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  1 / 22116 MEDLINE  
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[PMID]:29179671
[Au] Autor:Hudaiberdiev S; Shmakov S; Wolf YI; Terns MP; Makarova KS; Koonin EV
[Ad] Endereço:National Center for Biotechnology Information, National Institutes of Health, Bethesda, MD, USA.
[Ti] Título:Phylogenomics of Cas4 family nucleases.
[So] Source:BMC Evol Biol;17(1):232, 2017 Nov 28.
[Is] ISSN:1471-2148
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:BACKGROUND: The Cas4 family endonuclease is a component of the adaptation module in many variants of CRISPR-Cas adaptive immunity systems. Unlike most of the other Cas proteins, Cas4 is often encoded outside CRISPR-cas loci (solo-Cas4) and is also found in mobile genetic elements (MGE-Cas4). RESULTS: As part of our ongoing investigation of CRISPR-Cas evolution, we explored the phylogenomics of the Cas4 family. About 90% of the archaeal genomes encode Cas4 compared to only about 20% of the bacterial genomes. Many archaea encode both the CRISPR-associated form (CAS-Cas4) and solo-Cas4, whereas in bacteria, this combination is extremely rare. The solo-cas4 genes are over-represented in environmental bacteria and archaea with small genomes that typically lack CRISPR-Cas, suggesting that Cas4 could perform uncharacterized defense or repair functions in these microbes. Phylogenomic analysis indicates that both the CRISPR-associated cas4 genes are often transferred horizontally but almost exclusively, as part of the adaptation module. The evolutionary integrity of the adaptation module sharply contrasts the rampant shuffling of CRISPR-cas modules whereby a given variant of the adaptation module can combine with virtually any effector module. The solo-cas4 genes evolve primarily via vertical inheritance and are subject only to occasional horizontal transfer. The selection pressure on cas4 genes does not substantially differ between CAS-Cas4 and solo-cas4, and is close to the genomic median. Thus, cas4 genes, similarly to cas1 and cas2, evolve similarly to 'regular' microbial genes involved in various cellular functions, showing no evidence of direct involvement in virus-host arms races. A notable feature of the Cas4 family evolution is the frequent recruitment of cas4 genes by various mobile genetic elements (MGE), particularly, archaeal viruses. The functions of Cas4 in these elements are unknown and potentially might involve anti-defense roles. CONCLUSIONS: Unlike most of the other Cas proteins, Cas4 family members are as often encoded by stand-alone genes as they are incorporated in CRISPR-Cas systems. In addition, cas4 genes were repeatedly recruited by MGE, perhaps, for anti-defense functions. Experimental characterization of the solo and MGE-encoded Cas4 nucleases is expected to reveal currently uncharacterized defense and anti-defense systems and their interactions with CRISPR-Cas systems.
[Mh] Termos MeSH primário: Sistemas CRISPR-Cas/genética
Endonucleases/genética
Genômica
Família Multigênica
[Mh] Termos MeSH secundário: Archaea/enzimologia
Archaea/genética
Bactérias/enzimologia
Bactérias/genética
Sequência de Bases
Elementos de DNA Transponíveis/genética
Transferência Genética Horizontal/genética
Loci Gênicos
Genoma Arqueal
Genoma Bacteriano
Filogenia
Seleção Genética
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (DNA Transposable Elements); EC 3.1.- (Endonucleases)
[Em] Mês de entrada:1803
[Cu] Atualização por classe:180309
[Lr] Data última revisão:
180309
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171129
[St] Status:MEDLINE
[do] DOI:10.1186/s12862-017-1081-1


  2 / 22116 MEDLINE  
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[PMID]:28461449
[Au] Autor:Stubbendieck RM; Straight PD
[Ad] Endereço:Interdisciplinary Program in Genetics, Texas A&M University, College Station, Texas, USA.
[Ti] Título:Linearmycins Activate a Two-Component Signaling System Involved in Bacterial Competition and Biofilm Morphology.
[So] Source:J Bacteriol;199(18), 2017 09 15.
