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https://www.readbyqxmd.com/read/27930742/analysis-of-domain-architecture-and-phylogenetics-of-family-2-glycoside-hydrolases-gh2
#1
David Talens-Perales, Anna Górska, Daniel H Huson, Julio Polaina, Julia Marín-Navarro
In this work we report a detailed analysis of the topology and phylogenetics of family 2 glycoside hydrolases (GH2). We distinguish five topologies or domain architectures based on the presence and distribution of protein domains defined in Pfam and Interpro databases. All of them share a central TIM barrel (catalytic module) with two β-sandwich domains (non-catalytic) at the N-terminal end, but differ in the occurrence and nature of additional non-catalytic modules at the C-terminal region. Phylogenetic analysis was based on the sequence of the Pfam Glyco_hydro_2_C catalytic module present in most GH2 proteins...
2016: PloS One
https://www.readbyqxmd.com/read/27908936/genome-editing-technologies-principles-and-applications
#2
REVIEW
Thomas Gaj, Shannon J Sirk, Sai-Lan Shui, Jia Liu
Targeted nucleases have provided researchers with the ability to manipulate virtually any genomic sequence, enabling the facile creation of isogenic cell lines and animal models for the study of human disease, and promoting exciting new possibilities for human gene therapy. Here we review three foundational technologies-clustered regularly interspaced short palindromic repeats (CRISPR)-CRISPR-associated protein 9 (Cas9), transcription activator-like effector nucleases (TALENs), and zinc-finger nucleases (ZFNs)...
December 1, 2016: Cold Spring Harbor Perspectives in Biology
https://www.readbyqxmd.com/read/27899582/the-zebrafish-model-organism-database-new-support-for-human-disease-models-mutation-details-gene-expression-phenotypes-and-searching
#3
Douglas G Howe, Yvonne M Bradford, Anne Eagle, David Fashena, Ken Frazer, Patrick Kalita, Prita Mani, Ryan Martin, Sierra Taylor Moxon, Holly Paddock, Christian Pich, Sridhar Ramachandran, Leyla Ruzicka, Kevin Schaper, Xiang Shao, Amy Singer, Sabrina Toro, Ceri Van Slyke, Monte Westerfield
The Zebrafish Model Organism Database (ZFIN; http://zfin.org) is the central resource for zebrafish (Danio rerio) genetic, genomic, phenotypic and developmental data. ZFIN curators provide expert manual curation and integration of comprehensive data involving zebrafish genes, mutants, transgenic constructs and lines, phenotypes, genotypes, gene expressions, morpholinos, TALENs, CRISPRs, antibodies, anatomical structures, models of human disease and publications. We integrate curated, directly submitted, and collaboratively generated data, making these available to zebrafish research community...
November 28, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27888407/targeting-the-rhesus-macaque-trim5%C3%AE-gene-to-enhance-the-susceptibility-of-cd4-t-cells-to-hiv-1-infection
#4
Xiaoli Wang, Qing Yu, Yahong Yuan, Zhiping Teng, Dongsheng Li, Yi Zeng
The host range of human immunodeficiency virus type 1 (HIV-1) is extremely narrow, which has hampered the establishment of non-human primate models for HIV-1 infection. The species-specific innate immune factor tripartite motif 5 alpha (TRIM5α) is a key molecule that confers potent resistance against HIV-1 infection. In this study, we targeted the TRIM5α gene of rhesus macaques (rhTRIM5α) using the transcription activator-like effector nuclease (TALEN) to study the effect on HIV-1 infection. CD4(+) T cells were separated from the peripheral blood of rhesus macaques by magnetic cell sorting, and the positive rate was greater than 99%...
