely Cabrera, Ruy Perez-Montfort
No abstract text is available yet for this article.
November 2016: Open Biology
https://www.readbyqxmd.com/read/27881740/peripheral-self-reactivity-regulates-antigen-specific-cd8-t-cell-responses-and-cell-division-under-physiological-conditions
#6
Lee Kim Swee, Zhen Wei Tan, Anna Sanecka, Nagisa Yoshida, Harshil Patel, Gijsbert Grotenbreg, Eva-Maria Frickel, Hidde L Ploegh
T-cell identity is established by the expression of a clonotypic T-cell receptor (TCR), generated by somatic rearrangement of TCRα and β genes. The properties of the TCR determine both the degree of self-reactivity and the repertoire of antigens that can be recognized. For CD8 T cells, the relationship between TCR identity-hence reactivity to self-and effector function(s) remains to be fully understood and has rarely been explored outside of the H-2(b) haplotype. We measured the affinity of three structurally distinct CD8 T-cell-derived TCRs that recognize the identical H-2 L(d)-restricted epitope, derived from the Rop7 protein of Toxoplasma gondii We used CD8 T cells obtained from mice generated by somatic cell nuclear transfer as the closest approximation of primary T cells with physiological TCR rearrangements and TCR expression levels...
November 2016: Open Biology
https://www.readbyqxmd.com/read/27881739/the-functional-readthrough-extension-of-malate-dehydrogenase-reveals-a-modification-of-the-genetic-code
#7
Julia Hofhuis, Fabian Schueren, Christopher Nötzel, Thomas Lingner, Jutta Gärtner, Olaf Jahn, Sven Thoms
Translational readthrough gives rise to C-terminally extended proteins, thereby providing the cell with new protein isoforms. These may have different properties from the parental proteins if the extensions contain functional domains. While for most genes amino acid incorporation at the stop codon is far lower than 0.1%, about 4% of malate dehydrogenase (MDH1) is physiologically extended by translational readthrough and the actual ratio of MDH1x (extended protein) to 'normal' MDH1 is dependent on the cell type...
November 2016: Open Biology
https://www.readbyqxmd.com/read/27881738/human-selenoprotein-p-and-s-variant-mrnas-with-different-numbers-of-secis-elements-and-inferences-from-mutant-mice-of-the-roles-of-multiple-secis-elements
#8
Sen Wu, Marco Mariotti, Didac Santesmasses, Kristina E Hill, Janinah Baclaocos, Estel Aparicio-Prat, Shuping Li, John Mackrill, Yuanyuan Wu, Michael T Howard, Mario Capecchi, Roderic Guigó, Raymond F Burk, John F Atkins
Dynamic redefinition of the 10 UGAs in human and mouse selenoprotein P (Sepp1) mRNAs to specify selenocysteine instead of termination involves two 3' UTR structural elements (SECIS) and is regulated by selenium availability. In addition to the previously known human Sepp1 mRNA poly(A) addition site just 3' of SECIS 2, two further sites were identified with one resulting in 10-25% of the mRNA lacking SECIS 2. To address function, mutant mice were generated with either SECIS 1 or SECIS 2 deleted or with the first UGA substituted with a serine codon...
November 2016: Open Biology
https://www.readbyqxmd.com/read/27881737/rankl-rank-from-bone-loss-to-the-prevention-of-breast-cancer
#9
REVIEW
Verena Sigl, Laundette P Jones, Josef M Penninger
RANK and RANKL, a receptor ligand pair belonging to the tumour necrosis factor family, are the critical regulators of osteoclast development and bone metabolism. Besides their essential function in bone, RANK and RANKL have also been identified as the key factors for the formation of a lactating mammary gland in pregnancy. Mechanistically, RANK and RANKL link the sex hormone progesterone with stem cell expansion and proliferation of mammary epithelial cells. Based on their normal physiology, RANKL/RANK control the onset of hormone-induced breast cancer through the expansion of mammary progenitor cells...
November 2016: Open Biology
https://www.readbyqxmd.com/read/27881736/reactive-oxygen-species-drive-evolution-of-pro-biofilm-variants-in-pathogens-by-modulating-cyclic-di-gmp-levels
#10
Song Lin Chua, Yichen Ding, Yang Liu, Zhao Cai, Jianuan Zhou, Sanjay Swarup, Daniela I Drautz-Moses, Stephan Christoph Schuster, Staffan Kjelleberg, Michael Givskov, Liang Yang
The host immune system offers a hostile environment with antimicrobials and reactive oxygen species (ROS) that are detrimental to bacterial pathogens, forcing them to adapt and evolve for survival. However, the contribution of oxidative stress to pathogen evolution remains elusive. Using an experimental evolution strategy, we show that exposure of the opportunistic pathogen Pseudomonas aeruginosa to sub-lethal hydrogen peroxide (H2O2) levels over 120 generations led to the emergence of pro-biofilm rough small colony variants (RSCVs), which could be abrogated by l-glutathione antioxidants...