[Is] ISSN:1098-5530
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Bacteria use two-component signaling systems to adapt and respond to their competitors and changing environments. For instance, competitor bacteria may produce antibiotics and other bioactive metabolites and sequester nutrients. To survive, some species of bacteria escape competition through antibiotic production, biofilm formation, or motility. Specialized metabolite production and biofilm formation are relatively well understood for bacterial species in isolation. How bacteria control these functions when competitors are present is not well studied. To address fundamental questions relating to the competitive mechanisms of different species, we have developed a model system using two species of soil bacteria, and sp. strain Mg1. Using this model, we previously found that linearmycins produced by sp. strain Mg1 cause lysis of cells and degradation of colony matrix. We identified strains of with mutations in the two-component signaling system operon that confer dual phenotypes of specific linearmycin resistance and biofilm morphology. We determined that expression of the ATP-binding cassette (ABC) transporter operon, particularly and , is necessary for biofilm morphology. Using transposon mutagenesis, we identified genes that are required for YfiLMN-mediated biofilm morphology, including several chaperones. Using transcriptional fusions, we found that YfiJ signaling is activated by linearmycins and other polyene metabolites. Finally, using a truncated YfiJ, we show that YfiJ requires its transmembrane domain to activate downstream signaling. Taken together, these results suggest coordinated dual antibiotic resistance and biofilm morphology by a single multifunctional ABC transporter promotes competitive fitness of DNA sequencing approaches have revealed hitherto unexplored diversity of bacterial species in a wide variety of environments that includes the gastrointestinal tract of animals and the rhizosphere of plants. Interactions between different species in bacterial communities have impacts on our health and industry. However, many approaches currently used to study whole bacterial communities do not resolve mechanistic details of interspecies interactions, including how bacteria sense and respond to their competitors. Using a competition model, we have uncovered dual functions for a previously uncharacterized two-component signaling system involved in specific antibiotic resistance and biofilm morphology. Insights gleaned from signaling within interspecies interaction models build a more complete understanding of gene functions important for bacterial communities and will enhance community-level analytical approaches.
[Mh] Termos MeSH primário: Antibacterianos/metabolismo
Antibiose
Bacillus subtilis/fisiologia
Biofilmes/crescimento & desenvolvimento
Viabilidade Microbiana
Streptomyces/fisiologia
[Mh] Termos MeSH secundário: Transportadores de Cassetes de Ligação de ATP/metabolismo
Fusão Gênica Artificial
Bacillus subtilis/efeitos dos fármacos
Elementos de DNA Transponíveis
Perfilação da Expressão Gênica
Regulação Bacteriana da Expressão Gênica
Mutagênese Insercional
Mutação
Transdução de Sinais
Streptomyces/metabolismo
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, U.S. GOV'T, NON-P.H.S.
[Nm] Nome de substância:
0 (ATP-Binding Cassette Transporters); 0 (Anti-Bacterial Agents); 0 (DNA Transposable Elements)
[Em] Mês de entrada:1708
[Cu] Atualização por classe:180306
[Lr] Data última revisão:
180306
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170503
[St] Status:MEDLINE


  3 / 22116 MEDLINE  
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[PMID]:28461445
[Au] Autor:Yamamoto S; Ohnishi M
[Ad] Endereço:Department of Bacteriology I, National Institute of Infectious Diseases, Tokyo, Japan yshouji@nih.go.jp.
[Ti] Título:Glucose-Specific Enzyme IIA of the Phosphoenolpyruvate:Carbohydrate Phosphotransferase System Modulates Chitin Signaling Pathways in Vibrio cholerae.
[So] Source:J Bacteriol;199(18), 2017 09 15.
