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https://www.readbyqxmd.com/read/29690513/research-progress-on-rolling-circle-amplification-rca-based-biomedical-sensing
#1
REVIEW
Lide Gu, Wanli Yan, Le Liu, Shujun Wang, Xu Zhang, Mingsheng Lyu
Enhancing the limit of detection (LOD) is significant for crucial diseases. Cancer development could take more than 10 years, from one mutant cell to a visible tumor. Early diagnosis facilitates more effective treatment and leads to higher survival rate for cancer patients. Rolling circle amplification (RCA) is a simple and efficient isothermal enzymatic process that utilizes nuclease to generate long single stranded DNA (ssDNA) or RNA. The functional nucleic acid unit (aptamer, DNAzyme) could be replicated hundreds of times in a short period, and a lower LOD could be achieved if those units are combined with an enzymatic reaction, Surface Plasmon Resonance, electrochemical, or fluorescence detection, and other different kinds of biosensor...
April 21, 2018: Pharmaceuticals
https://www.readbyqxmd.com/read/29687271/biological-and-nanotechnological-applications-using-interactions-between-ionic-liquids-and-nucleic-acids
#2
REVIEW
Hisae Tateishi-Karimata, Naoki Sugimoto
Nucleic acids have emerged as powerful biological and nanotechnological tools. In biological and nanotechnological experiments, methods of extracting and purifying nucleic acids from various types of cells and their storage are critical for obtaining reproducible experimental results. In nanotechnological experiments, methods for regulating the conformational polymorphism of nucleic acids and increasing sequence selectivity for base pairing of nucleic acids are important for developing nucleic acid-based nanomaterials...
April 23, 2018: Biophysical Reviews
https://www.readbyqxmd.com/read/29686135/7sl-rna-in-vertebrate-red-blood-cells
#3
Gaëlle J S Talhouarne, Joseph G Gall
We report that 7SL, the RNA component of the signal recognition particle (SRP), is an abundant ncRNA in mature red blood cells (RBCs) of human, mouse, and the frog Xenopus. 7SL RNA in RBCs is not associated with the canonical proteins of the SRP. Instead, it co-immunoprecipitates from a lysate of RBCs with a number of membrane-binding proteins. Human and mouse RBCs also contain a previously undescribed 68 nt RNA, sRN7SL, derived from the "S domain" of 7SL RNA. We discuss the possibility that 7SL RNA is selectively protected from nucleases by association with the RBC membrane...
April 23, 2018: RNA
https://www.readbyqxmd.com/read/29685979/the-past-and-presence-of-gene-targeting-from-chemicals-and-dna-via-proteins-to-rna
#4
REVIEW
T M Geel, M H J Ruiters, R H Cool, L Halby, D C Voshart, L Andrade Ruiz, K E Niezen-Koning, P B Arimondo, M G Rots
The ability to target DNA specifically at any given position within the genome allows many intriguing possibilities and has inspired scientists for decades. Early gene-targeting efforts exploited chemicals or DNA oligonucleotides to interfere with the DNA at a given location in order to inactivate a gene or to correct mutations. We here describe an example towards correcting a genetic mutation underlying Pompe's disease using a nucleotide-fused nuclease (TFO-MunI). In addition to the promise of gene correction, scientists soon realized that genes could be inactivated or even re-activated without inducing potentially harmful DNA damage by targeting transcriptional modulators to a particular gene...
June 5, 2018: Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences
https://www.readbyqxmd.com/read/29685966/excision-of-the-doubly-methylated-base-n-4-5-dimethylcytosine-from-dna-by-escherichia-coli-nei-and-fpg-proteins
#5
Marina Alexeeva, Prashanna Guragain, Almaz N Tesfahun, Miglė Tomkuvienė, Aysha Arshad, Rūta Gerasimaitė, Audronė Rukšėnaitė, Giedrė Urbanavičiūtė, Magnar Bjørås, Jon K Laerdahl, Arne Klungland, Saulius Klimašauskas, Svein Bjelland
Cytosine (C) in DNA is often modified to 5-methylcytosine (m5 C) to execute important cellular functions. Despite the significance of m5 C for epigenetic regulation in mammals, damage to m5 C has received little attention. For instance, almost no studies exist on erroneous methylation of m5 C by alkylating agents to doubly or triply methylated bases. Owing to chemical evidence, and because many prokaryotes express methyltransferases able to convert m5 C into N 4 ,5-dimethylcytosine (m N 4,5 C) in DNA, m N 4,5 C is probably present in vivo We screened a series of glycosylases from prokaryotic to human and found significant DNA incision activity of the Escherichia coli Nei and Fpg proteins at m N 4,5 C residues in vitro The activity of Nei was highest opposite cognate guanine followed by adenine, thymine (T) and C...
