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1.
Chemosphere ; 352: 141530, 2024 Mar.
Artigo em Inglês | MEDLINE | ID: mdl-38401868

RESUMO

In view of the ongoing climate change and the ever-growing world population, novel agricultural solutions are required to ensure sustainable food supply. Microbials, natural substances, semiochemicals and double stranded RNAs (dsRNAs) are all considered potential low risk pesticides. DsRNAs function at the molecular level, targeting specific regions of specific genes of specific organisms, provided that they share a minimal sequence complementarity of approximately 20 nucleotides. Thus, dsRNAs may offer a great alternative to conventional chemicals in environmentally friendly pest control strategies. Any low-risk pesticide needs to be efficient and exhibit low toxicological potential and low environmental persistence. Having said that, in the current review, the mode of dsRNA action is explored and the parameters that need to be taken into consideration for the development of efficient dsRNA-based pesticides are highlighted. Moreover, since dsRNAs mode of action differs from those of synthetic pesticides, custom-made risk assessment schemes may be required and thus, critical issues related to the risk assessment of dsRNA pesticides are discussed here.


Assuntos
Praguicidas , Praguicidas/toxicidade , Interferência de RNA , RNA de Cadeia Dupla/genética , Controle de Pragas , Medição de Risco
2.
Mol Ther ; 32(3): 637-645, 2024 Mar 06.
Artigo em Inglês | MEDLINE | ID: mdl-38204163

RESUMO

N-Acetylgalactosamine (GalNAc)-conjugated small interfering RNA (siRNA) therapies have received approval for treating both orphan and prevalent diseases. To improve in vivo efficacy and streamline the chemical synthesis process for efficient and cost-effective manufacturing, we conducted this study to identify better designs of GalNAc-siRNA conjugates for therapeutic development. Here, we present data on redesigned GalNAc-based ligands conjugated with siRNAs against angiopoietin-like 3 (ANGPTL3) and lipoprotein (a) (Lp(a)), two target molecules with the potential to address large unmet medical needs in atherosclerotic cardiovascular diseases. By attaching a novel pyran-derived scaffold to serial monovalent GalNAc units before solid-phase oligonucleotide synthesis, we achieved increased GalNAc-siRNA production efficiency with fewer synthesis steps compared to the standard triantennary GalNAc construct L96. The improved GalNAc-siRNA conjugates demonstrated equivalent or superior in vivo efficacy compared to triantennary GalNAc-conjugated siRNAs.


Assuntos
Doenças Cardiovasculares , Hepatócitos , Humanos , RNA Interferente Pequeno/genética , RNA Interferente Pequeno/química , Análise Custo-Benefício , RNA de Cadeia Dupla , Acetilgalactosamina/química , Proteína 3 Semelhante a Angiopoietina
3.
Methods Mol Biol ; 2771: 73-81, 2024.
Artigo em Inglês | MEDLINE | ID: mdl-38285393

RESUMO

Since the discovery of the RNA interference (RNAi) mechanism, it has been widely used in the fields of gene function, biomedicine, and crop pest control. In the direction of agricultural application, this technology is highly expected, especially in the field of pest control, which is called "the third revolution in the history of pesticides". Currently, RNA biopesticides are developing rapidly all over the world. A genetically modified product (MON87411) has been approved for marketing, and a large number of agricultural companies are developing products based on direct spraying RNA biopesticides and submitting them for regulatory approval. The biggest problem that has emerged for spray RNA biopesticides is the technology for large-scale and low-cost production of dsRNA. At present, the bacterial fermentation production technology can realize large-scale dsRNA production with a yield of 4.23~182 mg/L bacterial solution. This article describes the experimental protocol for dsRNA production technology based on bacterial fermentation.


Assuntos
Agentes de Controle Biológico , RNA de Cadeia Dupla , Animais , Interferência de RNA , RNA de Cadeia Dupla/genética , Análise Custo-Benefício , Bactérias , Insetos , Controle de Pragas
4.
Int J Mol Sci ; 24(11)2023 May 25.
Artigo em Inglês | MEDLINE | ID: mdl-37298215

RESUMO

Double-stranded RNA (dsRNA) can trigger RNA interference (RNAi) and lead to directed silencing of specific genes. This natural defense mechanism and RNA-based products have been explored for their potential as a sustainable and ecofriendly alternative for pest control of species of agricultural importance and disease vectors. Yet, further research, development of new products and possible applications require a cost-efficient production of dsRNA. In vivo transcription of dsRNA in bacterial cells has been widely used as a versatile and inducible system for production of dsRNA combined with a purification step required to extract the dsRNA. Here, we optimized an acidic phenol-based protocol for extraction of bacterially produced dsRNA at low cost and good yield. In this protocol, bacterial cells are efficiently lysed, with no viable bacterial cells present in the downstream steps of the purification. Furthermore, we performed a comparative dsRNA quality and yield assessment of our optimized protocol and other protocols available in the literature and confirmed the cost-efficiency of our optimized protocol by comparing the cost of extraction and yields of each extraction method.