[Is] ISSN:1098-5530
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:In , the genes required for chitin utilization and natural competence are governed by the chitin-responsive two-component system (TCS) sensor kinase ChiS. In the classical TCS paradigm, a sensor kinase specifically phosphorylates a cognate response regulator to activate gene expression. However, our previous genetic study suggested that ChiS stimulates the non-TCS transcriptional regulator TfoS by using mechanisms distinct from classical phosphorylation reactions (S. Yamamoto, J. Mitobe, T. Ishikawa, S. N. Wai, M. Ohnishi, H. Watanabe, and H. Izumiya, Mol Microbiol 91:326-347, 2014, https://doi.org/10.1111/mmi.12462). TfoS specifically activates the transcription of , encoding a small regulatory RNA essential for competence gene expression. Whether ChiS and TfoS interact directly remains unknown. To determine if other factors mediate the communication between ChiS and TfoS, we isolated transposon mutants that turned off :: expression but possessed intact and genes. We demonstrated an unexpected association of chitin-induced signaling pathways with the glucose-specific enzyme IIA (EIIA ) of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) for carbohydrate uptake and catabolite control of gene expression. Genetic and physiological analyses revealed that dephosphorylated EIIA inactivated natural competence and transcription. Chitin-induced expression of the operon, which is required for chitin transport and catabolism, was also repressed by dephosphorylated EIIA Furthermore, the regulation of and expression by EIIA was dependent on ChiS and intracellular levels of ChiS were not affected by disruption of the gene encoding EIIA These results define a previously unknown connection between the PTS and chitin signaling pathways in and suggest a strategy whereby this bacterium can physiologically adapt to the existing nutrient status. The EIIA protein of the PTS coordinates a wide variety of physiological functions with carbon availability. In this report, we describe an unexpected association of chitin-activated signaling pathways in with EIIA The signaling pathways are governed by the chitin-responsive TCS sensor kinase ChiS and lead to the induction of chitin utilization and natural competence. We show that dephosphorylated EIIA inhibits both signaling pathways in a ChiS-dependent manner. This inhibition is different from classical catabolite repression that is caused by lowered levels of cyclic AMP. This work represents a newly identified connection between the PTS and chitin signaling pathways in and suggests a strategy whereby this bacterium can physiologically adapt to the existing nutrient status.
[Mh] Termos MeSH primário: Quitina/metabolismo
Regulação Bacteriana da Expressão Gênica
Sistema Fosfotransferase de Açúcar do Fosfoenolpiruvato/metabolismo
Transdução de Sinais
Vibrio cholerae/genética
Vibrio cholerae/metabolismo
[Mh] Termos MeSH secundário: Elementos de DNA Transponíveis
Redes Reguladoras de Genes
Mutagênese Insercional
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
[Nm] Nome de substância:
0 (DNA Transposable Elements); 1398-61-4 (Chitin); EC 2.7.1.- (Phosphoenolpyruvate Sugar Phosphotransferase System)
[Em] Mês de entrada:1708
[Cu] Atualização por classe:180306
[Lr] Data última revisão:
180306
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170503
[St] Status:MEDLINE


  4 / 22116 MEDLINE  
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[PMID]:29362365
[Au] Autor:Zhang Y; Kastman EK; Guasto JS; Wolfe BE
[Ad] Endereço:Department of Biology, Tufts University, 200 Boston Avenue, Medford, MA, 02155, USA.
[Ti] Título:Fungal networks shape dynamics of bacterial dispersal and community assembly in cheese rind microbiomes.
[So] Source:Nat Commun;9(1):336, 2018 01 23.
[Is] ISSN:2041-1723
[Cp] País de publicação:England
[La] Idioma:eng
[Ab] Resumo:Most studies of bacterial motility have examined small-scale (micrometer-centimeter) cell dispersal in monocultures. However, bacteria live in multispecies communities, where interactions with other microbes may inhibit or facilitate dispersal. Here, we demonstrate that motile bacteria in cheese rind microbiomes use physical networks created by filamentous fungi for dispersal, and that these interactions can shape microbial community structure. Serratia proteamaculans and other motile cheese rind bacteria disperse on fungal networks by swimming in the liquid layers formed on fungal hyphae. RNA-sequencing, transposon mutagenesis, and comparative genomics identify potential genetic mechanisms, including flagella-mediated motility, that control bacterial dispersal on hyphae. By manipulating fungal networks in experimental communities, we demonstrate that fungal-mediated bacterial dispersal can shift cheese rind microbiome composition by promoting the growth of motile over non-motile community members. Our single-cell to whole-community systems approach highlights the interactive dynamics of bacterial motility in multispecies microbiomes.