November 25, 2016: Archives of Virology
https://www.readbyqxmd.com/read/27883072/non-rvd-mutations-that-enhance-the-dynamics-of-the-tal-repeat-array-along-the-superhelical-axis-improve-talen-genome-editing-efficacy
#5
Naoya Tochio, Kohei Umehara, Jun-Ichi Uewaki, Holger Flechsig, Masaharu Kondo, Takehisa Dewa, Tetsushi Sakuma, Takashi Yamamoto, Takashi Saitoh, Yuichi Togashi, Shin-Ichi Tate
Transcription activator-like effector (TALE) nuclease (TALEN) is widely used as a tool in genome editing. The DNA binding part of TALEN consists of a tandem array of TAL-repeats that form a right-handed superhelix. Each TAL-repeat recognises a specific base by the repeat variable diresidue (RVD) at positions 12 and 13. TALEN comprising the TAL-repeats with periodic mutations to residues at positions 4 and 32 (non-RVD sites) in each repeat (VT-TALE) exhibits increased efficacy in genome editing compared with a counterpart without the mutations (CT-TALE)...
November 24, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27876832/knockout-of-zebrafish-ovarian-aromatase-gene-cyp19a1a-by-talen-and-crispr-cas9-leads-to-all-male-offspring-due-to-failed-ovarian-differentiation
#6
Esther Shuk-Wa Lau, Zhiwei Zhang, Mingming Qin, Wei Ge
Sexual or gonadal differentiation is a complex event and its mechanism remains elusive in teleosts. Despite its complexity and plasticity, the process of ovarian differentiation is believed to involve gonadal aromatase (cyp19a1a) in nearly all species studied. However, most data concerning the role of aromatase have come from gene expression analysis or studies involving pharmacological approaches. There has been a lack of genetic evidence for the importance of aromatase in gonadal differentiation, especially the timing when the enzyme starts to exert its effect...
November 23, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27847153/the-potential-application-and-challenge-of-powerful-crispr-cas9-system-in-cardiovascular-research
#7
REVIEW
Yangxin Li, Yao-Hua Song, Bin Liu, Xi-Yong Yu
CRISPR/Cas9 is a precision-guided munition found in bacteria to fight against invading viruses. This technology has enormous potential applications, including altering genes in both somatic and germ cells, as well as generating knockout animals. Compared to other gene editing techniques such as zinc finger nucleases and TALENS, CRISPR/Cas9 is much easier to use and highly efficient. Importantly, the multiplex capacity of this technology allows multiple genes to be edited simultaneously. CRISPR/Cas9 also has the potential to prevent and cure human diseases...
November 9, 2016: International Journal of Cardiology
https://www.readbyqxmd.com/read/27845165/applications-of-genome-editing-by-programmable-nucleases-to-the-metabolic-engineering-of-secondary-metabolites
#8
REVIEW
Ana Lúcia Leitão, Marina C Costa, Francisco J Enguita
Genome engineering is a branch of modern biotechnology composed of a cohort of protocols designed to construct and modify a genotype with the main objective of giving rise to a desired phenotype. Conceptually, genome engineering is based on the so called genome editing technologies, a group of genetic techniques that allow either to delete or to insert genetic information in a particular genomic locus. Ten years ago, genome editing tools were limited to virus-driven integration and homologous DNA recombination...
November 11, 2016: Journal of Biotechnology
https://www.readbyqxmd.com/read/27826306/transcription-activator-like-effector-nucleases-talen-mediated-targeted-dna-insertion-in-potato-plants
#9
Adrienne Forsyth, Troy Weeks, Craig Richael, Hui Duan
Targeted DNA integration into known locations in the genome has potential advantages over the random insertional events typically achieved using conventional means of genetic modification. Specifically integrated transgenes are guaranteed to co-segregate, and expression level is more predictable, which makes downstream characterization and line selection more manageable. Because the site of DNA integration is known, the steps to deregulation of transgenic crops may be simplified. Here we describe a method that combines transcription activator-like effector nuclease (TALEN)-mediated induction of double strand breaks (DSBs) and non-autonomous marker selection to insert a transgene into a pre-selected, transcriptionally active region in the potato genome...