Assuntos
Controle de Pragas , RNA de Cadeia Dupla , RNA de Cadeia Dupla/genética , Interferência de RNA , Agricultura
5.
J Econ Entomol ; 116(4): 1352-1359, 2023 08 10.
Artigo em Inglês | MEDLINE | ID: mdl-37262318

RESUMO

The Colorado potato beetle, Leptinotarsa decemlineata (Say) ([Coleoptera]: [Chrysomelidae]), is the most important defoliator of solanaceous plants worldwide. This insect displays a notorious ability in adapting to biological and synthetic insecticides, although in some cases this adaptation carries relevant fitness costs. Insecticidal gene silencing by RNA interference is a novel mode of action pesticide against L. decemlineata that is activated by ingestion of a double stranded RNA (dsRNA) targeting a vital L. decemlineata gene. We previously reported laboratory selection of a > 11,000-fold resistant strain of L. decemlineata to a dsRNA delivered topically to potato leaves. In this work, we tested the existence of fitness costs in this dsRNA-resistant colony by comparing biological parameters to the parental strain and an additional susceptible reference strain. Biological parameters included length of egg incubation period, number of eggs per clutch, egg viability, larval viability, length of larval and pupal periods, adult emergence, number of eggs laid per day, sex ratio, and adult longevity. Comparisons between the 3 beetle strains detected no fitness costs associated with resistance to dsRNA. This information is important to guide effective insect resistance management plans for dsRNA insecticides against L. decemlineata applied topically to potato leaves.


Assuntos
Besouros , Inseticidas , Solanum tuberosum , Animais , Inseticidas/farmacologia , RNA de Cadeia Dupla/genética , Larva , Interferência de RNA , Solanum tuberosum/genética
6.
Pest Manag Sci ; 78(11): 4956-4962, 2022 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-36181420

RESUMO

BACKGROUND: RNA interference (RNAi) has potential application in pest control, and selection of the specific target gene is one of the key steps in RNAi. As an important effector, the zinc finger protein (ZFP) gene has high similarity among aphid species, and may have potential use in an RNAi-based pest control strategy. This study assessed the control efficiency of an RNAi target, MPZC3H10, a CCCH-type ZFP gene, against green peach aphid. RESULTS: ZC3H10 amino acid sequence similarity is more than 97.71% among the five tested aphid species: Myzus persicae, Aphis citricidus, Acyrthosiphon pisum, Diuraphis noxia and Rhopalosiphum maidis. However, no homologous sequence was found in the transcriptome of their ladybeetle predator, Propylaea japonica. Spatial expression patterns revealed that MPZC3H10 showed high expression in the muscle and fat body of M. persicae. The RNAi bioassay revealed that silencing of MPZC3H10 resulted in high mortality (53.33%) in M. persicae. By contrast, there were no observed negative effects on the growth and development of P. japonica when fed on aphids treated with double-stranded RNA (dsRNA) or injected with a "high dose" of dsRNA. CONCLUSION: Targeting MPZC3H10 showed promising efficiency for green peach aphid control via artificially designed dsRNA, and was safe for the predatory ladybeetle. © 2022 Society of Chemical Industry.


Assuntos
Afídeos , Besouros , Animais , Afídeos/fisiologia , Besouros/genética , Interferência de RNA , RNA de Cadeia Dupla/genética , Dedos de Zinco
7.
Parasit Vectors ; 15(1): 252, 2022 Jul 11.
Artigo em Inglês | MEDLINE | ID: mdl-35818078

