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1.
Artigo em Inglês | MEDLINE | ID: mdl-37587981

RESUMO

Introduction: Resting heart rate (HR) and heart rate variability (HRV) have been linked with cognition in the general population and in older individuals. The knowledge of this aspect of heart-brain relationship is relatively absent in older individuals with early Alzheimer's disease (AD) pathology. This study explores relationships of the HR, HRV, and cognition in cognitively healthy individuals with pathological amyloid/tau ratio (CH-PATs) in cerebral spinal fluid (CSF) compared to those with normal ratio (CH-NATs). Methods: We examined therelationshipsbetween1) resting HR and Mini-Mental State Examination (MMSE); 2) resting HR and brain processing during Stroop interference; and 3) resting vagally mediated HRV (vmHRV) and task switching performance. Results: Our studies showed that compared to CH-NATs, those CH-PATs with higher resting HR presented with lower MMSE, and less brain activation during interference processing. In addition, resting vmHRV was significantly correlated with task switching accuracy in CH-NATs, but not in CH-PATs. Discussion: Thesethreedifferenttestsindicatedysfunctionalheart-brainconnections in CH-PATs, suggesting a potential cardio-cerebral dysfunctional integration.

2.
Epigenetics ; 18(1): 2231707, 2023 12.
Artigo em Inglês | MEDLINE | ID: mdl-37406176

RESUMO

Long noncoding RNAs have been identified as important regulators of gene expression and animal development. The expression of natural antisense transcripts (NATs) transcribed in the opposite direction to protein-coding genes is usually positively correlated with the expression of homologous sense genes and is the key factor for expression. Here, we identified a conserved noncoding antisense transcript, CFL1-AS1, that plays an important role in muscle growth and development. CFL1-AS1 overexpression and knockout vectors were constructed and transfected into 293T and C2C12 cells. CFL1-AS1 positively regulated CFL1 gene expression, and the expression of CFL2 was also downregulated when CFL1-AS1 was knocked down. CFL1-AS1 promoted cell proliferation, inhibited apoptosis and participated in autophagy. This study expands the research on NATs in cattle and lays a foundation for the study of the biological function of bovine CFL1 and its natural antisense chain transcript CFL1-AS1 in bovine skeletal muscle development. The discovery of this NAT can provide a reference for subsequent genetic breeding and data on the characteristics and functional mechanisms of NATs.


Assuntos
MicroRNAs , RNA Longo não Codificante , Bovinos/genética , Animais , RNA Longo não Codificante/genética , RNA Longo não Codificante/metabolismo , Metilação de DNA , Apoptose/genética , Clonagem Molecular , Proliferação de Células/genética , Linhagem Celular Tumoral , Regulação Neoplásica da Expressão Gênica , RNA Antissenso/genética , RNA Antissenso/metabolismo , MicroRNAs/metabolismo
3.
Structure ; 31(2): 166-173.e4, 2023 02 02.
Artigo em Inglês | MEDLINE | ID: mdl-36638802

RESUMO

N-terminal acetylation occurs on over 80% of human proteins and is catalyzed by a family of N-terminal acetyltransferases (NATs). All NATs contain a small catalytic subunit, while some also contain a large auxiliary subunit that facilitates catalysis and ribosome targeting for co-translational acetylation. NatC is one of the major NATs containing an NAA30 catalytic subunit, but uniquely contains two auxiliary subunits, large NAA35 and small NAA38. Here, we report the cryo-EM structures of human NatC (hNatC) complexes with and without NAA38, together with biochemical studies, to reveal that NAA38 increases the thermostability and broadens the substrate-specificity profile of NatC by ordering an N-terminal segment of NAA35 and reorienting an NAA30 N-terminal peptide binding loop for optimal catalysis, respectively. We also note important differences in engagement with a stabilizing inositol hexaphosphate molecule between human and yeast NatC. These studies provide new insights for the function and evolution of the NatC complex.


