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https://www.readbyqxmd.com/read/28401457/comparative-studies-of-vertebrate-iduronate-2-sulfatase-ids-genes-and-proteins-evolution-of-a-mammalian-x-linked-gene
#1
REVIEW
Roger S Holmes
IDS is responsible for the lysosomal degradation of heparan sulfate and dermatan sulfate and linked to an X-linked lysosomal storage disease, mucopolysaccharidosis 2 (MPS2), resulting in neurological damage and early death. Comparative IDS amino acid sequences and structures and IDS gene locations were examined using data from several vertebrate genome projects. Vertebrate IDS sequences shared 60-99% identities with each other. Human IDS showed 47% sequence identity with fruit fly (Drosophila melanogaster) IDS...
May 2017: 3 Biotech
https://www.readbyqxmd.com/read/28401354/novel-triazole-linked-2-phenyl-benzoxazole-derivatives-induce-apoptosis-by-inhibiting-mir-2-mir-13-and-mir-14-function-in-drosophila-melanogaster
#2
Tanmoy Mondal, A V S Lavanya, Akash Mallick, Tulshiram L Dadmala, Ravindra M Kumbhare, Utpal Bhadra, Manika Pal Bhadra
Apoptosis is an important phenomenon in multi cellular organisms for maintaining tissue homeostasis and embryonic development. Defect in apoptosis leads to a number of disorders like- autoimmune disorder, immunodeficiency and cancer. 21-22 nucleotides containing micro RNAs (miRNAs/miRs) function as a crucial regulator of apoptosis alike other cellular pathways. Recently, small molecules have been identified as a potent inducer of apoptosis. In this study, we have identified novel Triazole linked 2-phenyl benzoxazole derivatives (13j and 13h) as a negative regulator of apoptosis inhibiting micro RNAs (miR-2, miR-13 and miR-14) in a well established in vivo model Drosophila melanogaster where the process of apoptosis is very similar to human apoptosis...
June 2017: Apoptosis: An International Journal on Programmed Cell Death
https://www.readbyqxmd.com/read/28367077/protein-and-genetic-composition-of-four-chromatin-types-in-drosophila-melanogaster-cell-lines
#3
Lidiya V Boldyreva, Fyodor P Goncharov, Olga V Demakova, Tatyana Yu Zykova, Victor G Levitsky, Nikolay N Kolesnikov, Alexey V Pindyurin, Valeriy F Semeshin, Igor F Zhimulev
BACKGROUND: Recently, we analyzed genome-wide protein binding data for the Drosophila cell lines S2, Kc, BG3 and Cl.8 (modENCODE Consortium) and identified a set of 12 proteins enriched in the regions corresponding to interbands of salivary gland polytene chromosomes. Using these data, we developed a bioinformatic pipeline that partitioned the Drosophila genome into four chromatin types that we hereby refer to as aquamarine, lazurite, malachite and ruby. RESULTS: Here, we describe the properties of these chromatin types across different cell lines...
April 2017: Current Genomics
https://www.readbyqxmd.com/read/28276426/microrna-92a-is-a-circadian-modulator-of-neuronal-excitability-in-drosophila
#4
Xiao Chen, Michael Rosbash
Many biological and behavioural processes of animals are governed by an endogenous circadian clock, which is dependent on transcriptional regulation. Here we address post-transcriptional regulation and the role of miRNAs in Drosophila circadian rhythms. At least six miRNAs show cycling expression levels within the pigment dispersing factor (PDF) cell-pacemaker neurons; only mir-92a peaks during the night. In vivo calcium monitoring, dynamics of PDF projections, ArcLight, GCaMP6 imaging and sleep assays indicate that mir-92a suppresses neuronal excitability...
March 9, 2017: Nature Communications
https://www.readbyqxmd.com/read/28250202/atp-is-dispensable-for-both-mirna-and-smaug-mediated-deadenylation-reactions
#5
Sho Niinuma, Yukihide Tomari
microRNAs (miRNAs) as well as the RNA-binding protein Smaug recruit the CCR4-NOT deadenylase complex for shortening of the poly(A) tail. It has been believed that ATP is required for deadenylation induced by miRNAs or Smaug, based on the fact that the deadenylation reaction is blocked by ATP depletion. However, when isolated, neither of the two deadenylases in the CCR4-NOT complex requires ATP by themselves. Thus, it remains unknown why ATP is required for deadenylation by ribonucleoprotein complexes like miRNAs and Smaug...
