Ips typographus isolate:SLU
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ABSTRACT:
PROVIDER: PRJNA671615 | ENA |
REPOSITORIES: ENA
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Project description:Ips typographus Transcriptome or Gene expression
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Project description:Ips typographus Transcriptome or Gene expression
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Project description:Bacterial symbionts from larvae of Ips typographus Genome sequencing and assembly
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Project description:The Eurasian spruce bark beetle Ips typographus is known for its devasting attack on the host tree Picea abies, a common conifer in Europe. The beetle uses various pheromone components (2-methyl-3-buten-2-ol and cis-verbenol) for mass aggregation to overcome the tree defence compounds such as terpenes. Though this aggregation pheromone biosynthesis and respective precursors via terpenes detoxification mechanism was investigated for a few decades, gene-level understanding behind these biosynthesis pathways are uncertain yet in I. typographus. Though, applying Juvenile hormone (JH III) on the beetles have induced specific pheromone biosynthesis in many bark beetle species, irrespective of their life stage, it is not uniform found in all Ips species. While investigating pheromone biosynthesis among various life stages of I. typographus, we have also reported recently about the JHIII induction of aggregation pheromone biosynthesis from the gut tissue of the beetle. Thus, in this study, we have applied the concept of JHIII induction on I. typographus and analyzed the respective pheromone and possible biosynthesis precursors from via pathway gene families from the gut tissue of the beetle. A comparative approach from transcriptome and proteome study has revealed the mevalonate pathway genes including isoprenyl-di-phosphate synthase (IPDS) gene (Ityp09271) was upregulated over 5-fold change after JHIII induction in I. typographus. The identified IPDS is suspected to directly involve in 2-methyl-3-buten-2-ol, a vital aggregation pheromone of I. typographus. Added to that, a hydrolase gene family was found upregulated over 2-fold change, specifically in the male gut tissue after JHIII treatment. Furthermore, another vital gene family, CytochromeP450 have shown the upregulated (transcript) in the male gut tissue after treatment. Especially Previously reported CyP450 candidates Ityp3140 and Ityp03153 for pheromone compounds cis/trans- verbenol and ipsdienol biosynthesis respectively. Along with CyP450 candidates, the hydrolase gene candidates could possibly involve in braking down the detox compounds such as diglycosylated terpenes and stored wax esters (verbenyl oleate) from the gut possibly provided from the of the beetle body as a reservoir. An added metabolomic analysis has confirmed these compounds abundance was in the gut tissue. Especially, the abundance of the related fatty acid ester (verbenyl oleate) has reduced half in male gut tissue after the treatment. Hence, we have shed light on three possible genes from different families for the respective pheromone and its precursors biosynthesis after JHIII application over I. typographus. This approach would lead us to elucidate the molecular basis of stored pheromone biosynthesis and the derived knowledge from this study would lead to eco-friendly pest management for this aggressive pest. Key words: Ips typographus, bark beetle, pheromone biosynthesis, de novo, Juvenile hormone treatment.
2024-01-22 | PXD039243 | Pride
Project description:Full pluripotency of induced pluripotent stem (iPS) cells has been determined as viable all-iPS mice can be generated through tetraploid complementation. Subsequently, activation of imprinted Dlk-Dio3 gene cluster has been suggested to correlate with the pluripotency of iPS cells1. However, evidence from recent studies has demonstrated that loss of imprinting at the Dlk-Dio3 locus did not correlate strictly with the reduced pluripotency of iPS cells. Therefore, it becomes indispensable to exploit other reliable molecular markers for evaluating the quality of iPS cells accurately. In the present study, we successfully utilize the sequential reprogramming approach and produce all-iPS mice to six generations using iPS cell lines derived from different cell lineages which contain the same proviral integration in the genome. By comparing the global gene expression and epigenetic modifications of both “tetra-on” and corresponding “tetra-off” iPS cell lines established from either mesenchymal or hematopoietic lineages through deep sequencing analysis of mRNA expression, small RNA profiling, histone modifications (H3K4m2, H3K4me3 and H3K27me3) and DNA methylation, very few differences are detected among all the iPS cell lines investigated. However, we find that two imprinted genes, disruption of which correlate with the reduced pluripotency of iPS cells. Therefore, our data not only provide the first demonstration that producing of all-iPS mice to six generations is feasible, but reveal that two imprinted regions can be served as pluripotency markers of iPS cells
2013-12-06 | GSE36292 | GEO