June 5, 2018: Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences
https://www.readbyqxmd.com/read/29685818/strategies-for-in-vivo-genome-editing-in-nondividing-cells
#6
REVIEW
Fatemeharefeh Nami, Mohsen Basiri, Leila Satarian, Cameron Curtiss, Hossein Baharvand, Catherine Verfaillie
Programmable nucleases, including zinc finger nucleases (ZFNs), transcription activator-like effector nucleases (TALENs), and clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated 9 (Cas9), have enhanced our ability to edit genomes by the sequence-specific generation of double-strand breaks (DSBs) with subsequent homology-directed repair (HDR) of the DSB. However, the efficiency of the HDR pathway is limited in nondividing cells, which encompass most of the cells in the body. Therefore, the HDR-mediated genome-editing approach has limited in vivo applicability...
April 21, 2018: Trends in Biotechnology
https://www.readbyqxmd.com/read/29685215/the-major-membrane-nuclease-mnua-degrades-neutrophil-extracellular-traps-induced-by-mycoplasma-bovis
#7
Filimon Mitiku, Carol A Hartley, Fiona M Sansom, Joanne E Coombe, Peter D Mansell, David S Beggs, Glenn F Browning
Mycoplasma bovis has been increasingly recognised worldwide as an economically important pathogen of cattle, causing a range of diseases, including pneumonia, mastitis, polyarthritis and otitis media. It is believed that M. bovis utilises a range of cell surface proteins, including nucleases, to evade the host immune response and survive. However, despite the importance of neutrophils in controlling pathogenic bacteria, the interaction between these cells and M. bovis is not well-characterised. In addition to phagocytosis, neutrophils combat pathogens through the release of neutrophil extracellular traps (NETs), which are composed of their nuclear and granular components, including DNA...
May 2018: Veterinary Microbiology
https://www.readbyqxmd.com/read/29684412/no-association-of-il2-il4-il6-tnf-and-ifng-gene-polymorphisms-was-found-with-taenia-solium-human-infection-or-neurocysticercosis-severity-in-a-family-based-study
#8
A Fleury, C Alaez, A Dessein, M Rosetti, B Saenz, M Hernández, R J Bobes, R Aquino, E Sciutto, C Gorodezky, G Fragoso
Neurocysticercosis (NC) is caused by the establishment of the metacestode stage of Taenia solium in the human central nervous system. A great heterogeneity in the susceptibility to the infection and to the disease has been reported. While the factors involved in this heterogeneity are not completely understood, clearly different immune-inflammatory profiles have been associated to each condition. This study evaluated the association of cytokine single nucleotide polymorphisms (SNPs) with susceptibility to infection and disease severity in NC patients...
April 20, 2018: Human Immunology
https://www.readbyqxmd.com/read/29684322/modified-beacon-probe-assisted-dual-signal-amplification-for-visual-detection-of-microrna
#9
Xiuwei Sun, Na Ying, Chuanjing Ju, Zhongyi Li, Na Xu, Guijuan Qu, Wensen Liu, Jiayu Wan
In a recent study, we reported a novel assay for the detection of microRNA-21 based on duplex-specific nuclease (DSN)-assisted isothermal cleavage and hybridization chain reaction (HCR) dual signal amplification. The Fam modified double-stranded DNA products were generated after the HCR, another biotin modified probe was digested by DSN and released from the magnetic beads after the addition of the target miRNA. The released sequence was then combined with HCR products to form a double-tagging dsDNA, which can be recognized by the lateral flow strips...
April 20, 2018: Analytical Biochemistry
https://www.readbyqxmd.com/read/29683658/enhanced-biosynthesis-performance-of-heterologous-proteins-in-cho-k1-cells-using-crispr-cas9
#10
Wenpeng Wang, Wenyun Zheng, Fengzhi Hu, Xiujuan He, Dong Wu, Wenliang Zhang, Haipeng Liu, Xingyuan Ma
Chinese hamster ovary (CHO) cells are the famous expression system for industrial production of recombinant proteins, such as therapeutic antibodies. However, there retained still bottlenecks in protein quality and weakness in expression efficiency because of the intrinsic genetic properties of the cell. Here we have enhanced biosynthesis performance of heterologous proteins in CHO-K1 cell using CRISPR-Cas9 by editing the genome precisely with two genes for improving ER microenvironment and reinforcing anti-apoptotic ability...