Assuntos
Acetiltransferase N-Terminal C , Proteínas de Saccharomyces cerevisiae , Humanos , Acetilação , Sequência de Aminoácidos , Acetiltransferase N-Terminal C/metabolismo , Ribossomos/metabolismo , Saccharomyces cerevisiae/metabolismo , Proteínas de Saccharomyces cerevisiae/metabolismo , Biocatálise
4.
Hum Cell ; 35(6): 1697-1707, 2022 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-36038801

RESUMO

Stem cells from human exfoliated deciduous teeth (SHED) are attractive seed cells for dental tissue engineering. We identified the effect of the long noncoding RNA insulin-like growth factor-binding protein 7 antisense RNA 1 (lncRNA IGFBP7-AS1) in vivo and its underlying mechanism during SHED odontogenic differentiation. IGFBP7-AS1 and insulin-like growth factor-binding protein 7 (IGFBP7) were overexpressed using lentiviruses. IGFBP7 expression was knocked down with small interfering RNA. The effect of IGFBP7-AS1 in vivo was confirmed by animal experiments. The effect of IGFBP7 on SHED odontogenic differentiation was assessed with alkaline phosphatase staining, alizarin red S staining, quantitative reverse transcription-PCR, and western blotting. The relationship between IGFBP7-AS1 and IGFBP7 was confirmed by quantitative reverse transcription-PCR and western blotting. IGFBP7-AS1 promoted SHED odontogenesis in vivo, and regulated the expression of the coding gene IGFBP7 positively. Inhibiting IGFBP7 led to suppress SHED odontogenic differentiation while IGFBP7 overexpression had the opposite effect. IGFBP7-AS1 enhanced the stability of IGFBP7. IGFBP7-AS1 promoted SHED odontogenic differentiation in vivo. The underlying mechanism may involve the enhancement of IGFBP7 stability. This may provide novel potential targets for dental tissue engineering.


Assuntos
RNA Longo não Codificante , Somatomedinas , Fosfatase Alcalina/metabolismo , Animais , Diferenciação Celular , Proliferação de Células , Humanos , Proteínas de Ligação a Fator de Crescimento Semelhante a Insulina , Odontogênese/genética , Osteogênese , RNA Longo não Codificante/genética , RNA Longo não Codificante/metabolismo , RNA Interferente Pequeno , Somatomedinas/metabolismo , Somatomedinas/farmacologia , Células-Tronco , Dente Decíduo
5.
Neurobiol Aging ; 112: 87-101, 2022 04.
Artigo em Inglês | MEDLINE | ID: mdl-35066324

RESUMO

Synaptic dysfunctions precede cognitive decline in Alzheimer's disease by decades, affect executive functions, and can be detected by quantitative electroencephalography (qEEG). We used quantitative electroencephalography combined with Stroop testing to identify changes of inhibitory controls in cognitively healthy individuals with an abnormal versus normal ratio of cerebrospinal fluid (CSF) amyloid/total-tau. We studied two groups of participants (60-94 years) with either normal (CH-NAT or controls, n = 20) or abnormal (CH-PAT, n = 21) CSF amyloid/tau ratio. We compared: alpha event-related desynchronization (ERD), alpha spectral entropy (SE), and their relationships with estimated cognitive reserve. CH-PATs had more negative occipital alpha ERD, and higher frontal and occipital alpha SE during low load congruent trials, indicating hyperactivity. CH-PATs demonstrated fewer frontal SE changes with higher load, incongruent Stroop testing. Correlations of alpha ERD with estimated cognitive reserve were significant in CH-PATs but not in CH-NATs. These results suggested compensatory hyperactivity in CH-PATs compared to CH-NATs. We did not find differences in alpha ERD comparisons with individual CSF amyloid(A), p-tau(T), total-tau(N) biomarkers.


Assuntos
Doença de Alzheimer , Disfunção Cognitiva , Peptídeos beta-Amiloides/líquido cefalorraquidiano , Biomarcadores/líquido cefalorraquidiano , Disfunção Cognitiva/líquido cefalorraquidiano , Disfunção Cognitiva/diagnóstico , Humanos , Fragmentos de Peptídeos/líquido cefalorraquidiano , Teste de Stroop , Proteínas tau/líquido cefalorraquidiano
6.
Methods Mol Biol ; 2372: 223-241, 2021.
Artigo em Inglês | MEDLINE | ID: mdl-34417756

RESUMO

Based on recent findings, long noncoding (lnc) RNAs represent a potential class of functional molecules within the cell. In this chapter we describe a computational scheme to identify and classify lncRNAs within maize from full-length cDNA sequences to designate subsets of lncRNAs for which biogenesis and regulatory mechanisms may be verified at the bench. We make use of the Coding Potential Calculator and specific Python scripts in our approach.