March 1, 2017: RNA
https://www.readbyqxmd.com/read/28205638/effects-of-mir-146a-on-the-osteogenesis-of-adipose-derived-mesenchymal-stem-cells-and-bone-regeneration
#6
Qing Xie, Wei Wei, Jing Ruan, Yi Ding, Ai Zhuang, Xiaoping Bi, Hao Sun, Ping Gu, Zi Wang, Xianqun Fan
Increasing evidence has indicated that bone morphogenetic protein 2 (BMP2) coordinates with microRNAs (miRNAs) to form intracellular networks regulating mesenchymal stem cells (MSCs) osteogenesis. This study aimed to identify specific miRNAs in rat adipose-derived mesenchymal stem cells (ADSCs) during BMP2-induced osteogenesis, we selected the most significantly down-regulated miRNA, miR-146a, to systematically investigate its role in regulating osteogenesis and bone regeneration. Overexpressing miR-146a notably repressed ADSC osteogenesis, whereas knocking down miR-146a greatly promoted this process...
February 16, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28166241/evolutionary-analysis-reveals-regulatory-and-functional-landscape-of-coding-and-non-coding-rna-editing
#7
Rui Zhang, Patricia Deng, Dionna Jacobson, Jin Billy Li
Adenosine-to-inosine RNA editing diversifies the transcriptome and promotes functional diversity, particularly in the brain. A plethora of editing sites has been recently identified; however, how they are selected and regulated and which are functionally important are largely unknown. Here we show the cis-regulation and stepwise selection of RNA editing during Drosophila evolution and pinpoint a large number of functional editing sites. We found that the establishment of editing and variation in editing levels across Drosophila species are largely explained and predicted by cis-regulatory elements...
February 2017: PLoS Genetics
https://www.readbyqxmd.com/read/28161376/genetics-and-genomics-of-alcohol-responses-in-drosophila
#8
REVIEW
Annie Park, Alfredo Ghezzi, Thilini P Wijesekera, Nigel S Atkinson
Drosophila melanogaster has become a significant model organism for alcohol research. In flies, a rich variety of behaviors can be leveraged for identifying genes affecting alcohol responses and adaptations. Furthermore, almost all genes can be easily genetically manipulated. Despite the great evolutionary distance between flies and mammals, many of the same genes have been implicated in strikingly similar alcohol-induced behaviors. A major problem in medical research today is that it is difficult to extrapolate from any single model system to humans...
February 1, 2017: Neuropharmacology
https://www.readbyqxmd.com/read/28109717/dicer-1-regulates-proliferative-potential-of-drosophila-larval-neural-stem-cells-through-bantam-mirna-based-down-regulation-of-the-g1-s-inhibitor-dacapo
#9
Animesh Banerjee, Jagat Kumar Roy
The present work elucidates the role of miRNA in cell cycle regulation during brain development in Drosophila. Here we report that lineage specific depletion of dicer-1, a classically acknowledged miRNA biogenesis protein in neuroblasts leads to a reduction in their numbers and size in the third instar larval central brain. These brains also showed lower number of mitotically active cells and when homozygous mitotic clones were generated in an otherwise heterozygous dicer-1 mutant background via MARCM technique, they showed reduced number of progeny cells in individual clones, substantiating the adverse effect of the loss of dicer-1 on the proliferative potential of neuroblasts...
March 1, 2017: Developmental Biology
https://www.readbyqxmd.com/read/28069431/small-rna-seq-analysis-reveals-microrna-regulation-of-the-imd-pathway-during-escherichia-coli-infection-in-drosophila
#10
Shengjie Li, Li Shen, Lianjie Sun, Jiao Xu, Ping Jin, Liming Chen, Fei Ma
Drosophila have served as a model for research on innate immunity for decades. However, knowledge of the post-transcriptional regulation of immune gene expression by microRNAs (miRNAs) remains rudimentary. In the present study, using small RNA-seq and bioinformatics analysis, we identified 67 differentially expressed miRNAs in Drosophila infected with Escherichia coli compared to injured flies at three time-points. Furthermore, we found that 21 of these miRNAs were potentially involved in the regulation of Imd pathway-related genes...
