Ontology highlight
ABSTRACT:
PROVIDER: PRJNA510306 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR8327650_1.fastq.gz | Fastqsanger.gz | |||
| SRR8327650_2.fastq.gz | Fastqsanger.gz | |||
| SRR8327651_1.fastq.gz | Fastqsanger.gz | |||
| SRR8327651_2.fastq.gz | Fastqsanger.gz | |||
| SRR8327646_1.fastq.gz | Fastqsanger.gz |
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Project description:Tropilaelaps mercedesae isolate:Wuxi-XJTLU Genome sequencing and assembly
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Project description:Background The number of managed honey bee colonies has considerably decreased in many developed countries in recent years and the ectoparasitic mites are considered as major threats to honey bee colonies and health. However, their general biology remains poorly understood. Results We sequenced the genome and transcriptomes of Tropilaelaps mercedesae, the prevalent ectoparasitic mite infesting honey bees in Asia. The de novo assembled genome sequence (353 Mb) represents 53% of the estimated genome size because of the compression of repetitive sequences; nevertheless, we predicted 15,190 protein-coding genes which were well supported by the mite transcriptomes and proteomic dataes. Although amino acid substitutions have been accelerated within the conserved core genes in of two mites, T. mercedesae and Metaseiulus occidentalis, T. mercedesae has undergone the least gene family expansion and contraction between the seven arthropods we tested. The number of sensory system genes has been dramatically reduced; meanwhile, T. mercedesae may have evolved a specialized cuticle and water homeostasis mechanisms, as well as epigenetic control of gene expression for ploidy compensation between males and females., and water homeostasis. T. mercedesae contains all gene sets required to detoxify xenobiotics, enabling it to be miticide resistant. T. mercedesae is closely associated with a symbiotic bacteriuma (Rickettsiella grylli-like) and DWVdeformed wing virus (DWV), the most prevalent honey bee virus. The presence of DWV in both adult male and female mites was also confirmed by the proteomic analysis. Conclusions T. mercedesae has a very specialized life history and habitat as the ectoparasitic mite strictly dependsing on the honey bee inside the a stable colony. Thus, comparison of the genome and transcriptome sequences with those of a tick and free-living mites and tick has revealed the specific features of the genome shaped by interaction with the honey bee and colony environment. T. mercedesae, as well as Varroa destructor, genome and transcriptome sequences not only provide insights into the mite biology, but may also help to develop measures to control the most serious pests of the honey bee.
2017-01-02 | PXD004997 | Pride
Project description:Transcriptomic profiles of kidney allograft rejection: cell phenotype and origin, main biological pathways and interactions
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Project description:Varroa and Tropilaelaps Raw sequence reads
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Project description:Enteric glial cells (EGCs) are the main constituent of the enteric nervous system and share similarities with astrocytes from the central nervous system including their reactivity to an inflammator microenvironment. In this study we isolated GFAP-positive myenteric glia from FVB/hGFAP-eGFP transgenic postnatal day 7 mice. Following cell sorting for the eGFP reporter, GFAP-positive EGCs were cultured for 3 weeks to generate neurosphere-like bodies. This cell culture was stimulated with LPS for 48 h and cells were employed for gene expression profiling. LPS-stimulated cell cultures were compared to untreated control cell cultures. Enriched GFAP+ EGC cultures secreted increased levels of prominent inflammatory cytokines upon LPS stimulation. Further, in vitro cultures were compared to GFAP-eGFP-positive cells directly analyzed after cell sorting of small intestinal LMMP digests (in vivo) to assess alterations in transcriptomic profiles due to the in vitro culture.
2016-03-11 | GSE78015 | GEO
Project description:All T. mercedesae samples were collected from capped brood cells using a soft paintbrush and soft tweezers. Reproductive mites (Rep) were collected from brood cells containing white-eyed pupae. Protonymphs (Pro) and one deutonymphs (Deu) were sampled from brood cells containing purple-eyed pupae. Adult T. mercedesae (Adu) were collected from cells close to emerge (about one day before adult bees emerge). For each group (protonymphs, deutonymphs, adults, and reproductive mites), collected mites from all 12 colonies were randomly allocated to one of three replicates (50 mg for each replicate). All samples were rinsed with PBS and air-dried to remove many contaminates that may have been attached to the cuticle, flash-frozen using liquid nitrogen, and stored at -80°C for further processing.
2024-04-13 | PXD051347 | Pride
Project description:Embryonic stem (ES) cells, when grown in suspension culture without feeders, spontaneously form round structures known as embryoid bodies. Given the appropriate conditions, these cells can differentiate over time into precursors of all three germ layers. Embryoid bodies, in a disorganized way, mimic early embryonic development to a certain extent and can be used as a synchronously differentiating large scale source of tissue for the study of biological determinants of early differentiation. Embryoid bodies have been used as a source for most early protocols that derive specific differentiated cell types from undifferentiated ES cells, although some protocols, notably those that derive neurons from ES cells, have moved on from EBs as a result of varying replicability and yield. We have decided to look at the transcriptomic profiles of embryoid bodies during the initial stages of embryoid body formation and differentiation, in order to pinpoint novel determinants of key developmental stages. Keywords: time course
2007-08-15 | GSE8766 | GEO