[Mh] Termos MeSH primário: Queijo/microbiologia
DNA Bacteriano/genética
Fungos/crescimento & desenvolvimento
Hifas/crescimento & desenvolvimento
Interações Microbianas/genética
Microbiota/genética
Serratia/genética
[Mh] Termos MeSH secundário: Actinobacteria/classificação
Actinobacteria/genética
Actinobacteria/crescimento & desenvolvimento
Elementos de DNA Transponíveis
Firmicutes/classificação
Firmicutes/genética
Firmicutes/crescimento & desenvolvimento
Flagelos/genética
Flagelos/ultraestrutura
Fungos/ultraestrutura
Sequenciamento de Nucleotídeos em Larga Escala
Hifas/ultraestrutura
Movimento/fisiologia
Mucor/crescimento & desenvolvimento
Mucor/ultraestrutura
Mutação
Penicillium/crescimento & desenvolvimento
Penicillium/ultraestrutura
Proteobactérias/classificação
Proteobactérias/genética
Proteobactérias/crescimento & desenvolvimento
Serratia/crescimento & desenvolvimento
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T; RESEARCH SUPPORT, U.S. GOV'T, NON-P.H.S.
[Nm] Nome de substância:
0 (DNA Transposable Elements); 0 (DNA, Bacterial)
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180227
[Lr] Data última revisão:
180227
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:180125
[St] Status:MEDLINE
[do] DOI:10.1038/s41467-017-02522-z


  5 / 22116 MEDLINE  
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[PMID]:29281637
[Au] Autor:Boot M; van Winden VJC; Sparrius M; van de Weerd R; Speer A; Ummels R; Rustad T; Sherman DR; Bitter W
[Ad] Endereço:Department of Medical Microbiology and Infection Control, VU University Medical Center, Amsterdam, the Netherlands.
[Ti] Título:Cell envelope stress in mycobacteria is regulated by the novel signal transduction ATPase IniR in response to trehalose.
[So] Source:PLoS Genet;13(12):e1007131, 2017 12.
[Is] ISSN:1553-7404
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:The cell envelope of mycobacteria is a highly unique and complex structure that is functionally equivalent to that of Gram-negative bacteria to protect the bacterial cell. Defects in the integrity or assembly of this cell envelope must be sensed to allow the induction of stress response systems. The promoter that is specifically and most strongly induced upon exposure to ethambutol and isoniazid, first line drugs that affect cell envelope biogenesis, is the iniBAC promoter. In this study, we set out to identify the regulator of the iniBAC operon in Mycobacterium marinum using an unbiased transposon mutagenesis screen in a constitutively iniBAC-expressing mutant background. We obtained multiple mutants in the mce1 locus as well as mutants in an uncharacterized putative transcriptional regulator (MMAR_0612). This latter gene was shown to function as the iniBAC regulator, as overexpression resulted in constitutive iniBAC induction, whereas a knockout mutant was unable to respond to the presence of ethambutol and isoniazid. Experiments with the M. tuberculosis homologue (Rv0339c) showed identical results. RNAseq experiments showed that this regulatory gene was exclusively involved in the regulation of the iniBAC operon. We therefore propose to name this dedicated regulator iniBAC Regulator (IniR). IniR belongs to the family of signal transduction ATPases with numerous domains, including a putative sugar-binding domain. Upon testing different sugars, we identified trehalose as an activator and metabolic cue for iniBAC activation, which could also explain the effect of the mce1 mutations. In conclusion, cell envelope stress in mycobacteria is regulated by IniR in a cascade that includes trehalose.
