Evolution of Susceptibility to Ingested Double-Stranded RNAs in Caenorhabditis Nematodes

International audienceBACKGROUND: The nematode Caenorhabditis elegans is able to take up external double-stranded RNAs (dsRNAs) and mount an RNA interference response, leading to the inactivation of specific gene expression. The uptake of ingested dsRNAs into intestinal cells has been shown to require the SID-2 transmembrane protein in C. elegans. By contrast, C. briggsae was shown to be naturally insensitive to ingested dsRNAs, yet could be rendered sensitive by transgenesis with the C. elegans sid-2 gene. Here we aimed to elucidate the evolution of the susceptibility to external RNAi in the Caenorhabditis genus. PRINCIPAL FINDINGS: We study the sensitivity of many new species of Caenorhabditis to ingested dsRNAs matching a conserved actin gene sequence from the nematode Oscheius tipulae. We find ample variation in the Caenorhabditis genus in the ability to mount an RNAi response. We map this sensitivity onto a phylogenetic tree, and show that sensitivity or insensitivity have evolved convergently several times. We uncover several evolutionary losses in sensitivity, which may have occurred through distinct mechanisms. We could render C. remanei and C. briggsae sensitive to ingested dsRNAs by transgenesis of the Cel-sid-2 gene. We thus provide tools for RNA interference studies in these species. We also show that transgenesis by injection is possible in many Caenorhabditis species. CONCLUSIONS: The ability of animals to take up dsRNAs or to respond to them by gene inactivation is under rapid evolution in the Caenorhabditis genus. This study provides a framework and tools to use RNA interference and transgenesis in various Caenorhabditis species for further comparative and evolutionary studies

Muscle wasting and the temporal gene expression pattern in a novel rat intensive care unit model

<p>Abstract</p> <p>Background</p> <p>Acute quadriplegic myopathy (AQM) or critical illness myopathy (CIM) is frequently observed in intensive care unit (ICU) patients. To elucidate duration-dependent effects of the ICU intervention on molecular and functional networks that control the muscle wasting and weakness associated with AQM, a gene expression profile was analyzed at time points varying from 6 hours to 14 days in a unique experimental rat model mimicking ICU conditions, i.e., post-synaptically paralyzed, mechanically ventilated and extensively monitored animals.</p> <p>Results</p> <p>During the observation period, 1583 genes were significantly up- or down-regulated by factors of two or greater. A significant temporal gene expression pattern was constructed at short (6 h-4 days), intermediate (5-8 days) and long (9-14 days) durations. A striking early and maintained up-regulation (6 h-14d) of muscle atrogenes (muscle ring-finger 1/tripartite motif-containing 63 and F-box protein 32/atrogin-1) was observed, followed by an up-regulation of the proteolytic systems at intermediate and long durations (5-14d). Oxidative stress response genes and genes that take part in amino acid catabolism, cell cycle arrest, apoptosis, muscle development, and protein synthesis together with myogenic factors were significantly up-regulated from 5 to 14 days. At 9-14 d, genes involved in immune response and the caspase cascade were up-regulated. At 5-14d, genes related to contractile (myosin heavy chain and myosin binding protein C), regulatory (troponin, tropomyosin), developmental, caveolin-3, extracellular matrix, glycolysis/gluconeogenesis, cytoskeleton/sarcomere regulation and mitochondrial proteins were down-regulated. An activation of genes related to muscle growth and new muscle fiber formation (increase of myogenic factors and JunB and down-regulation of myostatin) and up-regulation of genes that code protein synthesis and translation factors were found from 5 to 14 days.</p> <p>Conclusions</p> <p>Novel temporal patterns of gene expression have been uncovered, suggesting a unique, coordinated and highly complex mechanism underlying the muscle wasting associated with AQM in ICU patients and providing new target genes and avenues for intervention studies.</p