January 7, 2017: Developmental and Comparative Immunology
https://www.readbyqxmd.com/read/28010188/the-in-vivo-genetic-toolkit-for-studying-expression-and-functions-of-drosophila-melanogaster-micrornas
#11
Hina Iftikhar, Janna N Schultzhaus, Chloe J Bennett, Ginger E Carney
Since the initial reports that a group of small RNAs, now known as microRNAs (miRNAs), regulates gene expression without being translated into proteins, there has been an explosion of studies on these important expression modulators. Drosophila melanogaster has proven to be one of the most amenable animal models for investigations of miRNA biogenesis and gene regulatory activities. Here, we highlight the publicly available genetic tools and strategies for in vivo functional studies of miRNA activity in D. melanogaster...
February 2017: RNA Biology
https://www.readbyqxmd.com/read/27974621/characterization-of-a-tutase-rnase-complex-required-for-drosophila-gametogenesis
#12
Ching-Jung Lin, Jiayu Wen, Fernando Bejarano, Fuqu Hu, Diane Bortolamiol-Becet, Lijuan Kan, Piero Sanfilippo, Shu Kondo, Eric C Lai
Post-transcriptional regulatory strategies that involve coupling between terminal uridyltransferase (TUTase) and exoribonuclease enzymes have recently been characterized in diverse species. Of note, the 3' exoribonuclease Dis3L2 has received substantial attention as a factor that metabolizes uridylated substrates in contexts such as general mRNA degradation, turnover of specific miRNAs, and quality control of noncoding RNAs. To date, most studies of Dis3L2 have focused on fungi and mammalian cells. Here, we introduce Drosophila as a system that permits analysis of molecular mechanisms as well as the ability to interrogate organismal phenotypes...
March 2017: RNA
https://www.readbyqxmd.com/read/27974298/mir-958-inhibits-toll-signaling-and-drosomycin-expression-via-direct-targeting-of-toll-and-dif-in-drosophila-melanogaster
#13
Shengjie Li, Yao Li, Li Shen, Ping Jin, Liming Chen, Fei Ma
Drosophila melanogaster is widely used as a model system to study innate immunity and signaling pathways related to innate immunity, including the Toll signaling pathway. Although this pathway is well studied, the precise mechanisms of posttranscriptional regulation of key components of the Toll signaling pathway by microRNAs (miRNAs) remain obscure. In this study, we used an in silico strategy in combination with the Gal80(ts)-Gal4 driver system to identify microRNA-958 (miR-958) as a candidate Toll pathway regulating miRNA in Drosophila We report that overexpression of miR-958 significantly reduces the expression of Drosomycin, a key antimicrobial peptide involved in Toll signaling and the innate immune response...
February 1, 2017: American Journal of Physiology. Cell Physiology
https://www.readbyqxmd.com/read/27960110/drosophila-mir-956-suppression-modulates-ectoderm-expressed-4-and-inhibits-viral-replication
#14
Verna Monsanto-Hearne, Annabelle L Y Tham, Zhee Sheen Wong, Sassan Asgari, Karyn N Johnson
Small non-coding microRNAs (miRNAs) can modulate the outcome of virus infection. Here we explore the role of miRNAs in insect-virus interactions, in vivo, using the natural Drosophila melanogaster-Drosophila C virus (DCV) model system. Comparison of the miRNA expression profiles in DCV-infected and uninfected flies showed altered miRNA levels due to DCV infection, with the largest change in abundance observed for miR-956-3p. Knockout of miR-956 resulted to delayed DCV-induced mortality and decreased viral accumulation compared to wild-type flies...
February 2017: Virology
https://www.readbyqxmd.com/read/27900550/biogenesis-of-diverse-plant-phasirnas-involves-an-mirna-trigger-and-dicer-processing
#15
Reina Komiya
It has been almost 30 years since RNA interference (RNAi) was shown to silence genes via double-stranded RNAs (dsRNAs) in Caenorhabditis elegans (Fire et al. 1998). 20-30-nucleotide (nt) small non-coding RNAs are a key element of the RNAi machinery. Recently, phased small interfering RNAs (phasiRNAs), small RNAs that are generated from a long RNA precursor at intervals of 21 to 26-nt, have been identified in plants and animals. In Drosophila, phasiRNAs are generated by the endonuclease, Zucchini (Zuc), in germlines...