[Mh] Termos MeSH primário: Adenosina Trifosfatases/genética
Mycobacterium marinum/genética
Mycobacterium marinum/metabolismo
Trealose/metabolismo
[Mh] Termos MeSH secundário: Proteínas de Bactérias/genética
Membrana Celular/metabolismo
Parede Celular/genética
Parede Celular/metabolismo
Elementos de DNA Transponíveis
Regulação Bacteriana da Expressão Gênica
Genes Bacterianos
Mutagênese Insercional
Óperon
Regiões Promotoras Genéticas
Transdução de Sinais
Transcrição Genética
[Pt] Tipo de publicação:JOURNAL ARTICLE; RESEARCH SUPPORT, NON-U.S. GOV'T
[Nm] Nome de substância:
0 (Bacterial Proteins); 0 (DNA Transposable Elements); B8WCK70T7I (Trehalose); EC 3.6.1.- (Adenosine Triphosphatases)
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180227
[Lr] Data última revisão:
180227
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171228
[St] Status:MEDLINE
[do] DOI:10.1371/journal.pgen.1007131


  6 / 22116 MEDLINE  
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[PMID]:29364900
[Au] Autor:Oppenheim SJ; Feindt W; DeSalle R; Goldstein PZ
[Ad] Endereço:Sackler Institute for Comparative Genomics, American Museum of Natural History, New York, New York, United States of America.
[Ti] Título:De Novo characterization of transcriptomes from two North American Papaipema stem-borers (Lepidoptera: Noctuidae).
[So] Source:PLoS One;13(1):e0191061, 2018.
[Is] ISSN:1932-6203
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Stem-borers in the genus Papaipema (Lepidoptera: Noctuidae) range from highly polyphagous agricultural pests to specialists on more than 20 families of flowering plants, many of them highly toxic. Papaipema is the largest genus of noctuids endemic to North America and provides an excellent study system for the evolution of noctuid host plant use. To improve the availability of genomic resources for such investigations, we performed de novo transcriptome sequencing and assembly for two specialist Papaipema with unusual larval hosts: P. speciosissima, which is associated with ferns, and the undescribed P. "sp. 4," which is associated with bamboo. The resulting transcriptomes were similar in terms of completeness, gene count, and gene identity, but we identified some 8,000 genes (~17% of each transcriptome) not shared between the two species. While some of these have identifiable orthologs in other Lepidoptera, ~5% of each transcriptome consists of species-specific genes. We examine the function of these genes and find that almost half have retrotransposon-related functional domains. The potential role of species-specific genes is discussed, and the expansion of certain retrotransposon families in Papaipema is examined.
[Mh] Termos MeSH primário: Lepidópteros/genética
Transcriptoma
[Mh] Termos MeSH secundário: Animais
Elementos de DNA Transponíveis
Lepidópteros/classificação
Especificidade da Espécie
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (DNA Transposable Elements)
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180223
[Lr] Data última revisão:
180223
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:180125
[St] Status:MEDLINE
[do] DOI:10.1371/journal.pone.0191061


  7 / 22116 MEDLINE  
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[PMID]:29194761
[Au] Autor:Chu FC; Klobasa W; Grubbs N; Lorenzen MD
[Ad] Endereço:Department of Entomology and Plant Pathology, North Carolina State University, Raleigh, NC, USA.
[Ti] Título:Development and use of a piggyBac-based jumpstarter system in Drosophila suzukii.
[So] Source:Arch Insect Biochem Physiol;97(3), 2018 Mar.
[Is] ISSN:1520-6327
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Spotted wing drosophila, Drosophila suzukii, is an invasive pest that primarily attacks fresh, soft-skinned fruit. Although others have reported successful integration of marked piggyBac elements into the D. suzukii genome, with a very respectable transgenesis rate of ∼16%, here we take this work a step further by creating D. suzukii jumpstarter strains. These were generated through integration of a fluorescent-marked Minos element carrying a heat shock protein 70-driven piggyBac transposase gene. We demonstrate that there is a dramatic increase in transformation rates when germline transformation is performed in a transposase-expressing background. For example, we achieved transformation rates as high as 80% when microinjecting piggyBac-based plasmids into embryos derived from one of these D. suzukii jumpstarter strains. We also investigate the effect of insert size on transformation efficiency by testing the ability of the most efficient jumpstarter strain to catalyze integration of differently-sized piggyBac elements. Finally, we demonstrate the ability of a jumpstarter strain to remobilize an already-integrated piggyBac element to a new location, demonstrating that our jumpstarter strains could be used in conjunction with a piggyBac-based donor strain for genome-wide mutagenesis of D. suzukii.