Assuntos
RNA Longo não Codificante/genética , Sequência de Bases , Biologia Computacional , DNA Complementar/genética , Zea mays/genética
7.
J Dev Biol ; 9(3)2021 Jul 15.
Artigo em Inglês | MEDLINE | ID: mdl-34287306

RESUMO

Bilaterian animals operate the clusters of Hox genes through a rich repertoire of diverse mechanisms. In this review, we will summarize and analyze the accumulated data concerning long non-coding RNAs (lncRNAs) that are transcribed from sense (coding) DNA strands of Hox clusters. It was shown that antisense regulatory RNAs control the work of Hox genes in cis and trans, participate in the establishment and maintenance of the epigenetic code of Hox loci, and can even serve as a source of regulatory peptides that switch cellular energetic metabolism. Moreover, these molecules can be considered as a force that consolidates the cluster into a single whole. We will discuss the examples of antisense transcription of Hox genes in well-studied systems (cell cultures, morphogenesis of vertebrates) and bear upon some interesting examples of antisense Hox RNAs in non-model Protostomia.

8.
Structure ; 29(10): 1094-1104.e4, 2021 10 07.
Artigo em Inglês | MEDLINE | ID: mdl-34019809

RESUMO

Protein N-terminal acetylation is predominantly a ribosome-associated modification, with NatA-E serving as the major enzymes. NatC is the most unusual of these enzymes, containing one Naa30 catalytic subunit and two auxiliary subunits, Naa35 and Naa38; and substrate selectivity profile that overlaps with NatE. Here, we report the cryoelectron microscopy structure of S. pombe NatC with a NatE/C-type bisubstrate analog and inositol hexaphosphate (IP6), and associated biochemistry studies. We find that the presence of three subunits is a prerequisite for normal NatC acetylation activity in yeast and that IP6 binds tightly to NatC to stabilize the complex. We also describe the molecular basis for IP6-mediated NatC complex stabilization and the overlapping yet distinct substrate profiles of NatC and NatE.


Assuntos
Proteínas de Schizosaccharomyces pombe/química , Acetilação , Sítios de Ligação , Ácido Fítico/química , Ácido Fítico/metabolismo , Ligação Proteica , Multimerização Proteica , Schizosaccharomyces , Proteínas de Schizosaccharomyces pombe/metabolismo
9.
Cell Rep ; 34(13): 108912, 2021 03 30.
Artigo em Inglês | MEDLINE | ID: mdl-33789104

RESUMO

The fine-scale dynamics from euchromatin (EC) to facultative heterochromatin (fHC) has remained largely unclear. Here, we focus on Xist and its silencing initiator Tsix as a paradigm of transcription-mediated conversion from EC to fHC. In mouse epiblast stem cells, induction of Tsix recapitulates the conversion at the Xist promoter. Investigating the dynamics reveals that the conversion proceeds in a stepwise manner. Initially, a transient opened chromatin structure is observed. In the second step, gene silencing is initiated and dependent on Tsix, which is reversible and accompanied by simultaneous changes in multiple histone modifications. At the last step, maintenance of silencing becomes independent of Tsix and irreversible, which correlates with occupation of the -1 position of the transcription start site by a nucleosome and initiation of DNA methylation introduction. This study highlights the hierarchy of multiple chromatin events upon stepwise gene silencing establishment.


Assuntos
Eucromatina/metabolismo , Heterocromatina/metabolismo , Regiões Promotoras Genéticas , RNA Longo não Codificante/genética , Transcrição Gênica , Animais , Fator de Ligação a CCCTC/metabolismo , Metilação de DNA/genética , Epigênese Genética , Fibroblastos/citologia , Fibroblastos/metabolismo , Inativação Gênica , Camadas Germinativas/citologia , Histonas/metabolismo , Camundongos , Nucleossomos/metabolismo , Processamento de Proteína Pós-Traducional , RNA Longo não Codificante/metabolismo , Células-Tronco/metabolismo , Fator de Transcrição YY1/metabolismo
10.
Trends Biochem Sci ; 46(1): 15-27, 2021 01.
Artigo em Inglês | MEDLINE | ID: mdl-32912665