C. elegans Germ Cells Show Temperature and Age-Dependent Expression of Cer1, a Gypsy/Ty3-Related Retrotransposon

Virus-like particles (VLPs) have not been observed in Caenorhabditis germ cells, although nematode genomes contain low numbers of retrotransposon and retroviral sequences. We used electron microscopy to search for VLPs in various wild strains of Caenorhabditis, and observed very rare candidate VLPs in some strains, including the standard laboratory strain of C. elegans, N2. We identified the N2 VLPs as capsids produced by Cer1, a retrotransposon in the Gypsy/Ty3 family of retroviruses/retrotransposons. Cer1 expression is age and temperature dependent, with abundant expression at 15°C and no detectable expression at 25°C, explaining how VLPs escaped detection in previous studies. Similar age and temperature-dependent expression of Cer1 retrotransposons was observed for several other wild strains, indicating that these properties are common, if not integral, features of this retroelement. Retrotransposons, in contrast to DNA transposons, have a cytoplasmic stage in replication, and those that infect non-dividing cells must pass their genomic material through nuclear pores. In most C. elegans germ cells, nuclear pores are largely covered by germline-specific organelles called P granules. Our results suggest that Cer1 capsids target meiotic germ cells exiting pachytene, when free nuclear pores are added to the nuclear envelope and existing P granules begin to be removed. In pachytene germ cells, Cer1 capsids concentrate away from nuclei on a subset of microtubules that are exceptionally resistant to microtubule inhibitors; the capsids can aggregate these stable microtubules in older adults, which exhibit a temperature-dependent decrease in egg viability. When germ cells exit pachytene, the stable microtubules disappear and capsids redistribute close to nuclei that have P granule-free nuclear pores. This redistribution is microtubule dependent, suggesting that capsids that are released from stable microtubules transfer onto new, dynamic microtubules to track toward nuclei. These studies introduce C. elegans as a model to study the interplay between retroelements and germ cell biology

C. elegans Agrin Is Expressed in Pharynx, IL1 Neurons and Distal Tip Cells and Does Not Genetically Interact with Genes Involved in Synaptogenesis or Muscle Function

Agrin is a basement membrane protein crucial for development and maintenance of the neuromuscular junction in vertebrates. The C. elegans genome harbors a putative agrin gene agr-1. We have cloned the corresponding cDNA to determine the primary structure of the protein and expressed its recombinant fragments to raise specific antibodies. The domain organization of AGR-1 is very similar to the vertebrate orthologues. C. elegans agrin contains a signal sequence for secretion, seven follistatin domains, three EGF-like repeats and two laminin G domains. AGR-1 loss of function mutants did not exhibit any overt phenotypes and did not acquire resistance to the acetylcholine receptor agonist levamisole. Furthermore, crossing them with various mutants for components of the dystrophin-glycoprotein complex with impaired muscle function did not lead to an aggravation of the phenotypes. Promoter-GFP translational fusion as well as immunostaining of worms revealed expression of agrin in buccal epithelium and the protein deposition in the basal lamina of the pharynx. Furthermore, dorsal and ventral IL1 head neurons and distal tip cells of the gonad arms are sources of agrin production, but no expression was detectable in body muscles or in the motoneurons innervating them. Recombinant worm AGR-1 fragment is able to cluster vertebrate dystroglycan in cultured cells, implying a conservation of this interaction, but since neither of these proteins is expressed in muscle of C. elegans, this interaction may be required in different tissues. The connections between muscle cells and the basement membrane, as well as neuromuscular junctions, are structurally distinct between vertebrates and nematodes

Applications of CRISPR–Cas systems in neuroscience

Genome-editing tools, and in particular those based on CRISPR-Cas (clustered regularly interspaced short palindromic repeat (CRISPR)-CRISPR-associated protein) systems, are accelerating the pace of biological research and enabling targeted genetic interrogation in almost any organism and cell type. These tools have opened the door to the development of new model systems for studying the complexity of the nervous system, including animal models and stem cell-derived in vitro models. Precise and efficient gene editing using CRISPR-Cas systems has the potential to advance both basic and translational neuroscience research.National Institute of Mental Health (U.S.) (Grant 5DP1-MH100706)National Institute of Mental Health (U.S.) (Grant 1R01-MH110049)National Institute of Diabetes and Digestive and Kidney Diseases (U.S.) (Grant 5R01DK097768-03