[Mh] Termos MeSH primário: Animais Geneticamente Modificados
Elementos de DNA Transponíveis
Drosophila/genética
Engenharia Genética/métodos
Mutagênese
[Mh] Termos MeSH secundário: Animais
Transposases
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (DNA Transposable Elements); EC 2.7.7.- (Transposases)
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180216
[Lr] Data última revisão:
180216
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171202
[St] Status:MEDLINE
[do] DOI:10.1002/arch.21439


  8 / 22116 MEDLINE  
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[PMID]:28471386
[Au] Autor:Anwar SL; Wulaningsih W; Lehmann U
[Ad] Endereço:Division of Surgical Oncology, Department of Surgery Faculty of Medicine, Universitas Gadjah Mada, Yogyakarta 55281, Indonesia. sl.anwar@ugm.ac.id.
[Ti] Título:Transposable Elements in Human Cancer: Causes and Consequences of Deregulation.
[So] Source:Int J Mol Sci;18(5), 2017 May 04.
[Is] ISSN:1422-0067
[Cp] País de publicação:Switzerland
[La] Idioma:eng
[Ab] Resumo:Transposable elements (TEs) comprise nearly half of the human genome and play an essential role in the maintenance of genomic stability, chromosomal architecture, and transcriptional regulation. TEs are repetitive sequences consisting of RNA transposons, DNA transposons, and endogenous retroviruses that can invade the human genome with a substantial contribution in human evolution and genomic diversity. TEs are therefore firmly regulated from early embryonic development and during the entire course of human life by epigenetic mechanisms, in particular DNA methylation and histone modifications. The deregulation of TEs has been reported in some developmental diseases, as well as for different types of human cancers. To date, the role of TEs, the mechanisms underlying TE reactivation, and the interplay with DNA methylation in human cancers remain largely unexplained. We reviewed the loss of epigenetic regulation and subsequent genomic instability, chromosomal aberrations, transcriptional deregulation, oncogenic activation, and aberrations of non-coding RNAs as the potential mechanisms underlying TE deregulation in human cancers.
[Mh] Termos MeSH primário: Elementos de DNA Transponíveis
Regulação Neoplásica da Expressão Gênica
Neoplasias/genética
[Mh] Termos MeSH secundário: Instabilidade Genômica
Seres Humanos
Proteínas Oncogênicas/genética
Proteínas Oncogênicas/metabolismo
RNA não Traduzido/genética
Proteínas Supressoras de Tumor/genética
Proteínas Supressoras de Tumor/metabolismo
[Pt] Tipo de publicação:JOURNAL ARTICLE; REVIEW
[Nm] Nome de substância:
0 (DNA Transposable Elements); 0 (Oncogene Proteins); 0 (RNA, Untranslated); 0 (Tumor Suppressor Proteins)
[Em] Mês de entrada:1802
[Cu] Atualização por classe:180212
[Lr] Data última revisão:
180212
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:170505
[St] Status:MEDLINE


  9 / 22116 MEDLINE  
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[PMID]:29283231
[Au] Autor:Mustafin RN; Khusnutdinova EK
[Ti] Título:The Role of Transposable Elements in Ontogenesis.
[So] Source:Usp Fiziol Nauk;47(3):70-96, 2016 Jul-Sep.