April 23, 2018: ACS Synthetic Biology
https://www.readbyqxmd.com/read/29683548/universal-ph-responsive-and-metal-ion-free-self-assembly-of-dna-nanostructures
#11
Yongfei Li, Lei Song, Bang Wang, Jianbo He, Yulin Li, Zhaoxiang Deng, Chengde Mao
pH-responsivity has been widely pursued in dynamic DNA nanotechnology, due to its great potential in biosensing, controlled release and nanomachinery. Previously developed pH-triggering systems mostly depend on specific designs of DNA sequences. However, sequence-independent regulation could provide a more general tool to achieve pH-responsive DNA assembly, which has yet to be developed. Herein, we propose a mechanism for dynamic DNA assembly by utilizing ethylenediamine (EN) as a reversibly chargeable (via protonation) cation to overcome electrostatic repulsions...
April 23, 2018: Angewandte Chemie
https://www.readbyqxmd.com/read/29682884/durable-engraftment-of-genetically-modified-fviii-secreting-autologous-bone-marrow-stromal-cells-in-the-intramedullary-microenvironment
#12
Sze Sing Lee, Jaichandran Sivalingam, Ajit J Nirmal, Wai Har Ng, Irene Kee, In Chin Song, Chin Yong Kiong, Kristoffer A Gales, Frederic Chua, Edgar M Pena, Bryan E Ogden, Oi Lian Kon
Genetically modified FVIII-expressing autologous bone marrow-derived mesenchymal stromal cells (BMSCs) could cure haemophilia A. However, culture-expanded BMSCs engraft poorly in extramedullary sites. Here, we compared the intramedullary cavity, skeletal muscle, subcutaneous tissue and systemic circulation as tissue microenvironments that could support durable engraftment of FVIII-secreting BMSC in vivo. A zinc finger nuclease integrated human FVIII transgene into PPP1R12C (intron 1) of culture-expanded primary canine BMSCs...
April 23, 2018: Journal of Cellular and Molecular Medicine
https://www.readbyqxmd.com/read/29681919/efficient-gene-transfer-and-gene-editing-in-sterlet-acipenser-ruthenus
#13
Ji Chen, Wei Wang, Zhaohui Tian, Ying Dong, Tian Dong, Hua Zhu, Zuoyan Zhu, Hongxia Hu, Wei Hu
The sturgeon (Acipenseriformes) is an important farmed species because of its economical value. However, neither gene transfer nor gene editing techniques have been established in sturgeon for molecular breeding and gene functional study until now. In this study, we accomplished gene transfer and gene editing in sterlet ( Acipenser ruthenus ), which has the shortest sexual maturation period of sturgeons. The plasmid encoding enhanced green fluorescent protein (EGFP) was transferred into the embryos of sterlet at injection concentration of 100 ng/μL, under which condition high survival rate and gene transfer rate could be achieved...
2018: Frontiers in Genetics
https://www.readbyqxmd.com/read/29680670/identification-of-small-molecule-inhibitors-of-the-chikungunya-virus-nsp1-rna-capping-enzyme
#14
Kristen M Feibelman, Benjamin P Fuller, Linfeng Li, Daniel V LaBarbera, Brian J Geiss
Chikungunya virus (CHIKV) is an arthropod-borne alphavirus. Alphaviruses are positive strand RNA viruses that require a 5' cap structure to direct translation of the viral polyprotein and prevent degradation of the viral RNA genome by host cell nucleases. Formation of the 5' RNA cap is orchestrated by the viral protein nsP1, which binds GTP and provides the N-7 methyltransferase and guanylyltransferase activities that are necessary for cap formation. Viruses with aberrant nsP1 activity are unable to replicate effectively suggesting that nsP1 is a promising target for antiviral drug discovery...
April 20, 2018: Antiviral Research
https://www.readbyqxmd.com/read/29680489/molecular-characterization-of-shrimp-harbinger-transposase-derived-1-harbi1-like-and-its-role-in-white-spot-syndrome-virus-and-vibrio-alginolyticus-infection
#15
Baozhen Sun, Xiyi Qian, Fei Zhu
The role of the nuclease, HARBI1-like protein (mjHARBI1-like) in the innate immunity of Marsupenaeus japonicus was explored in this study. The 1361 bp cDNA sequence of mjHARBI1-like was cloned from M. japonicus using RACE. RT-qPCR analysis results showed that the gills and hepatopancreas of M. japonicus were the main tissues where mjHARBI1-like is expressed. In addition, it was also found that white spot syndrome virus (WSSV) or Vibrio alginolyticus challenge could stimulate mjHARBI1-like expression. After mjHARBI1-likewas inhibited, expression of immune genes such as toll, p53, myosin, and proPO were significantly downregulated (P < 0...