January 2017: Journal of Plant Research
https://www.readbyqxmd.com/read/27893816/mir-34-modulates-innate-immunity-and-ecdysone-signaling-in-drosophila
#16
Xiao-Peng Xiong, Krishna Kurthkoti, Kung-Yen Chang, Jian-Liang Li, Xingjie Ren, Jian-Quan Ni, Tariq M Rana, Rui Zhou
microRNAs are endogenous small regulatory RNAs that modulate myriad biological processes by repressing target gene expression in a sequence-specific manner. Here we show that the conserved miRNA miR-34 regulates innate immunity and ecdysone signaling in Drosophila. miR-34 over-expression activates antibacterial innate immunity signaling both in cultured cells and in vivo, and flies over-expressing miR-34 display improved survival and pathogen clearance upon Gram-negative bacterial infection; whereas miR-34 knockout animals are defective in antibacterial defense...
November 2016: PLoS Pathogens
https://www.readbyqxmd.com/read/27883064/the-microrna-toolkit-of-insects
#17
Guillem Ylla, Bastian Fromm, Maria-Dolors Piulachs, Xavier Belles
Is there a correlation between miRNA diversity and levels of organismic complexity? Exhibiting extraordinary levels of morphological and developmental complexity, insects are the most diverse animal class on earth. Their evolutionary success was in particular shaped by the innovation of holometabolan metamorphosis in endopterygotes. Previously, miRNA evolution had been linked to morphological complexity, but astonishing variation in the currently available miRNA complements of insects made this link unclear...
November 24, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27872309/phosphate-binding-pocket-in-dicer-2-paz-domain-for-high-fidelity-sirna-production
#18
Suresh K Kandasamy, Ryuya Fukunaga
The enzyme Dicer produces small silencing RNAs such as micro-RNAs (miRNAs) and small interfering RNAs (siRNAs). In Drosophila, Dicer-1 produces ∼22-24-nt miRNAs from pre-miRNAs, whereas Dicer-2 makes 21-nt siRNAs from long double-stranded RNAs (dsRNAs). How Dicer-2 precisely makes 21-nt siRNAs with a remarkably high fidelity is unknown. Here we report that recognition of the 5'-monophosphate of a long dsRNA substrate by a phosphate-binding pocket in the Dicer-2 PAZ (Piwi, Argonaute, and Zwille/Pinhead) domain is crucial for the length fidelity, but not the efficiency, in 21-nt siRNA production...
December 6, 2016: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/27871832/genome-wide-mirna-screening-reveals-mir-310-family-members-negatively-regulate-the-immune-response-in-drosophila-melanogaster-via-co-targeting-drosomycin
#19
Yao Li, Shengjie Li, Ruimin Li, Jiao Xu, Ping Jin, Liming Chen, Fei Ma
Although innate immunity mediated by Toll signaling has been extensively studied in Drosophila melanogaster, the role of miRNAs in regulating the Toll-mediated immune response remains largely unknown. In this study, following Gram-positive bacterial challenge, we identified 93 differentially expressed miRNAs via genome-wide miRNA screening. These miRNAs were regarded as immune response related (IRR). Eight miRNAs were confirmed to be involved in the Toll-mediated immune response upon Gram-positive bacterial infection through genetic screening of 41 UAS-miRNA lines covering 60 miRNAs of the 93 IRR miRNAs...
March 2017: Developmental and Comparative Immunology
https://www.readbyqxmd.com/read/27845601/immediate-early-alcohol-responsive-mirna-expression-in-drosophila
#20
Alfredo Ghezzi, Marie Zomeno, Andrzej Z Pietrzykowski, Nigel S Atkinson
At the core of the changes characteristic of alcoholism are alterations in gene expression in the brain of the addicted individual. These changes are believed to underlie some of the neuroadaptations that promote compulsive drinking. Unfortunately, the mechanisms by which alcohol consumption produces changes in gene expression remain poorly understood. MicroRNAs (miRNAs) have emerged as important regulators of gene expression because they can coordinately modulate the translation efficiency of large sets of specific mRNAs...
September 2016: Journal of Neurogenetics
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