RESUMO

N-terminal acetylation (NTA) is one of the most widespread protein modifications, which occurs on most eukaryotic proteins, but is significantly less common on bacterial and archaea proteins. This modification is carried out by a family of enzymes called N-terminal acetyltransferases (NATs). To date, 12 NATs have been identified, harboring different composition, substrate specificity, and in some cases, modes of regulation. Recent structural and biochemical analysis of NAT proteins allows for a comparison of their molecular mechanisms and modes of regulation, which are described here. Although sharing an evolutionarily conserved fold and related catalytic mechanism, each catalytic subunit uses unique elements to mediate substrate-specific activity, and use NAT-type specific auxiliary and regulatory subunits, for their cellular functions.


Assuntos
Acetiltransferases/química , Acetilação , Conformação Proteica , Processamento de Proteína Pós-Traducional
11.
J Exp Clin Cancer Res ; 39(1): 187, 2020 Sep 14.
Artigo em Inglês | MEDLINE | ID: mdl-32928281

RESUMO

Natural antisense transcripts (NATs), which are transcribed from opposite strands of DNA with partial or complete overlap, affect multiple stages of gene expression, from epigenetic to post-translational modifications. NATs are dysregulated in various types of cancer, and an increasing number of studies focusing on NATs as pivotal regulators of the hallmarks of cancer and as promising candidates for cancer therapy are just beginning to unravel the mystery. Here, we summarize the existing knowledge on NATs to highlight their underlying mechanisms of functions in cancer biology, discuss their potential roles in therapeutic application, and explore future research directions.


Assuntos
Biomarcadores Tumorais/genética , Regulação Neoplásica da Expressão Gênica , Terapia de Alvo Molecular , Neoplasias/terapia , RNA Antissenso/genética , Transcrição Gênica , Humanos , Neoplasias/genética
12.
Cancers (Basel) ; 12(9)2020 Sep 15.
Artigo em Inglês | MEDLINE | ID: mdl-32942614

RESUMO

N-terminal acetylation (Nt-Ac) is an abundant eukaryotic protein modification, deposited in humans by one of seven N-terminal acetyltransferase (NAT) complexes composed of a catalytic and potentially auxiliary subunits. The involvement of NATs in cancers is being increasingly recognised, but a systematic cross-tumour assessment is currently lacking. To address this limitation, we conducted here a multi-omic data interrogation for NATs. We found that tumour genomic alterations of NATs or of their protein substrates are generally rare events, with some tumour-specific exceptions. In contrast, altered gene expression of NATs in cancers and their association with patient survival constitute a widespread cancer phenomenon. Examination of dependency screens revealed that (i), besides NAA60 and NAA80 and the NatA paralogues NAA11 and NAA16, the other ten NAT genes were within the top 80th percentile of the most dependent genes (ii); NATs act through distinct biological processes. NAA40 (NatD) emerged as a NAT with particularly interesting cancer biology and therapeutic potential, especially in liver cancer where a novel oncogenic role was supported by its increased expression in multiple studies and its association with patient survival. In conclusion, this study generated insights and data that will be of great assistance in guiding further research into the function and therapeutic potential of NATs in cancer.

13.
Chem Phys Lipids ; 230: 104929, 2020 08.
Artigo em Inglês | MEDLINE | ID: mdl-32460990

RESUMO

N-acyltaurines (NATs) are amides of fatty acids that can be structurally related to endocannabinoids. They show interesting physiological and pharmacological properties. We have synthesized a homologous series of NATs with saturated acyl chains (n = 9-18) and investigated their supramolecular structure and thermotropic phase transitions by powder X-ray diffraction (PXRD) and differential scanning calorimetry (DSC). The d-spacings obtained from PXRD increase linearly with chain length with an increment of ∼0.847 Å per additional CH2 moiety suggesting that NATs adopt a tilted bilayer structure with similar packing in crystal lattice. Results obtained from DSC studies indicate that the endothermic transition temperature (Tt) of NATs showed a gradually increasing trend with increasing acyl chain length. The enthalpy (ΔHt) and entropy (ΔSt) of transition show odd-even alternations with odd-chain compounds having higher values than the even-chain compounds. The critical micellar concentration (CMC) of NATs was determined in water at room temperature by fluorescence spectroscopy by monitoring the spectral changes of 8-anilinonaphthalene-1-sulfonic acid (ANS). The CMCs of NATs were found to decrease with increase in acyl chain length. The present results provide a thermodynamic and structural basis for investigating the interaction of NATs with other membrane lipids and proteins, which in turn can shed light in understanding how they function in vivo (in biological membranes).