April 19, 2018: Fish & Shellfish Immunology
https://www.readbyqxmd.com/read/29675030/homology-directed-repair-of-a-defective-glabrous-gene-in-arabidopsis-with-cas9-based-gene-targeting
#16
Florian Hahn, Marion Eisenhut, Otho Mantegazza, Andreas P M Weber
The CRISPR/Cas9 system has emerged as a powerful tool for targeted genome editing in plants and beyond. Double-strand breaks induced by the Cas9 enzyme are repaired by the cell's own repair machinery either by the non-homologous end joining pathway or by homologous recombination (HR). While the first repair mechanism results in random mutations at the double-strand break site, HR uses the genetic information from a highly homologous repair template as blueprint for repair of the break. By offering an artificial repair template, this pathway can be exploited to introduce specific changes at a site of choice in the genome...
2018: Frontiers in Plant Science
https://www.readbyqxmd.com/read/29673061/decellularization-and-characterization-of-a-whole-intervertebral-disc-xenograft-scaffold
#17
Austin Hensley, Jess Rames, Victor Casler, Christopher Rood, Joshua Walters, Christopher Fernandez, Sanjitpal Gill, Jeremy Mercuri
Intervertebral disc (IVD) degeneration is a multi-factor process that results in the physical destruction of the nucleus pulposus (NP) and annulus fibrosus (AF). This compromises IVD function and causes significant disability and economic burden. Strategies to replace the entire composite structure of the IVD are limited and most approaches do not recapitulate the heterogenous biochemical composition, micro-architecture or mechanical properties of the native tissue. Our central hypothesis was that donor IVDs which resemble the size and biochemistry of human lumbar IVDs could be successfully decellularized while retaining the tissue's structure and function with the long-term goal of creating a composite scaffold for tissue engineering the human IVD...
April 19, 2018: Journal of Biomedical Materials Research. Part A
https://www.readbyqxmd.com/read/29672061/serum-nuclease-susceptibility-of-mrna-cargo-in-condensed-polyplexes
#18
Albert Yen, Yilong Cheng, Meilyn Sylvestre, Heather Herd Gustafson, Sanyogitta Puri, Suzie H Pun
Messenger RNA (mRNA) is a biomolecule with a wide range of promising clinical applications. However, the unstable nature of mRNA and its susceptibility to degradation by ribonucleases necessitate the use of specialized formulations for delivery. Polycations are an emerging class of synthetic carriers capable of packaging nucleic acids, and may serve as suitable ribonuclease-resistant formulations for mRNA administration. Here, we explore the application of VIPER and sunflower polycations, two polycations previously synthesized by our group, for the delivery of mRNA in comparison to branched poly(ethylenimine); all three polycations have been shown to efficiently deliver plasmid DNA (pDNA) to cultured cells...
April 19, 2018: Molecular Pharmaceutics
https://www.readbyqxmd.com/read/29670864/mechanism-of-apoptosis-induction-by-mycoplasmal-nuclease-mga_0676-in-chicken-embryo-fibroblasts
#19
Peng Li, Jian Xu, Hong-Mei Rao, Xia Li, Yun-Ke Zhang, Fei Jiang, Wen-Xue Wu
MGA_0676 has been characterized as a Mycoplasma gallisepticum nuclease that can induce apoptosis of chicken cells. However, the mechanism by which MGA_0676 induces apoptosis has remained unclear. In this study, we evaluated MGA_0676-induced apoptosis and internalization in immortalized chicken embryo fibroblasts (DF-1) and cancer cell lines. The internalization of MGA_0676 was proven through caveolin-mediated endocytosis by blocking the endocytosis with specific inhibitors or with siRNA. We identified the Thif domain of NEDD8-activating enzyme E1 regulatory subunit (NAE) in DF-1 as the target region interacting with the SNC domain of MGA_0676...
2018: Frontiers in Cellular and Infection Microbiology
https://www.readbyqxmd.com/read/29670633/extracellular-sphingomyelinase-rv0888-of-mycobacterium-tuberculosis-contributes-to-pathological-lung-injury-of-mycobacterium-smegmatis-in-mice-via-inducing-formation-of-neutrophil-extracellular-traps
#20
Guanghui Dang, Yingying Cui, Lei Wang, Tiantian Li, Ziyin Cui, Ningning Song, Liping Chen, Hai Pang, Siguo Liu
Mycobacterium tuberculosis is the causative agent of tuberculosis (TB), which mainly causes pulmonary injury and tubercles. Although macrophages are generally considered to harbor the main cells of M. tuberculosis , new evidence suggests that neutrophils are rapidly recruited to the infected lung. M. tuberculosis itself, or its early secreted antigenic target protein 6 (ESAT-6), can induce formation of neutrophil extracellular traps (NETs). However, NETs trap mycobacteria but are unable to kill them. The role of NETs' formation in the pathogenesis of mycobacteria remains unclear...
2018: Frontiers in Immunology
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