RESUMO

BACKGROUND: Rhipicephalus microplus is the vector of deadly cattle pathogens, especially Babesia spp., for which a recombinant vaccine is not available. Therefore, disease control depends on tick vector control. However, R. microplus populations worldwide have developed resistance to available acaricides, prompting the search for novel acaricide targets. G protein-coupled receptors (GPCRs) are involved in the regulation of many physiological processes and have been suggested as druggable targets for the control of arthropod vectors. Arthropod-specific signaling systems of small neuropeptides are being investigated for this purpose. The pyrokinin receptor (PKR) is a GPCR previously characterized in ticks. Myotropic activity of pyrokinins in feeding-related tissues of Rhipicephalus sanguineus and Ixodes scapularis was recently reported. METHODS: The R. microplus pyrokinin receptor (Rhimi-PKR) was silenced through RNA interference (RNAi) in female ticks. To optimize RNAi, a dual-luciferase assay was applied to determine the silencing efficiency of two Rhimi-PKR double-stranded RNAs (dsRNA) prior to injecting dsRNA in ticks to be placed on cattle. Phenotypic variables of female ticks obtained at the endpoint of the RNAi experiment were compared to those of control female ticks (non-injected and beta-lactamase dsRNA-injected). Rhimi-PKR silencing was verified by quantitative reverse-transcriptase PCR in whole females and dissected tissues. RESULTS: The Rhimi-PKR transcript was expressed in all developmental stages. Rhimi-PKR silencing was confirmed in whole ticks 4 days after injection, and in the tick carcass, ovary and synganglion 6 days after injection. Rhimi-PKR silencing was associated with an increased mortality and decreased weight of both surviving females and egg masses (P < 0.05). Delays in repletion, pre-oviposition and incubation periods were observed (P < 0.05). CONCLUSIONS: Rhimi-PKR silencing negatively affected female reproductive fitness. The PKR appears to be directly or indirectly associated with the regulation of female feeding and/or reproductive output in R. microplus. Antagonists of the pyrokinin signaling system could be explored for tick control.


Assuntos
Acaricidas , Doenças dos Bovinos , Neuropeptídeos , Rhipicephalus , Infestações por Carrapato , Acaricidas/farmacologia , Animais , Bovinos , Feminino , Aptidão Genética , RNA de Cadeia Dupla , Rhipicephalus/fisiologia , Infestações por Carrapato/veterinária
8.
GM Crops Food ; 12(1): 459-478, 2021 Jan 02.
Artigo em Inglês | MEDLINE | ID: mdl-34904520

RESUMO

Event DP-Ø23211-2 (hereafter referred to as DP23211) maize expresses the DvSSJ1 double-stranded RNA (DvSSJ1 dsRNA) and the IPD072Aa protein, encoded by the ipd072Aa gene. DvSSJ1 dsRNA and the IPD072Aa protein each provide control of corn rootworms (Diabrotica spp.) when expressed in plants. As part of the environmental risk assessment (ERA), the potential hazard to non-target organisms (NTOs) exposed to the DvSSJ1 dsRNA and the IPD072Aa protein expressed in DP23211 maize was assessed. Worst-case estimated environmental concentrations (EECs) for different NTO functional groups (pollinators and pollen feeders, soil dwelling detritivores, predators and parasitoids, aquatic detritivores, insectivorous birds, and wild mammals) were calculated using worst-case assumptions. Several factors that reduce exposure to NTOs under more realistic environmental conditions were applied, when needed to provide more environmentally relevant EECs. Laboratory bioassays were conducted to assess the activity of DvSSJ1 dsRNA or the IPD072Aa protein against selected surrogate species, and margins of exposure (MOEs) were calculated by comparing the Tier I hazard study results to worst-case or refined EECs. Based on specificity and MOE values, DvSSJ1 dsRNA and the IPD072Aa protein expressed in DP23211 maize are not expected to be harmful to NTO populations at environmentally relevant concentrations.


Assuntos
Besouros , RNA de Cadeia Dupla , Animais , Besouros/genética , Plantas Geneticamente Modificadas/genética , RNA de Cadeia Dupla/genética , Medição de Risco , Zea mays/genética
9.
Pestic Biochem Physiol ; 178: 104909, 2021 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-34446185