Assuntos
Varredura Diferencial de Calorimetria , Micelas , Espectrometria de Fluorescência , Taurina/química , Temperatura de Transição , Difração de Raios X , Entropia
14.
Artigo em Inglês | MEDLINE | ID: mdl-32021971

RESUMO

Endometriosis is a common gynecological disease. However, the etiology of endometriosis is still unclear, and current theories cannot fully elaborate its specific pathogenesis. Recently, some research has suggested that the occurrence and development of endometriosis may be related to genetics. Long-chain non-coding RNA (lncRNAs) is a kind of non-protein-coding RNA molecule with a length of 200-100,000 bp. With complex biological functions, lncRNAs play an important role in the normal development of individuals and the progression of various diseases, and lncRNAs have become an important field of medical research in recent years. This paper mainly illustrates the research progress on lncRNAs as they relate to endometriosis. We also provide some ideas for exploring the pathogenesis of endometriosis.

15.
Methods Enzymol ; 626: 271-299, 2019.
Artigo em Inglês | MEDLINE | ID: mdl-31606079

RESUMO

N-terminal acetylation is a co- and post-translational modification catalyzed by the conserved N-terminal acetyltransferase (NAT) family of enzymes. A majority of the human proteome is modified by the human NATs (NatA-F and H), which are minimally composed of a catalytic subunit and as many as two auxiliary subunits. Together, NATs specifically regulate many cellular functions by influencing protein activities such as their degradation, membrane targeting, and protein-protein interactions. This chapter will describe methods developed for their preparation, and their biochemical and structural characterization. This will include methodologies for expression and purification of recombinant NAT protein, kinetic assays, biochemical and biophysical assays, and strategies for structural studies.


Assuntos
Acetiltransferases N-Terminal/química , Acetiltransferases N-Terminal/metabolismo , Animais , Domínio Catalítico , Linhagem Celular , Clonagem Molecular/métodos , Cristalização/métodos , Cristalografia por Raios X/métodos , Ensaios Enzimáticos/métodos , Escherichia coli/genética , Humanos , Modelos Moleculares , Acetiltransferases N-Terminal/genética , Conformação Proteica , Proteínas Recombinantes/química , Proteínas Recombinantes/genética , Proteínas Recombinantes/metabolismo , Regulação para Cima
16.
Subst Use Misuse ; 54(2): 315-323, 2019.
Artigo em Inglês | MEDLINE | ID: mdl-30380969

RESUMO

OBJECTIVE: This study sought to assess patterns of flavored tobacco product (FTP) use and their associations with (1) susceptibility to smoke cigarettes among young adults aged 18-29 who have never smoked; (2) quit attempts in the past 12 months among current cigarette users by age group (18-29, 30-49, and 50+). METHODS: We used the 2013-2014 National Adult Tobacco Survey (n = 75,233) to estimate the prevalence of single-, dual-, and poly-use of FTP (menthol cigarettes, e-cigarettes, cigars, regular pipes/hookahs, and smokeless). Logistic regression models were performed to examine the associations between FTP use and smoking behaviors. RESULTS: Among current tobacco users, young adults aged 18-29 (72.7%) had a higher prevalence of FTP use than other age groups (30-49: 51.7% and 50+: 37.9%). For FTP use within each age group, dual- and poly-FTP use was most popular among young adults aged 18-29 and menthol cigarette use was most popular among older adults aged 50+. Compared with not using any tobacco products, FTP use was associated with higher odds of susceptibility to cigarette smoking among young adult never smokers (single FTP use: aOR =5.5, CI: 4.2-7.3; dual/poly FTP use: aOR =10.7, CI: 6.2-18.4). FTP use was not associated with quit attempts among current cigarettes users aged under 50, while dual/poly-FTP use was associated with higher odds of quit attempts among current cigarette users aged 50 + (aOR =1.7, CI: 1.2-2.4). CONCLUSIONS: This study shows the heterogeneity of FTP use among adults by age group and demonstrates its associations with susceptibility to cigarette smoking among young adult never smokers.