Géochimie des gaz naturels et origine des gisements de gaz en Europe occidentale

De nombreux gisements de gaz sont connus en Europe, dans des conditions géologiques très diverses et dans des terrains d'âge Paléozoïque à Pleistocène. Le problème de leur origine peut être élucidé par l'étude de la composition chimique et isotopique des gaz associée à la connaissance de l'histoire géologique. On rappellera d'abord le schéma général de formation de l'huile et du gaz dans les bassins sédimentaires, puis on discutera les conditions particulières de formation des divers types de gaz. Enfin, on passera en revue, à titre d'exemple, un certain nombre de gisements de gaz d'Europe occidentale

Géochimie des gaz naturels et origine des gisements de gaz en Europe occidentale Geochemistry of Natural Gas and Origins of Gas Fields in Western Europe

De nombreux gisements de gaz sont connus en Europe, dans des conditions géologiques très diverses et dans des terrains d'âge Paléozoïque à Pleistocène. Le problème de leur origine peut être élucidé par l'étude de la composition chimique et isotopique des gaz associée à la connaissance de l'histoire géologique. On rappellera d'abord le schéma général de formation de l'huile et du gaz dans les bassins sédimentaires, puis on discutera les conditions particulières de formation des divers types de gaz. Enfin, on passera en revue, à titre d'exemple, un certain nombre de gisements de gaz d'Europe occidentale. A great many gas fields are known in Europe, having a wide variety of geological conditions and in formations ranging in age from the Paleozoic to the Pleistocene. The problem of their origin can be explained by analyzing the chemical and isotopic composition of the gases combined with knowing the geological history. This article first reviews the general pattern of oil and gas formation in sedimentary basins and then goes on to discuss the specific conditions for the formation of different types of gas. It concludes with a review of various gas fields in Western Europe

Diagraphies et roches-mères. Estimation des teneurs en carbone organique par la méthode CARBOLOG

La prise en compte des teneurs en matière organique des roches-mères joue un rôle important dans l'évaluation du potentiel pétrolier des bassins sédimentaires. CARBOLOG est une nouvelle méthode d'estimation du contenu organique des roches-mères développée à l'Institut Français du Pétrole (lFP). Cette méthode tire partie des propriétés physiques de la matière organique qui se caractérise par une faible vitesse de propagation du son ainsi que par une résistivité élevée. Ces propriétés physiques peuvent être combinées de manière à permettre une estimation in situ du contenu en matière organique du sédiment. Dans un puits donné, la teneur en carbone organique est estimée par un traitement prenant conjointement en compte les valeurs fournies par deux types de diagraphies couramment disponibles dans les forages pétroliers : le Soniqueet la Résistivité . Pour mettre en oeuvre CARBOLOG à l'échelle d'un bassin sédimentaire il est nécessaire de procéder à une calibration basée sur le traitement de puits pour lesquels des données analytiques de teneur en carbone organique existent. Afin d'être validé, CARBOLOG a été testé avec succès sur des exemples appartenant à des bassins différents et présentant des faciès variés. Les résultats obtenus indiquent clairement la capacité de la méthode à estimer les teneurs en carbone organique et à rendre compte en continu de leurs évolutions verticales, pour des roches-mères marines, immatures ou faiblement matures. D'autres tests sont actuellement en cours sur des environnements de dépôt différents et des formations plus matures de manière à définir les possibilités et les limites de CARBOLOG dans l'ensemble des contextes géologiques généralement rencontrés

Structure and hydrocarbon habitat of the Polish Carpathians

Volume: 170Start Page: 343End Page: 37