RESUMO

RNA interference has been proved as an efficient technology for pest control through the silencing of essential genes of targeted insects. We had previously shown that the expression of double-stranded RNAs (dsRNAs) in plastids of plants offers a great potential for efficiently controlling Colorado potato beetle (CPB, Leptinotarsa decemlineata) (Coleoptera, Chrysomelidae). However, whether these transplastomic plants have an impact on other non-target pests was not investigated. In this study, we evaluated the potential effects of transplastomic plants expression dsRNAs target CPB ß-Actin (referred to as ACT plants) on three other potato pests: Myzus persicae (Hemiptera, Aphididae), Henosepilachna vigintioctopunctata (Coleoptera, Coccinellidae), and Spodoptera litura (Lepidoptera, Noctuidae). Although no effects on M. persicae or S. litura were observed by feeding ACT plants, we found that feeding H. vigintioctopunctata with ACT plants can result in its growth retardation and suppressing the gene expression of HvACT, which has 91.7% identity to CPB ß-Actin and shared 66 potential 21-mer matches. Taking together, these results indicated that ACT plants had cross-resistance to H. vigintioctopunctata, another coleopteran insect with the highly conserved nucleotide sequence of ß-Actin gene. It also provided an opportunity to simultaneously control L. decemlineata and H. vigintioctopunctata by RNAi induced by intermediate dsRNAs with optimized sequences.


Assuntos
Besouros , Solanum tuberosum , Actinas/genética , Animais , Besouros/genética , Interferência de RNA , RNA de Cadeia Dupla/genética , Solanum tuberosum/genética
10.
J Chromatogr A ; 1651: 462283, 2021 Aug 16.
Artigo em Inglês | MEDLINE | ID: mdl-34107400

RESUMO

The number of RNA-based therapeutics has significantly grown in number on the market over the last 20 years. This number is expected to further increase in the coming years as many RNA therapeutics are being tested in late clinical trials stages. The first part of this paper considers the mechanism of action, the synthesis and the potential impurities resulting from synthesis as well as the strategies used to increase RNA-based therapeutics efficacy. In the second part of this review, the tests that are usually performed in the pharmaceutical industry for the quality testing of antisense oligonucleotides (ASOs), small-interfering RNAs (siRNAs) and messenger RNAs (mRNAs) will be described. In the last part, the remaining challenges and the ongoing developments to meet them are discussed.


Assuntos
Química Analítica , Indústria Farmacêutica , RNA de Cadeia Dupla/normas , RNA de Cadeia Dupla/uso terapêutico , Ensaios Clínicos como Assunto , Guias como Assunto , Humanos , Controle de Qualidade , RNA de Cadeia Dupla/química
11.
Front Endocrinol (Lausanne) ; 12: 594001, 2021.
Artigo em Inglês | MEDLINE | ID: mdl-33737908

RESUMO

Vitellogenesis-inhibiting hormone (VIH) negatively regulates reproduction in shrimp and other decapod crustaceans. In order to assess the effects of transcriptional silencing by multiple VIH subtype I sinus gland peptides (SGPs) on ovarian maturation in female whiteleg shrimp, Litopenaeus vannamei, we synthesized five dsRNAs targeting Liv-SGP-A, -B, -C, -F, and -G and injected them into subadults. The following treatments were employed: sgpG-dsRNA (targeting Liv-SGP-G), sgpC-dsRNA (targeting Liv-SGP-C), and mixed-dsRNA (targeting Liv-SGP-A, -B, and -F). The expression of Liv-SGP-G in eyestalks was significantly decreased at 10, 20, and 30 days after the injection of sgpG-dsRNA In addition, it was significantly decreased at 10 and 30 days after the injection of mixed-dsRNA. The expression of vitellogenin (Vg) gene expression in the ovaries, and concentrations of Vg protein in the hemolymph, were not changed by the administration of any dsRNA treatment (the ovaries remained immature in all treated individuals and contained mostly oogonia and previtellogenic oocytes). Although the administration of dsRNAs corresponding to multiple VIHs did not promote ovarian maturation, this is the first report of the co-transcriptional repression of Liv-SGP-G by the injection of dsRNA for homologous genes (Liv-SGP-A, -B, and -F). These results indicate that subadults can respond to the techniques of transcriptional silencing.


Assuntos
Hormônios de Invertebrado/genética , Penaeidae/genética , Peptídeos/metabolismo , RNA de Cadeia Dupla/genética , Animais , Feminino , Hemolinfa/metabolismo , Hormônios de Invertebrado/metabolismo , Penaeidae/metabolismo , Peptídeos/genética , RNA de Cadeia Dupla/metabolismo , Vitelogênese , Vitelogeninas/genética , Vitelogeninas/metabolismo
12.
Dev Comp Immunol ; 114: 103824, 2021 01.
Artigo em Inglês | MEDLINE | ID: mdl-32791174

