Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| Other | ||||
| SRR10203903_1.fastq.gz | Fastqsanger.gz | |||
| SRR10203903_2.fastq.gz | Fastqsanger.gz | |||
| SRR10203904_1.fastq.gz | Fastqsanger.gz | |||
| SRR10203904_2.fastq.gz | Fastqsanger.gz |
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Similar Datasets
Project description:Understanding the genetic basis of adaptation to novel environments remains one of the major challenges confronting evolutionary biologists. While newly developed genomic approaches hold considerable promise for addressing this overall question, the relevant tools have not often been available in the most ecologically interesting organisms. Our study organism, Drosophila mojavensis, is a cactophilic Sonoran Desert endemic utilizing four different cactus hosts across its geographic range. Its well-known ecology makes it an attractive system in which to study the evolution of gene expression during adaptation. As a cactophile, D. mojavensis oviposits in the necrotic tissues of cacti, therefore exposing larvae and even adults to the varied and toxic compounds of rotting cacti. We have developed a cDNA microarray of D. mojavensis to examine gene expression associated with cactus host use. Using a population from the Baja California population we examined gene expression differences of third instar larvae when reared in two chemically distinct cactus hosts, agria (Stenocereus gummosus, native host) vs. organpipe (S. thurberi, alternative host). We have observed differential gene expression associated with cactus host use in genes involved in metabolism and detoxification. Keywords: host adaptation, stress response, detoxification
2007-01-24 | GSE5148 | GEO
Project description:Effects of cacti species in Human faecal microbiota
| PRJNA1076928 | ENA
Project description:Understanding the genetic basis of adaptation to novel environments remains one of the major challenges confronting evolutionary biologists. While newly developed genomic approaches hold considerable promise for addressing this overall question, the relevant tools have not often been available in the most ecologically interesting organisms. Our study organism, Drosophila mojavensis, is a cactophilic Sonoran Desert endemic utilizing four different cactus hosts across its geographic range. Its well-known ecology makes it an attractive system in which to study the evolution of gene expression during adaptation. As a cactophile, D. mojavensis oviposits in the necrotic tissues of cacti, therefore exposing larvae and even adults to the varied and toxic compounds of rotting cacti. We have developed a cDNA microarray of D. mojavensis to examine gene expression associated with cactus host use. Using a population from the Baja California population we examined gene expression differences of third instar larvae when reared in two chemically distinct cactus hosts, agria (Stenocereus gummosus, native host) vs. organpipe (S. thurberi, alternative host). We have observed differential gene expression associated with cactus host use in genes involved in metabolism and detoxification. The experiment was composed of 5 sets of dye-flips (rep1-5). Larvae were reared in either necrotic agria or organpipe cactus tissues. They were then collected at the third instar stage and its total RNA extracted.
2010-07-01 | E-GEOD-5148 | biostudies-arrayexpress
Project description:This SuperSeries is composed of the following subset Series: GSE35462: Genome-wide analysis of histone methylation reveals chromatin state-based regulation of host cellular gene expression induced by hepatitis B viruses (ChIP-Seq dataset) GSE35464: Genome-wide analysis of histone methylation reveals chromatin state-based regulation of host cellular gene expression induced by hepatitis B viruses (DGE dataset) Refer to individual Series
2012-07-31 | E-GEOD-35465 | biostudies-arrayexpress
Project description:We report a global survey of viral small RNAs (vsmRNAs) from >200 Aedes aegypti samples to identify many mosquito viruses that actively infect this prominent arboviral vector. Ae. aegypti viruses in the Americas were abundant, with some displaying geographical boundaries. Viruses infecting Asian Ae. aegypti were similar to those in the Americas and revealed the first wild example of dengue vsmRNAs. African Ae. aegypti displayed vsmRNAs from viruses unique to these African strains. Academic lab colonies generally lacked viruses, yet two commercial strains were deeply infected by a tombus-like virus that is related to plant viruses. Comparing matched viral long RNAs to vsmRNAs revealed viral transcripts evading the mosquito RNA interference (RNAi) pathway. By infecting mosquito cells with Ae. aegypti homogenates, we generated stably infected cell lines which produced vsmRNAs that were comparable to native mosquito vsmRNA patterns. Lastly, we demonstrate that these stably infected mosquito cells producing vsmRNAs can exert gene silencing of reporters bearing viral sequence segments, providing a potential explanation for how Ae. aegypti can tolerate the persistence of viral infections. This vsmRNA genomics approach in Ae. aegypti can add to existing vector surveillance approaches by discovering new viruses that persist in mosquito populations.
2025-11-23 | GSE309873 | GEO
Project description:The RNA interference (RNAi) pathway is found in most eukaryotic lineages but curiously is absent in others, including that of Saccharomyces cerevisiae. Here, we show that reconstituting RNAi in S. cerevisiae causes loss of a beneficial dsRNA virus, known as killer virus. Incompatibility between RNAi and killer viruses extends to other fungal species, in that RNAi is absent in all species known to possess dsRNA killer viruses, whereas killer viruses are absent in closely related species that retained RNAi. Thus, the advantage imparted by acquiring and retaining killer viruses explains the persistence of RNAi-deficient species during fungal evolution.
2011-08-10 | GSE31290 | GEO
Project description:Our experiments investigated the effects of various known chemotherapeutic agents (2-thiouracil, ribavirin and zidovudine) on grapevine for the elimination of several different viruses and viroids. Viruses and viroids were identified by small RNA HTS in the mother plants of different grapevine cultivars, and RT-PCR verified the results. Among the tested agents, ribavirin had the broadest elimination effect on most viruses. It proved to be particularly effective against GFkV, GLRaV-4, GPGV and GRSPaV, however, as a single treatment it was not able to eliminate GFLV. In our experiments, ribavirin also showed very low efficacy against GLRaV-1 and GVA viruses. The application of 2-TU caused high phytotoxicity, with only 25% efficacy against GLRaV-4 among the viruses tested. Zidovudine failed to eliminate any of the viruses we tested. However, the combination of ribavirin and zidovudine was able to eliminate GFLV, though with low efficacy (12.5%). In contrast, the combination of ribavirin and 2-TU has been shown to be very effective against GRSPaV and GPGV. Compared to ribavirin, zidovudine and 2-thiouracil did not demonstrate significant virus elimination efficacy in the case of tested viruses. In our experiments ribavirin could not remove HSVd and GYSVd-1 viroids. To the best of our knowledge, no prior studies have been published the successful use of ribavirin or other chemotherapeutic agents against GLRaV-4, and this is the first publication of a successful application of 2-TU and zidovudine against grape viruses .
2025-12-31 | GSE283735 | GEO