[Is] ISSN:0301-1798
[Cp] País de publicação:Russia (Federation)
[La] Idioma:rus
[Ab] Resumo:The article describes the role of transposable elements in the ontogenesis of eukaryotes. Adaptive and controlled transposition of mobile elements occurs at different stages of development of an organism, causing dramatic changes in the regulation of gene expression, representing a cascade of reactions inherited genome evolutionary fixed at the species level. At this cascade of reactions involved regulatory system of tissue-specific expression of proteins splice variants in connection with the role of adaptive genes mosaic structure to numerous transpositions and the interconnectedness of mechanisms their evolutionary stabilization. Important role in the transposition of mobile elements and their interaction with groups of genes play epigenetic mechanisms - DNA methylation, histone modification, the expression of non-coding RNA. The genome structures responsible for the epigenetic regulation can have a transposons origin. In contrast to the previously established hypotheses on transpositions of mobile elements in the ontogenesis as a chaotic process, causing the destabilization of genotype, with a modern viewpoint, this mechanism has a species-specific patterns, formed evolutionarily. Mechanisms of the evolutionary transformation of genomes by natural selection create a relatively stable complex regulatory epigenetic characteristics of transpositions in the process of individual development, acting among individuals of the same species. The stability of the complex genomic information regulation in ontogenesis provides a specific set of transposons. Changing this regulation set transposons can cause fatal for the development of events. Dysregulation of transposons, not involved in the developmental restructuring, can give the inheritance of these changes. The aging process is a consequence of the evolutionary relationship of species-specific features of the regulation of mobile elements in ontogenesis, aimed at continuity and continuous increase in living matter for maximum adaptability. In the overall scheme of ontogenetic development process can be described as a way to implement the established evolutionary genomic information in time by means of gradually stabilized complex interaction of regulators of transpositions of mobile elements of the genome with a differentiated pattern of gene expression and regulation of splicing variants of their products. These transpositions vary with each cell division, especially by implementing the expression of sets of genes, the products of which affect the nature of the further transposition and change of regulation in the subsequent stages of development of an organism.
[Mh] Termos MeSH primário: Envelhecimento/genética
Elementos de DNA Transponíveis
Regulação da Expressão Gênica no Desenvolvimento
Genoma
Morfogênese/genética
[Mh] Termos MeSH secundário: Processamento Alternativo
Evolução Biológica
Metilação de DNA
Epigênese Genética
Eucariotos/crescimento & desenvolvimento
Eucariotos/metabolismo
Histonas/genética
Histonas/metabolismo
RNA não Traduzido/genética
RNA não Traduzido/metabolismo
Seleção Genética
Transdução de Sinais
Especificidade da Espécie
[Pt] Tipo de publicação:JOURNAL ARTICLE; REVIEW
[Nm] Nome de substância:
0 (DNA Transposable Elements); 0 (Histones); 0 (RNA, Untranslated)
[Em] Mês de entrada:1801
[Cu] Atualização por classe:180116
[Lr] Data última revisão:
180116
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:171229
[St] Status:MEDLINE


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[PMID]:27770371
[Au] Autor:Parisod C
[Ad] Endereço:Laboratory of Evolutionary Botany, Biology Institute, University of Neuchâtel, Rue Emile-Argand 11, 2009, Neuchâtel, Switzerland. christian.parisod@unine.ch.
[Ti] Título:Profiling Transposable Elements and Their Epigenetic Effects in Non-model Species.
[So] Source:Methods Mol Biol;1456:243-250, 2017.
[Is] ISSN:1940-6029
[Cp] País de publicação:United States
[La] Idioma:eng
[Ab] Resumo:Taking transposable elements into consideration in surveys of genetic and epigenetic variation remains challenging in species lacking a high-quality reference genome. Here, molecular techniques reducing genome complexity and specifically targeting restructuring and methylation changes in TE genome fractions are described. In particular, methyl-sensitive transposon display (MSTD) uses isoschizomers and PCR amplifications to assess the methylation environment of TE insertions. MSTD offers reliable insights into genome-wide epigenetic changes associated with TEs, especially when used together with similar techniques tracking random sequences.
[Mh] Termos MeSH primário: Elementos de DNA Transponíveis
Epigênese Genética
Variação Genética
[Mh] Termos MeSH secundário: Plantas/genética
Reação em Cadeia da Polimerase
[Pt] Tipo de publicação:JOURNAL ARTICLE
[Nm] Nome de substância:
0 (DNA Transposable Elements)
[Em] Mês de entrada:1801
[Cu] Atualização por classe:180112
[Lr] Data última revisão:
180112
[Sb] Subgrupo de revista:IM
[Da] Data de entrada para processamento:161023
[St] Status:MEDLINE



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