RESUMO

Argonaute family is phylogenetically subdivided into Ago and Piwi subfamilies that operate either transcriptional or post-transcriptional regulation in association with particular types of small RNAs. Among the four members of Ago subfamily (PmAgo1-4) found in black tiger shrimp Penaeus monodon, PmAgo4 exhibits gonad-restricted expression and takes part in transposon repression as the Piwi subfamily. While PmAgo1-3 participate in RNA interference (RNAi)-based mechanism, the role of PmAgo4 in RNAi is still mysterious, and was therefore investigated in this study. The results showed that knockdown of PmAgo4 in shrimp testis did not have a significant effect on the potency of PmRab7 silencing by dsPmRab7. In addition, replication of YHV as well as YHV-induced cumulative mortality in PmAgo4-knockdown shrimp are comparable to the control shrimp, suggesting the irrelevant association of PmAgo4 with RNAi-mediated gene silencing and antiviral immunity. Since PmAgo4 did not function in common with the Ago subfamily, its potential function in gametogenesis of male shrimp was further investigated. The reduction of PmAgo4 transcript levels in male shrimp revealed significant defect in testicular maturity as measured by Testicular Index (TI). Moreover, the numbers of mature sperm in spermatophore of PmAgo4-knockdown shrimp were significantly decreased comparing with the control shrimp. Our studies thus suggest a distinctive role of PmAgo4 that is not consistent with a dsRNA-mediate gene regulation and virus replication, but has a key function in controlling spermatogenesis in P. monodon.


Assuntos
Proteínas Argonautas/genética , Infecções por Nidovirales/imunologia , Penaeidae/fisiologia , Roniviridae/fisiologia , Testículo/metabolismo , Animais , Antivirais/metabolismo , Proteínas Argonautas/metabolismo , Regulação da Expressão Gênica , Técnicas de Silenciamento de Genes , Masculino , Especificidade de Órgãos , Interferência de RNA , RNA de Cadeia Dupla , Espermatogênese , Replicação Viral
13.
J Econ Entomol ; 112(3): 1354-1364, 2019 05 22.
Artigo em Inglês | MEDLINE | ID: mdl-30753514

RESUMO

The southern corn rootworm, Diabrotica undecimpunctata howardi Barber (Coleoptera: Chrysomelidae), was exposed over multiple generations to vacuolar (v)ATPase-A double-stranded (ds)RNA, first as adults and later, as neonate larvae. During adult selection, high mortality and lower fecundity were observed in the RNAi-selected cages after beetles were exposed to sublethal dsRNA concentrations that varied between LC40 and LC75. During larval selection, a delay in adult emergence and effects on population growth parameters were observed after neonates were exposed to sublethal dsRNA concentrations that varied between LC50 and LC70. Some of the parameters measured for adult emergence such as time to reach maximum linear adult emergence, time elapsed before attaining linear emergence, termination point of the linear emergence, and total days of linear emergence increase, were significantly different between RNAi-selected and control colonies for at least one generation. Significant differences were also observed in population growth parameters such as growth rate, net reproductive rate, doubling time, and generation time. After seven generations of selection, there was no indication that resistance evolved. The sublethal effects caused by exposures of southern corn rootworm to dsRNAs can affect important life history traits and fitness especially through delays in adult emergence and reduction in population growth. Although changes in susceptibility did not occur, the observation of sublethal effects suggests important responses to potential selection pressure. Assuming resistance involves a recessive trait, random mating between susceptible and resistant individuals is an important factor that allows sustainable use of transgenic plants, and delays in adult emergence observed in our studies could potentially compromise this assumption.


Assuntos
Besouros , ATPases Vacuolares Próton-Translocadoras , Animais , Endotoxinas , Larva , Plantas Geneticamente Modificadas , Crescimento Demográfico , RNA de Cadeia Dupla , Zea mays
14.
Cell Host Microbe ; 25(2): 336-343.e4, 2019 02 13.
Artigo em Inglês | MEDLINE | ID: mdl-30713099

RESUMO

Immune responses counteract infections but also cause collateral damage to hosts. Oligoadenylate synthetase 1 (OAS1) binds double-stranded RNA from invading viruses and produces 2'-5' linked oligoadenylate (2-5A) to activate ribonuclease L (RNase L), which cleaves RNA to inhibit virus replication. OAS1 can also undergo autoactivation by host RNAs, a potential trade-off to antiviral activity. We investigated functional variation in primate OAS1 as a model for how immune pathways evolve to mitigate costs and observed a surprising frequency of loss-of-function variation. In gorillas, we identified a polymorphism that severely decreases catalytic function, mirroring a common variant in humans that impairs 2-5A synthesis through alternative splicing. OAS1 loss-of-function variation is also common in monkeys, including complete loss of 2-5A synthesis in tamarins. The frequency of loss-of-function alleles suggests that costs associated with OAS1 activation can be so detrimental to host fitness that pathogen-protective effects are repeatedly forfeited.