2016: Frontiers in Plant Science
https://www.readbyqxmd.com/read/27821126/efficient-generation-of-ggta1-null-diannan-miniature-pigs-using-talens-combined-with-somatic-cell-nuclear-transfer
#10
Wenmin Cheng, Heng Zhao, Honghao Yu, Jige Xin, Jia Wang, Luyao Zeng, Zaimei Yuan, Yubo Qing, Honghui Li, Baoyu Jia, Cejun Yang, Youfeng Shen, Lu Zhao, Weirong Pan, Hong-Ye Zhao, Wei Wang, Hong-Jiang Wei
BACKGROUND: α1,3-Galactosyltransferase (GGTA1) is essential for the biosynthesis of glycoproteins and therefore a simple and effective target for disrupting the expression of galactose α-1,3-galactose epitopes, which mediate hyperacute rejection (HAR) in xenotransplantation. Miniature pigs are considered to have the greatest potential as xenotransplantation donors. A GGTA1-knockout (GTKO) miniature pig might mitigate or prevent HAR in xenotransplantation. METHODS: Transcription activator-like effector nucleases (TALENs) were designed to target exon 6 of porcine GGTA1 gene...
November 8, 2016: Reproductive Biology and Endocrinology: RB&E
https://www.readbyqxmd.com/read/27819301/talen-mediated-knock-in-via-non-homologous-end-joining-in-the-crustacean-daphnia-magna
#11
Takashi Nakanishi, Yasuhiko Kato, Tomoaki Matsuura, Hajime Watanabe
Transcription activator-like effector nucleases (TALENs) are versatile tools that enable the insertion of DNA into different organisms. Here, we confirmed TALEN-mediated knock-in via non-homologous end joining in the crustacean Daphnia magna, a model organism for ecological and toxicological genomics. We tested two different TALENs, ey1 TALEN and ey2 TALEN, both of which target the eyeless locus. The donor DNA plasmid, harbouring the H2B-GFP reporter gene, was designed to contain both TALEN target sites and was co-injected with each TALEN mRNA into eggs...
November 7, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27818495/corrigendum-to-inducible-hgf-secreting-human-umbilical-cord-blood-derived-mscs-produced-via-talen-mediated-genome-editing-promoted-angiogenesis
#12
(no author information available yet)
No abstract text is available yet for this article.
October 2016: Molecular Therapy: the Journal of the American Society of Gene Therapy
https://www.readbyqxmd.com/read/27811851/establishment-of-a-congenital-amegakaryocytic-thrombocytopenia-model-and-a-thrombocyte-specific-reporter-line-in-zebrafish
#13
Q Lin, Y Zhang, R Zhou, Y Zheng, L Zhao, M Huang, X Zhang, A Y H Leung, W Zhang, Y Zhang
Mutations in the human myeloproliferative leukemia protein gene (MPL) are known to cause congenital amegakaryocytic thrombocytopenia (CAMT). The prognosis of this heritable disorder is poor and bone marrow transplantation is the only effective treatment. Here, by using transcription activator-like effect or nucleases (TALEN) technology, we created a zebrafish mpl mutant to model human CAMT. Disruption of zebrafish mpl leaded to a severe reduction in thrombocytes and a high bleeding tendency, as well as deficiencies in adult HSPCs...
November 4, 2016: Leukemia: Official Journal of the Leukemia Society of America, Leukemia Research Fund, U.K
https://www.readbyqxmd.com/read/27797355/non-viral-delivery-of-genome-editing-nucleases-for-gene-therapy
#14
REVIEW
M Wang, Z A Glass, Q Xu
Manipulating the genetic makeup of mammalian cells using programmable nuclease-based genome-editing technology has recently evolved into a powerful avenue that holds great potential for treating genetic disorders. There are four types of genome-editing nucleases, including meganucleases, zinc finger nucleases, transcription activator-like effector nucleases and clustered, regularly interspaced, short palindromic repeat-associated nucleases such as Cas9. These nucleases have been harnessed to introduce precise and specific changes of the genome sequence at virtually any genome locus of interest...
