Abstract:The RNA interference (RNAi) technique is a recent technology that uses double-stranded RNA molecules to promote potent and specific gene silencing. The application of this technique to molecular biology has increased considerably, from gene function identification to disease treatment. However, not all small interfering RNAs (siRNAs) are equally efficient, making target selection an essential procedure. Here we present Strand Analysis (SA), a free online software tool able to identify and classify the best RNA… Show more
“…Dicer substrates were designed for 50 targets (genes whose target codes start with “si”, on ), using the freeware Strand Analysis ( Pereira et al , 2007 ) and extended three nucleotides at each end. These molecules are 27 RNA duplexes, with two nucleotide 3′ overhangs and phosphate groups at the 5′ ends.…”
The molecular basis of anhydrobiosis, the state of suspended animation entered by
some species during extreme desiccation, is still poorly understood despite a
number of transcriptome and proteome studies. We therefore conducted functional
screening by RNA interference (RNAi) for genes involved in anhydrobiosis in the
holo-anhydrobiotic nematode Panagrolaimus superbus. A new
method of survival analysis, based on staining, and proof-of-principle RNAi
experiments confirmed a role for genes involved in oxidative stress tolerance,
while a novel medium-scale RNAi workflow identified a further 40
anhydrobiosis-associated genes, including several involved in proteostasis, DNA
repair and signal transduction pathways. This suggests that multiple genes
contribute to anhydrobiosis in P. superbus.
“…Dicer substrates were designed for 50 targets (genes whose target codes start with “si”, on ), using the freeware Strand Analysis ( Pereira et al , 2007 ) and extended three nucleotides at each end. These molecules are 27 RNA duplexes, with two nucleotide 3′ overhangs and phosphate groups at the 5′ ends.…”
The molecular basis of anhydrobiosis, the state of suspended animation entered by
some species during extreme desiccation, is still poorly understood despite a
number of transcriptome and proteome studies. We therefore conducted functional
screening by RNA interference (RNAi) for genes involved in anhydrobiosis in the
holo-anhydrobiotic nematode Panagrolaimus superbus. A new
method of survival analysis, based on staining, and proof-of-principle RNAi
experiments confirmed a role for genes involved in oxidative stress tolerance,
while a novel medium-scale RNAi workflow identified a further 40
anhydrobiosis-associated genes, including several involved in proteostasis, DNA
repair and signal transduction pathways. This suggests that multiple genes
contribute to anhydrobiosis in P. superbus.
“…The area including the points shows the minimum distance of genetic isolation and refers to a panmictic population structure (Kraus 2005 Solignac et al (2003). Allele sizes were determined in an ABI PRISM 3700 DNA Sequencer (Applied Biosystems) and scored using STRand v2.3.106 (Pereira et al 2007). …”
-The genetic structure of the Iberian honey bee (Apis mellifera iberiensis) was studied by analysing 10 microsatellite loci in 362 workers representative of nine Spanish provinces. Heterozygosity values of Iberian honeybee populations are intermediate between African and west European ones whereas allelic diversity is remarkably high at several loci. There is no definite geographic structure of Iberian honeybee populations. At a peninsular scale, the expected clinal pattern observed with mitochondrial data has been probably lost due to the extensive practice of mobile beekeeping and increased colony trade-off. Due to these practices, it is expected that the genetic homogenisation will increase during the next years. Though this might have positive effects on honey production, putative ecotypes existing in Iberia would be prone to disappear.Apis mellifera / population genetics / synthesis maps
“…Genotypes of 30 P. hypogaea individuals, collected from the two caves mentioned above were screened using STRand version 2.3.106 (Pereira et al 2007). Heterozygosities and genotypic linkage disequilibrium were calculated using GENEPOP version 3.4 (Raymond and Rousset 1995b).…”
Eight polymorphic microsatellite loci for the subterraneous microphtalmous Palmorchestia hypogaea (Amphipoda: Talitridae) were isolated from a genomic library enriched for AG, AC and AAC repetitive elements. The number of alleles ranged from 2 to 8 per locus with the observed heterozygosity ranging from 0.00 to 0.94 in the two studied populations. These variable markers will be useful in evaluating gene flow and population structure within the subterranean populations and should provide valuable information about the importance of dispersal through the underground in the dynamic of cave biotas.
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