Assuntos
2',5'-Oligoadenilato Sintetase/genética , 2',5'-Oligoadenilato Sintetase/farmacologia , Antivirais/farmacologia , Mutação , Primatas/imunologia , 2',5'-Oligoadenilato Sintetase/metabolismo , Nucleotídeos de Adenina/metabolismo , Sequência de Aminoácidos , Animais , Endorribonucleases/metabolismo , Evolução Molecular , Variação Genética , Haplorrinos , Humanos , Modelos Moleculares , Oligorribonucleotídeos/metabolismo , Conformação Proteica , RNA de Cadeia Dupla/metabolismo , Análise de Sequência de Proteína , Replicação Viral/efeitos dos fármacos , Vírus/efeitos dos fármacos
15.
Int J Parasitol ; 49(3-4): 287-299, 2019 03.
Artigo em Inglês | MEDLINE | ID: mdl-30673587

RESUMO

The cattle fever tick, Rhipicephalus microplus (Canestrini) (Acari: Ixodidae), is a one-host tick that infests primarily cattle in tropical and sub-tropical regions of the world. This species transmits deadly cattle pathogens, especially Babesia spp., for which a recombinant vaccine is not available. Therefore, disease control depends on tick vector control. Although R. microplus was eradicated in the USA, tick populations in Mexico and South America have acquired resistance to many of the applied acaricides. Recent acaricide-resistant tick reintroductions detected in the U.S. underscore the need for novel tick control methods. The octopamine and tyramine/octopamine receptors, both G protein-coupled receptors (GPCR), are believed to be the main molecular targets of the acaricide amitraz. This provides the proof of principle that investigating tick GPCRs, especially those that are invertebrate-specific, may be a feasible strategy for discovering novel targets and subsequently new anti-tick compounds. The R. microplus leucokinin-like peptide receptor (LKR), also known as the myokinin- or kinin receptor, is such a GPCR. While the receptor was previously characterized in vitro, the function of the leucokinin signaling system in ticks remains unknown. In this work, the LKR was immunolocalized to the periphery of the female midgut and silenced through RNA interference (RNAi) in females. To optimize RNAi experiments, a dual-luciferase system was developed to determine the silencing efficiency of LKR-double stranded RNA (dsRNA) constructs prior to testing those in ticks placed on cattle. This assay identified two effective dsRNAs. Silencing of the LKR with these two validated dsRNA constructs was verified by quantitative real time PCR (qRT-PCR) of female tick dissected tissues. Silencing was significant in midguts and carcasses. Silencing caused decreases in weights of egg masses and in the percentages of eggs hatched per egg mass, as well as delays in time to oviposition and egg hatching. A role of the kinin receptor in tick reproduction is apparent.


Assuntos
Proteínas de Artrópodes/análise , Proteínas de Artrópodes/metabolismo , Trato Gastrointestinal/química , Aptidão Genética , Receptores de Neuropeptídeos/análise , Receptores de Neuropeptídeos/metabolismo , Rhipicephalus/química , Rhipicephalus/fisiologia , Animais , Proteínas de Artrópodes/antagonistas & inibidores , Proteínas de Artrópodes/genética , Feminino , Inativação Gênica , RNA de Cadeia Dupla/genética , RNA de Cadeia Dupla/metabolismo , RNA Interferente Pequeno/genética , RNA Interferente Pequeno/metabolismo , Receptores de Neuropeptídeos/antagonistas & inibidores , Receptores de Neuropeptídeos/genética
16.
Phys Chem Chem Phys ; 20(45): 28920-28928, 2018 Nov 21.
Artigo em Inglês | MEDLINE | ID: mdl-30422138

RESUMO

In spite of the striking difference between twist-stretch coupling of dsRNA and dsDNA under external force, dsRNA shows similar structural polymorphism to dsDNA under different pulling protocols. Our atomistic MD simulations show that overstretching dsRNA along the 3' direction of the opposite strands (OS3) leads to the emergence of S-RNA whereas overstretching along the 5' directions of the opposite strands (OS5) leads to melting of dsRNA at lower forces. Using the dsRNA morphology from pulling MD simulations, we use a multiscale method involving ab initio calculations and Kinetic Monte Carlo (KMC) simulations to estimate the conductance of dsRNA and find that the conformational changes drastically affect its conductance. The current through dsRNA chains drastically drops after a critical stretching length and critically depends on the pulling protocol. The critical stretching length for the OS3 pulling case is around 65% higher than that of the OS5 case.


