PanOat:Transcriptome
Ontology highlight
ABSTRACT:
PROVIDER: PRJEB57570 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Tanaidaceans are small benthic crustaceans that mainly inhabit diverse marine environments, and they comprise one of the most diverse and abundant macrofaunal groups in the deep sea. Tanaidacea is one of the most thread-dependent taxa in the Crustacea, constructing tube spun with their silk for shelter. In this work, we sequenced and assembled the comprehensive transcriptome of 23 tanaidaceans encompassing 14 families and 4 superfamilies of Tanaidacea, and performed silk proteomics of Zeuxo ezoensis to search for its silk genes. As a result, we identified two families of silk proteins, that are conserved across the four superfamilies. Long and repetitive nature of these silk genes resemble that of other silk-producing organisms, and the two families of proteins were similar in composition to silkworm and caddisform fibroins, respectively. Moreover, the amino acid composition of the repetitive motifs of tanaidid silk tended to be more hydrophilic, and therefore could be a useful resource to study their unique adaptation of silk use in marine environment. The availability of comprehensive transcriptome data in these taxa coupled with the proteomics evidence for their silk genes would facilitate the evolutionary and ecological studies.
2021-11-26 | PXD024972 | JPOST Repository
Project description:The primary objective of this prospective observational study is to characterize the gut and oral microbiome as well as the whole blood transcriptome in gastrointestinal cancer patients and correlate these findings with cancer type, treatment efficacy and toxicity. Participants will be recruited from existing clinical sites only, no additional clinical sites are needed.
| 2742033 | ecrin-mdr-crc
Project description:Cereals-based foods cause immune-mediated adverse reactions including coeliac disease and IgE-mediated allergies. Proteomic profiling of proteins carrying coeliac toxic motifs and allergens has been undertaken in wheat, barley, rye and oats in order to understand whether some cereal species, such as oats, maybe safe for allergic consumers. Total protein extracts were subject to chymotryptic digestion and analysed using data independent ion mobility mass spectrometry and analysed using a pipeline employing a curated gluten protein sequence database. Between 376-2769 proteins were identified and were dominated by proteins with a nutrient reservoir function. Relative quantitation of proteins containing coeliac toxic motifs showed they were present in wheat, barley and rye, but none were common to all three cereals, but were present in a limited number and much lower abundance in oats. The most abundant allergens were the seed storage prolamins, with allergens belonging to the α-amylase/trypsin inhibitor family associated with the inhalant allergy being of only moderate abundance. Wheat allergen homologues were identified in other cereal species but at a very low level in oats. These data suggest that the relative risk of oats in the context of both coeliac disease and IgE-mediated allergy is low.
2026-02-23 | PXD039539 | Pride
Project description:We constructed E. coli transcriptome under deoxynivalenol (DON) and nivalenol (NIV) condition from Fusarium spp. To identify differentially expressed genes in mycotoxin condition, we compared mycotoxin (DON and NIV) transcriptome to acetonitrile (ACN) transcriptome as the solvent of myxotoxin. As a result, 435-929 transcripts were identified from all conditions, respectively.
2017-07-23 | GSE59682 | GEO