November 2016: Open Biology
https://www.readbyqxmd.com/read/27852806/sbe6-a-novel-long-range-enhancer-involved-in-driving-sonic-hedgehog-expression-in-neural-progenitor-cells
#11
Nezha S Benabdallah, Philippe Gautier, Betul Hekimoglu-Balkan, Laura A Lettice, Shipra Bhatia, Wendy A Bickmore
The expression of genes with key roles in development is under very tight spatial and temporal control, mediated by enhancers. A classic example of this is the sonic hedgehog gene (Shh), which plays a pivotal role in the proliferation, differentiation and survival of neural progenitor cells both in vivo and in vitro. Shh expression in the brain is tightly controlled by several known enhancers that have been identified through genetic, genomic and functional assays. Using chromatin profiling during the differentiation of embryonic stem cells to neural progenitor cells, here we report the identification of a novel long-range enhancer for Shh-Shh-brain-enhancer-6 (SBE6)-that is located 100 kb upstream of Shh and that is required for the proper induction of Shh expression during this differentiation programme...
November 2016: Open Biology
https://www.readbyqxmd.com/read/27852805/computational-properties-of-mitochondria-in-t-cell-activation-and-fate
#12
REVIEW
Roman Uzhachenko, Anil Shanker, Geneviève Dupont
In this article, we review how mitochondrial Ca(2+) transport (mitochondrial Ca(2+) uptake and Na(+)/Ca(2+) exchange) is involved in T cell biology, including activation and differentiation through shaping cellular Ca(2+) signals. Based on recent observations, we propose that the Ca(2+) crosstalk between mitochondria, endoplasmic reticulum and cytoplasm may form a proportional-integral-derivative (PID) controller. This PID mechanism (which is well known in engineering) could be responsible for computing cellular decisions...
November 2016: Open Biology
https://www.readbyqxmd.com/read/27831476/the-antimicrobial-resistance-crisis-management-through-gene-monitoring
#13
Carolyn A Michael, Ashley E Franks, Maurizio Labbate
Antimicrobial resistance (AMR) is an acknowledged crisis for humanity. Its genetic origins and dire potential outcomes are increasingly well understood. However, diagnostic techniques for monitoring the crisis are currently largely limited to enumerating the increasing incidence of resistant pathogens. Being the end-stage of the evolutionary process that produces antimicrobial resistant pathogens, these measurements, while diagnostic, are not prognostic, and so are not optimal in managing this crisis. A better test is required...
November 2016: Open Biology
https://www.readbyqxmd.com/read/27810970/the-drosophila-chromosomal-protein-mst77f-is-processed-to-generate-an-essential-component-of-mature-sperm-chromatin
#14
Shuhei Kimura, Benjamin Loppin
In most animals, the bulk of sperm DNA is packaged with sperm nuclear basic proteins (SNBPs), a diverse group of highly basic chromosomal proteins notably comprising mammalian protamines. The replacement of histones with SNBPs during spermiogenesis allows sperm DNA to reach an extreme level of compaction, but little is known about how SNBPs actually function in vivo Mst77F is a Drosophila SNBP with unique DNA condensation properties in vitro, but its role during spermiogenesis remains unclear. Here, we show that Mst77F is required for the compaction of sperm DNA and the production of mature sperm, through its cooperation with protamine-like proteins Mst35Ba/b...
November 2016: Open Biology
https://www.readbyqxmd.com/read/27810969/systemic-corazonin-signalling-modulates-stress-responses-and-metabolism-in-drosophila
#15
Olga I Kubrak, Oleh V Lushchak, Meet Zandawala, Dick R Nässel
Stress triggers cellular and systemic reactions in organisms to restore homeostasis. For instance, metabolic stress, experienced during starvation, elicits a hormonal response that reallocates resources to enable food search and readjustment of physiology. Mammalian gonadotropin-releasing hormone (GnRH) and its insect orthologue, adipokinetic hormone (AKH), are known for their roles in modulating stress-related behaviour. Here we show that corazonin (Crz), a peptide homologous to AKH/GnRH, also alters stress physiology in Drosophila The Crz receptor (CrzR) is expressed in salivary glands and adipocytes of the liver-like fat body, and CrzR knockdown targeted simultaneously to both these tissues increases the fly's resistance to starvation, desiccation and oxidative stress, reduces feeding, alters expression of transcripts of Drosophila insulin-like peptides (DILPs), and affects gene expression in the fat body...