Assuntos
DNA/química , RNA de Cadeia Dupla/química , Pareamento de Bases , Técnicas Eletroquímicas/métodos , Eletrodos , Ligação de Hidrogênio , Fenômenos Mecânicos , Simulação de Dinâmica Molecular , Método de Monte Carlo , Conformação de Ácido Nucleico
17.
Pestic Biochem Physiol ; 148: 103-110, 2018 Jun.
Artigo em Inglês | MEDLINE | ID: mdl-29891360

RESUMO

The use of transgenic crops that induce silencing of essential genes using double-stranded RNA (dsRNA) through RNA interference (RNAi) in western corn rootworm, Diabrotica virgifera virgifera, is likely to be an important component of new technologies for the control of this important corn pest. Previous studies have demonstrated that the dsRNA response in D. v. virgifera depends on the presence of RNAi pathway genes including Dicer-2 and Argonaute 2, and that downregulation of these genes limits the lethality of environmental dsRNA. A potential resistance mechanism to lethal dsRNA may involve loss of function of RNAi pathway genes. Howver, the potential for resistance to evolve may depend on whether these pathway genes have essential functions such that the loss of function of core proteins in the RNAi pathway will have fitness costs in D. v. virgifera. Fitness costs associated with potential resistance mechanisms have a central role in determining how resistance can evolve to RNAi technologies in western corn rootworm. We evaluated the effect of dsRNA and microRNA pathway gene knockdown on the development of D. v. virgifera larvae through short-term and long-term exposures to dsRNA for Dicer and Argonaute genes. Downregulation of Argonaute 2, Dicer-2, Dicer-1 did not significantly affect larval survivorship or development through short and long-term exposure to dsRNA. However, downregulation of Argonaute 1 reduced larval survivorship and delayed development. The implications of these results as they relate to D. v. virgifera resistance to lethal dsRNA are discussed.


Assuntos
Proteínas Argonautas/genética , Besouros/genética , Técnicas de Silenciamento de Genes , Genes de Insetos , RNA Helicases/genética , Interferência de RNA , RNA de Cadeia Dupla/genética , Ribonuclease III/genética , Animais , Besouros/crescimento & desenvolvimento , Besouros/fisiologia , Produtos Agrícolas/genética , Produtos Agrícolas/parasitologia , Regulação para Baixo , Larva/genética , Larva/crescimento & desenvolvimento , MicroRNAs/genética , Plantas Geneticamente Modificadas/genética , Plantas Geneticamente Modificadas/parasitologia
18.
J Chem Theory Comput ; 13(12): 6328-6342, 2017 Dec 12.
Artigo em Inglês | MEDLINE | ID: mdl-29059525

RESUMO

We present an algorithm to calculate free energies and rates from molecular simulations on biased potential energy surfaces. As input, it uses the accumulated times spent in each state or bin of a histogram and counts of transitions between them. Optimal unbiased equilibrium free energies for each of the states/bins are then obtained by maximizing the likelihood of a master equation (i.e., first-order kinetic rate model). The resulting free energies also determine the optimal rate coefficients for transitions between the states or bins on the biased potentials. Unbiased rates can be estimated, e.g., by imposing a linear free energy condition in the likelihood maximization. The resulting "dynamic histogram analysis method extended to detailed balance" (DHAMed) builds on the DHAM method. It is also closely related to the transition-based reweighting analysis method (TRAM) and the discrete TRAM (dTRAM). However, in the continuous-time formulation of DHAMed, the detailed balance constraints are more easily accounted for, resulting in compact expressions amenable to efficient numerical treatment. DHAMed produces accurate free energies in cases where the common weighted-histogram analysis method (WHAM) for umbrella sampling fails because of slow dynamics within the windows. Even in the limit of completely uncorrelated data, where WHAM is optimal in the maximum-likelihood sense, DHAMed results are nearly indistinguishable. We illustrate DHAMed with applications to ion channel conduction, RNA duplex formation, α-helix folding, and rate calculations from accelerated molecular dynamics. DHAMed can also be used to construct Markov state models from biased or replica-exchange molecular dynamics simulations. By using binless WHAM formulated as a numerical minimization problem, the bias factors for the individual states can be determined efficiently in a preprocessing step and, if needed, optimized globally afterward.