Assuntos
Aromatizantes , Abandono do Hábito de Fumar/estatística & dados numéricos , Produtos do Tabaco/estatística & dados numéricos , Uso de Tabaco/epidemiologia , Vaping/epidemiologia , Adolescente , Adulto , Fumar Charutos/epidemiologia , Fumar Cigarros/epidemiologia , Feminino , Humanos , Modelos Logísticos , Masculino , Mentol , Pessoa de Meia-Idade , Prevalência , Fatores de Risco , Fumar/epidemiologia , Nicotiana , Tabagismo/epidemiologia , Tabaco para Cachimbos de Água , Estados Unidos/epidemiologia , Fumar Cachimbo de Água/epidemiologia , Adulto Jovem
17.
Am J Hum Genet ; 102(5): 985-994, 2018 05 03.
Artigo em Inglês | MEDLINE | ID: mdl-29656860

RESUMO

N-alpha-acetylation is a common co-translational protein modification that is essential for normal cell function in humans. We previously identified the genetic basis of an X-linked infantile lethal Mendelian disorder involving a c.109T>C (p.Ser37Pro) missense variant in NAA10, which encodes the catalytic subunit of the N-terminal acetyltransferase A (NatA) complex. The auxiliary subunit of the NatA complex, NAA15, is the dimeric binding partner for NAA10. Through a genotype-first approach with whole-exome or genome sequencing (WES/WGS) and targeted sequencing analysis, we identified and phenotypically characterized 38 individuals from 33 unrelated families with 25 different de novo or inherited, dominantly acting likely gene disrupting (LGD) variants in NAA15. Clinical features of affected individuals with LGD variants in NAA15 include variable levels of intellectual disability, delayed speech and motor milestones, and autism spectrum disorder. Additionally, mild craniofacial dysmorphology, congenital cardiac anomalies, and seizures are present in some subjects. RNA analysis in cell lines from two individuals showed degradation of the transcripts with LGD variants, probably as a result of nonsense-mediated decay. Functional assays in yeast confirmed a deleterious effect for two of the LGD variants in NAA15. Further supporting a mechanism of haploinsufficiency, individuals with copy-number variant (CNV) deletions involving NAA15 and surrounding genes can present with mild intellectual disability, mild dysmorphic features, motor delays, and decreased growth. We propose that defects in NatA-mediated N-terminal acetylation (NTA) lead to variable levels of neurodevelopmental disorders in humans, supporting the importance of the NatA complex in normal human development.


Assuntos
Anormalidades Múltiplas/genética , Transtorno do Espectro Autista/genética , Predisposição Genética para Doença , Variação Genética , Deficiência Intelectual/genética , Acetiltransferase N-Terminal A/genética , Acetiltransferase N-Terminal E/genética , Adolescente , Adulto , Linhagem Celular , Criança , Éxons/genética , Feminino , Regulação da Expressão Gênica , Humanos , Masculino , Pessoa de Meia-Idade , Mutação/genética , Acetiltransferase N-Terminal A/metabolismo , Acetiltransferase N-Terminal E/metabolismo , Linhagem , Fenótipo , RNA Mensageiro/genética , RNA Mensageiro/metabolismo , Saccharomyces cerevisiae/metabolismo
18.
J Bioinform Comput Biol ; 16(1): 1840001, 2018 02.
Artigo em Inglês | MEDLINE | ID: mdl-29375012