November 2016: Open Biology
https://www.readbyqxmd.com/read/27810968/physicochemical-properties-that-control-protein-aggregation-also-determine-whether-a-protein-is-retained-or-released-from-necrotic-cells
#16
Andre L Samson, Bosco Ho, Amanda E Au, Simone M Schoenwaelder, Mark J Smyth, Stephen P Bottomley, Oded Kleifeld, Robert L Medcalf
Amyloidogenic protein aggregation impairs cell function and is a hallmark of many chronic degenerative disorders. Protein aggregation is also a major event during acute injury; however, unlike amyloidogenesis, the process of injury-induced protein aggregation remains largely undefined. To provide this insight, we profiled the insoluble proteome of several cell types after acute injury. These experiments show that the disulfide-driven process of nucleocytoplasmic coagulation (NCC) is the main form of injury-induced protein aggregation...
November 2016: Open Biology
https://www.readbyqxmd.com/read/27805906/interplay-between-rna-interference-and-heat-shock-response-systems-in-drosophila-melanogaster
#17
S Yu Funikov, S S Ryazansky, A A Kanapin, M D Logacheva, A A Penin, A V Snezhkina, V Yu Shilova, D G Garbuz, M B Evgen'ev, O G Zatsepina
The genome expression pattern is strongly modified during the heat shock response (HSR) to form an adaptive state. This may be partly achieved by modulating microRNA levels that control the expression of a great number of genes that are embedded within the gene circuitry. Here, we investigated the cross-talk between two highly conserved and universal house-keeping systems, the HSR and microRNA machinery, in Drosophila melanogaster We demonstrated that pronounced interstrain differences in the microRNA levels are alleviated after heat shock (HS) to form a uniform microRNA pattern...
October 2016: Open Biology
https://www.readbyqxmd.com/read/27805905/analysis-of-drosophila-p8-and-p52-mutants-reveals-distinct-roles-for-the-maintenance-of-tfiih-stability-and-male-germ-cell-differentiation
#18
Grisel Cruz-Becerra, Mandy Juárez, Viviana Valadez-Graham, Mario Zurita
Eukaryotic gene expression is activated by factors that interact within complex machinery to initiate transcription. An important component of this machinery is the DNA repair/transcription factor TFIIH. Mutations in TFIIH result in three human syndromes: xeroderma pigmentosum, Cockayne syndrome and trichothiodystrophy. Transcription and DNA repair defects have been linked to some clinical features of these syndromes. However, how mutations in TFIIH affect specific developmental programmes, allowing organisms to develop with particular phenotypes, is not well understood...
October 2016: Open Biology
https://www.readbyqxmd.com/read/27805904/tomographic-docking-suggests-the-mechanism-of-auxin-receptor-tir1-selectivity
#19
Veselina V Uzunova, Mussa Quareshy, Charo I Del Genio, Richard M Napier
We study the binding of plant hormone IAA on its receptor TIR1, introducing a novel computational method that we call tomographic docking and that accounts for interactions occurring along the depth of the binding pocket. Our results suggest that selectivity is related to constraints that potential ligands encounter on their way from the surface of the protein to their final position at the pocket bottom. Tomographic docking helps develop specific hypotheses about ligand binding, distinguishing binders from non-binders, and suggests that binding is a three-step mechanism, consisting of engagement with a niche in the back wall of the pocket, interaction with a molecular filter which allows or precludes further descent of ligands, and binding on the pocket base...
October 2016: Open Biology
https://www.readbyqxmd.com/read/27805903/disease-implication-of-hyper-hippo-signalling
#20
Shu-Ping Wang, Lan-Hsin Wang
The Hippo signalling pathway regulates cellular proliferation, apoptosis and differentiation, thus exerting profound effects on cellular homeostasis. Inhibition of Hippo signalling has been frequently implicated in human cancers, indicating a well-known tumour suppressor function of the Hippo pathway. However, it is less certain whether and how hyperactivation of the Hippo pathway affects biological outcome in living cells. This review describes current knowledge of the regulatory mechanisms of the Hippo pathway, mainly focusing on hyperactivation of the Hippo signalling nexus...
October 2016: Open Biology
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