Assuntos
Simulação de Dinâmica Molecular , Algoritmos , Ligação de Hidrogênio , Canais Iônicos/química , Canais Iônicos/metabolismo , Cadeias de Markov , Peptídeos/química , Estrutura Secundária de Proteína , RNA de Cadeia Dupla/química , RNA de Cadeia Dupla/metabolismo , Termodinâmica
19.
Int J Mol Sci ; 18(1)2017 Jan 03.
Artigo em Inglês | MEDLINE | ID: mdl-28054949

RESUMO

RNA interference (RNAi) is an effective tool to study gene function. For in vitro studies of RNAi in insects, microinjection of double-stranded (ds)RNA may cause stress. Non-persuasive oral delivery of dsRNA to trigger RNAi is a better mode of delivery for delicate insects such as aphids because it mimics natural feeding. However, when insects feed ad libitum, some individuals may not feed. For accurate measurement of gene knockdown, analysis should only include insects that have ingested dsRNA. The suitability of eleven dyes was assessed to trace ingestion of dsRNA in an artificial feeding system for green peach aphids (GPA, Myzus persicae). Non-toxic levels of neutral red and acridine orange were suitable tracers: they were visible in the stylet and gut after feeding for 24 h, and may also attract aphids to feed. Nymphs stained with neutral red (0.02%) were analysed for target gene expression after feeding on sucrose with dsRNA (V-ATPase, vha-8). There was a greater reduction in vha-8 expression and reproduction compared to nymphs fed the diet without dye. The results confirm the importance of identifying aphids that have ingested dsRNA, and also provide evidence that the vha-8 gene is a potential target for control of GPAs.


Assuntos
Afídeos/genética , Corantes/análise , Genes de Insetos , Interferência de RNA , RNA de Cadeia Dupla/administração & dosagem , RNA de Cadeia Dupla/análise , Laranja de Acridina/análise , Ração Animal/análise , Animais , Técnicas de Silenciamento de Genes , Vermelho Neutro/análise , RNA de Cadeia Dupla/genética , Nicotiana/parasitologia
20.
Regul Toxicol Pharmacol ; 81: 77-88, 2016 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-27494948

RESUMO

MON 87411 maize, which expresses DvSnf7 RNA, was developed to provide an additional mode of action to confer protection against corn rootworm (Diabrotica spp.). A critical step in the registration of a genetically engineered crop with an insecticidal trait is performing an ecological risk assessment to evaluate the potential for adverse ecological effects. For MON 87411, an assessment plan was developed that met specific protection goals by characterizing the routes and levels of exposure, and testing representative functional taxa that would be directly or indirectly exposed in the environment. The potential for toxicity of DvSnf7 RNA was evaluated with a harmonized battery of non-target organisms (NTOs) that included invertebrate predators, parasitoids, pollinators, soil biota as well as aquatic and terrestrial vertebrate species. Laboratory tests evaluated ecologically relevant endpoints such as survival, growth, development, and reproduction and were of sufficient duration to assess the potential for adverse effects. No adverse effects were observed with any species tested at, or above, the maximum expected environmental concentration (MEEC). All margins of exposure for NTOs were >10-fold the MEEC. Therefore, it is reasonable to conclude that exposure to DvSnf7 RNA, both directly and indirectly, is safe for NTOs at the expected field exposure levels.


Assuntos
Besouros/genética , Produtos Agrícolas/toxicidade , Inocuidade dos Alimentos , Alimentos Geneticamente Modificados/toxicidade , Controle Biológico de Vetores/métodos , Plantas Geneticamente Modificadas/toxicidade , RNA de Cadeia Dupla/toxicidade , Testes de Toxicidade/métodos , Zea mays/toxicidade , Animais , Besouros/patogenicidade , Biologia Computacional , Simulação por Computador , Produtos Agrícolas/genética , Produtos Agrícolas/parasitologia , Bases de Dados Genéticas , Exposição Ambiental , Alimentos Geneticamente Modificados/parasitologia , Regulação da Expressão Gênica de Plantas , Interações Hospedeiro-Patógeno , Humanos , Nível de Efeito Adverso não Observado , Plantas Geneticamente Modificadas/genética , Plantas Geneticamente Modificadas/parasitologia , Interferência de RNA , RNA de Cadeia Dupla/genética , Medição de Risco , Especificidade da Espécie , Fatores de Tempo , Zea mays/genética , Zea mays/parasitologia
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