RESUMO

The discovery of thousands of long noncoding RNAs (lncRNAs) in mammals raises a question about their functionality. It has been shown that some of them are involved in post-transcriptional regulation of other RNAs and form inter-molecular duplexes with their targets. Sequence alignment tools have been used for transcriptome-wide prediction of RNA-RNA interactions. However, such approaches have poor prediction accuracy since they ignore RNA's secondary structure. Application of the thermodynamics-based algorithms to long transcripts is not computationally feasible on a large scale. Here, we describe a new computational pipeline ASSA that combines sequence alignment and thermodynamics-based tools for efficient prediction of RNA-RNA interactions between long transcripts. To measure the hybridization strength, the sum energy of all the putative duplexes is computed. The main novelty implemented in ASSA is the ability to quickly estimate the statistical significance of the observed interaction energies. Most of the functional hybridizations between long RNAs were classified as statistically significant. ASSA outperformed 11 other tools in terms of the Area Under the Curve on two out of four test sets. Additionally, our results emphasized a unique property of the [Formula: see text] repeats with respect to the RNA-RNA interactions in the human transcriptome. ASSA is available at https://sourceforge.net/projects/assa/.


Assuntos
Algoritmos , RNA Longo não Codificante/genética , Alinhamento de Sequência/métodos , Animais , Humanos , Mamíferos/genética , Hibridização de Ácido Nucleico , RNA Antissenso/genética , Alinhamento de Sequência/estatística & dados numéricos , Termodinâmica , Transcriptoma
19.
Artigo em Inglês | MEDLINE | ID: mdl-29341438

RESUMO

Antisense transcription is a widespread phenomenon in mammalian genomes, leading to production of RNAs molecules referred to as natural antisense transcripts (NATs). NATs apply diverse transcriptional and post-transcriptional regulatory mechanisms to carry out a wide variety of biological roles that are important for the normal functioning of living cells, but their dysfunctions can be associated with human diseases. In this review, we attempt to provide a molecular basis for the involvement of NATs in the etiology of human disorders such as cancers and neurodegenerative and cardiovascular diseases. We also discuss the pros and cons of oligonucleotide-based therapies targeted against NATs, and we comment on state-of-the-art progress in this promising area of clinical research. WIREs RNA 2018, 9:e1461. doi: 10.1002/wrna.1461 This article is categorized under: RNA in Disease and Development > RNA in Disease Regulatory RNAs/RNAi/Riboswitches > Regulatory RNAs RNA Interactions with Proteins and Other Molecules > Small Molecule-RNA Interactions.


Assuntos
RNA Antissenso/genética , Animais , Doença/genética , Humanos , Terapia de Alvo Molecular , Transcrição Gênica
20.
Crit Rev Food Sci Nutr ; 58(1): 84-104, 2018 Jan 02.
Artigo em Inglês | MEDLINE | ID: mdl-26745757

RESUMO

The elimination of disease-causing microbes from the food supply is a primary goal and this review deals with the overall techniques available for detection of food-borne pathogens. Now-a-days conventional methods are replaced by advanced methods like Biosensors, Nucleic Acid-based Tests (NAT), and different PCR-based techniques used in molecular biology to identify specific pathogens. Bacillus cereus, Staphylococcus aureus, Proteus vulgaris, Escherichia coli, Campylobacter, Listeria monocytogenes, Salmonella spp., Aspergillus spp., Fusarium spp., Penicillium spp., and pathogens are detected in contaminated food items that cause always diseases in human in any one or the other way. Identification of food-borne pathogens in a short period of time is still a challenge to the scientific field in general and food technology in particular. The low level of food contamination by major pathogens requires specific sensitive detection platforms and the present area of hot research looking forward to new nanomolecular techniques for nanomaterials, make them suitable for the development of assays with high sensitivity, response time, and portability. With the sound of these, we attempt to highlight a comprehensive overview about food-borne pathogen detection by rapid, sensitive, accurate, and cost affordable in situ analytical methods from conventional methods to recent molecular approaches for advanced food and microbiology research.


Assuntos
Microbiologia de Alimentos/métodos , Doenças Transmitidas por Alimentos/microbiologia , Doenças Transmitidas por Alimentos/prevenção & controle , Técnicas Biossensoriais , Custos e Análise de Custo , DNA Bacteriano/análise , Ensaio de Imunoadsorção Enzimática , Microbiologia de Alimentos/economia , Microbiologia de Alimentos/tendências , Humanos , Imunoensaio/métodos , Hibridização in Situ Fluorescente , Nanotecnologia/métodos , Nanotecnologia/tendências , Reação em Cadeia da Polimerase/métodos , Polimorfismo de Fragmento de Restrição , Sensibilidade e Especificidade
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