December 1, 2016: Gene Therapy
https://www.readbyqxmd.com/read/27790238/genome-editing-in-sugarcane-challenges-ahead
#15
REVIEW
Chakravarthi Mohan
Genome editing opens new and unique opportunities for researchers to enhance crop production. Until 2013, the zinc finger nucleases (ZFNs) and transcription activator-like effector nucleases (TALENs) were the key tools used for genome editing applications. The advent of RNA-guided engineered nucleases - the type II clustered regularly interspaced short palindromic repeat (CRISPR)/Cas9 (CRISPR-associated) system from Streptococcus pyogenes holds great potential since it is simple, effective and more versatile than ZFNs and TALENs...
2016: Frontiers in Plant Science
https://www.readbyqxmd.com/read/27788926/meckel-s-diverticulitis-caused-by-an-enterolith-a-rare-presentation-of-an-acute-abdomen-in-an-adult
#16
José Jacob Motos Micó, Teresa Abad Aguilar, Enrique Javier Grau Talens, Luis Fernando Fernández García
No abstract text is available yet for this article.
October 24, 2016: Cirugía Española
https://www.readbyqxmd.com/read/27780671/detailed-analysis-of-targeted-gene-mutations-caused-by-the-platinum-fungal-talens-in-aspergillus-oryzae-rib40-strain-and-a-ligd-disruptant
#17
Osamu Mizutani, Takayuki Arazoe, Kenji Toshida, Risa Hayashi, Shuichi Ohsato, Tetsushi Sakuma, Takashi Yamamoto, Shigeru Kuwata, Osamu Yamada
Transcription activator-like effector nucleases (TALENs), which can generate DNA double-strand breaks at specific sites in the desired genome locus, have been used in many organisms as a tool for genome editing. In Aspergilli, including Aspergillus oryzae, however, the use of TALENs has not been validated. In this study, we performed genome editing of A. oryzae wild-type strain via error of nonhomologous end-joining (NHEJ) repair by transient expression of high-efficiency Platinum-Fungal TALENs (PtFg TALENs)...
October 22, 2016: Journal of Bioscience and Bioengineering
https://www.readbyqxmd.com/read/27775045/supernova-a-versatile-vector-system-for-single-cell-labeling-and-gene-function-studies-in-vivo
#18
Wenshu Luo, Hidenobu Mizuno, Ryohei Iwata, Shingo Nakazawa, Kosuke Yasuda, Shigeyoshi Itohara, Takuji Iwasato
Here we describe "Supernova" series of vector systems that enable single-cell labeling and labeled cell-specific gene manipulation, when introduced by in utero electroporation (IUE) or adeno-associated virus (AAV)-mediated gene delivery. In Supernova, sparse labeling relies on low TRE leakage. In a small population of cells with over-threshold leakage, initial tTA-independent weak expression is enhanced by tTA/TRE-positive feedback along with a site-specific recombination system (e.g., Cre/loxP, Flpe/FRT). Sparse and bright labeling by Supernova with little background enables the visualization of the morphological details of individual neurons in densely packed brain areas such as the cortex and hippocampus, both during development and in adulthood...
October 24, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27766054/the-adaptor-protein-disabled-2-new-insights-into-platelet-biology-and-integrin-signaling
#19
Hui-Ju Tsai, Ching-Ping Tseng
Multiple functions of platelets in various physiological and pathological conditions have prompted considerable attention on understanding how platelets are generated and activated. Of the adaptor proteins that are expressed in megakaryocytes and platelets, Disabled-2 (Dab2) has been demonstrated in the past decades as a key regulator of platelet signaling. Dab2 has two alternative splicing isoforms p82 and p59. However, the mode of Dab2's action remains to be clearly defined. In this review, we highlight the current understanding of Dab2 expression and function in megakaryocytic differentiation, platelet activation and integrin signaling...
2016: Thrombosis Journal
https://www.readbyqxmd.com/read/27766006/genome-editing-in-large-animals
#20
James West, W Warren Gill
Genome editing in large animals has tremendous practical applications, from more accurate models for medical research through improved animal welfare and production efficiency. Although genetic modification in large animals has a 30 year history, until recently technical issues limited its utility. The original methods - pronuclear injection and integrating viruses - were plagued with problems associated with low efficiency, silencing, poor regulation of gene expression, and variability associated with random integration...
June 2016: Journal of Equine Veterinary Science
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