Pull-down of PpSerpin-1 isoforms
Ontology highlight
ABSTRACT:
INSTRUMENT(S): Q Exactive HF
ORGANISM(S): Pieris Rapae
TISSUE(S): Blood Plasma, Saliva
SUBMITTER: 
Zhichao Yan
LAB HEAD: Zhichao Yan
PROVIDER: PXD044199 | Pride | 2023-08-05
REPOSITORIES: Pride
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| PpSerpin-1A.msf | Msf | |||
| PpSerpin-1A.raw | Raw | |||
| PpSerpin-1B.msf | Msf | |||
| PpSerpin-1B.raw | Raw | |||
| PpSerpin-1G.msf | Msf |
Items per page: 5 1 - 5 of 16 |
Similar Datasets
Project description:Manduca sexta is a lepidopteran model widely used to study insect physiological processes including innate immunity. In this study, we explored the proteomes of cell-free hemolymph from larvae injected with a sterile buffer (C for control) or a mixture of bacteria (I for induced). Of the 654 proteins identified, 70 showed 1.67 to >200 fold abundance increases after the immune challenge; 51 decreased to 0−60% of the control levels. While there was no strong parallel between plasma protein levels and their transcript levels in hemocytes or fat body, the mRNA level changes (i.e. I/C ratios of normalized read numbers) in the tissues concurred with their protein level changes (i.e. I/C ratios of normalized spectral counts) with correlation coefficients of 0.44 and 0.57, respectively. Better correlations support that fat body contributes a more significant portion of the plasma proteins involved in various aspects of innate immunity. Consistently, ratios of mRNA and protein levels were better correlated for immunity-related proteins than unrelated ones. There is a set of proteins whose apparent molecular masses differ considerably from the calculated Mr’s, suggestive of post-translational modifications. In addition, some low Mr proteins were detected in the range of 80 to >300 kDa on a reducing SDS-polyacrylamide gel, indicating the existence of high Mr covalent complexes. We identified 30 serine proteases and their homologs, eleven of which are known members of an extracellular immune signaling network. Along with our quantitative transcriptome data, the protein identification, inducibility, and association provide leads toward a focused exploration of humoral immunity in M. sexta.
2016-02-01 | PXD003267 | Pride
Project description:Pollinators are of crucial importance for maintaining biodiversity in ecosystems and for agriculture, including the Buff-tailed bumblebee Bombus terrestris. The health decline in these populations is thought to be linked to various abiotic and biotic stressors. In the hope of protecting these populations, deciphering their immune response in stress conditions represent a critical issue. To assess this metric, we analysed the bumblebee hemolymph, as a readout of the immune status. Here, we show in laboratory conditions that bacterial infections with two entomopathogenic strains and a well-recognised inducer of defence reactions in insects, impact the systemic immune response. Analysis of the hemolymph was carried out using a two-stage approach of mass spectrometry that combines MALDI molecular mass fingerprinting (MALDI MFP or MALDI-BeeTyping®) for its effectiveness in assessing the immune status of the bumblebee through a basic “blood” test and LC-ESI-MS/MS to measure the impact of our infectious models on the “haemoproteome”. By carrying out three different types of bacterial infections, we found that the bumblebee reacts in a specific way to bacterial attacks. Indeed, bacteria impact mortality and stimulate an immune response in infected individuals that is visible through changes in the molecular composition of their hemolymph. The characterisation and label-free quantification of proteins involved in specific signalling pathways in bumblebees by LC-ESI-MS/MS revealed differences in the protein expression between the non-experimentally infected and the infected bumblebees. Our results highlights differences in the molecular composition of their hemolymph to distinguish these different infections from non-experimentally infected bumblebees, and an alteration of pathways involved in (i) immunity and defences, (ii) the metabolism of carbohydrates (glycolysis), (iii) oxidative stress and (iv) amino acid biosynthesis. To conclude, we established bioinformatics models based on molecular markers reflecting the health status of these pollinators to enable diagnosis/prognosis at the population level in response to environmental stress.
2023-05-10 | PXD035224 | Pride
Project description:We present a microarray study of hemocyte-enriched transcriptome in Aedes aegypti. We directed our efforts to critically assess the transcriptomic features distinctive of hemocytes, and discussed our findings in relation to infection-responsive genes and immune-relate gene families. Specifically, our analysis examined how tissue-enriched expression patterns change with the immune status of the host, and resolved patterns of transcriptional change unique to hemocytes from those that are likely shared by other immune responsive tissues. We profiled the transcriptome of circulating hemocytes and the remaining carcass in both naM-CM-/ve and bacteria-challenged adult female mosquitoes. To examine transcriptional changes associated with hemocoelic infection in distinct tissue samples, we adopted a linear model-based framework for analyzing dual-channel hybridizations (i.e., two-color microarrays) as separate single-channels (Smyth, 2004). The biological and technical dye-swap replicates of the 2M-CM-^W3 experimental conditions consisted of forty separate single-channel intensity profiles. For each biological replication, hemolymph perfusate and the remaining carcass were collected as paired samples at 24 hours post intra-hemocoelic injection of either Escherichia coli or Micrococcus luteus overnight culture (0.5 M-BM-5l) in parallel with an age-matched naM-CM-/ve group from the same cohort. Concomitantly-collected hemocyte and carcass samples were co-hybridized on microarrays. Material for each experimental condition was generated from three (bacterial challenge) or four (naM-CM-/ve) separate generations of mosquitoes, and four separate microarray hybridizations using carcass and hemocyte material were performed. The first hybridization compared naM-CM-/ve and E. coli-challenged conditions, the second compared naM-CM-/ve and M. luteus-challenged conditions, and the third and fourth compared all three conditions.
2012-07-22 | E-GEOD-38744 | biostudies-arrayexpress
Project description:Human utilization of the mulberry-silkworm interaction started at least 5,000 years ago and greatly influenced world history through the Silk Road. Complementing the silkworm genome sequence, here we describe the genome of a mulberry species (Morus notabilis C. K. Schneider). In the 330 Mb genome assembly of M. notabilis, we identified 128 Mb of repetitive sequences and 29,338 genes, 60.8% of which were supported by transcriptome sequencing. Mulberry gene sequences appear to evolve ~3 times faster than other Rosales, perhaps facilitating its spread to Europe, Africa, and America. It is among few eudicots but several Rosales not preserving genome duplications in more than 100 million years – however neopolyploid series in mulberry and several others suggest that new duplications may confer benefits. Strikingly, five predicted mulberry miRNAs were found in the hemolymph and silkglands of silkworm, suggesting profound molecular level interactions that promise to expand knowledge of plant-herbivore relationship which constitute key elements of most terrestrial habitats. In addition, we investigated the characters of hemolymph small RNA. small mRNA profiles of silkworm hemolymph in the fifth instar day-5 silkworm were generated by deep sequencing, in twice, using Illumina Hiseq 2000.
2013-09-12 | E-GEOD-48168 | biostudies-arrayexpress
Project description:6S RNA is a small RNA with specific secondary structure that associates with the complex of RNA polymerase (RNAP) and the primary sigma factor in majority of bacteria. In mycobacteria, Ms1 interacts with the RNAP core without the sigma factor and probably replaces 6S RNA. Ms1 has been predicted in many actinobacterial species, except of corynebacteria. To identify RNAs that have a similar function as Ms1 or 6S RNA in Corynebacterium glutamicum, we sequenced RNAs that co-immunoprecipitated with RNAP or the primary sigma factor sigma A. We also sequenced total RNA isolated from the lysate (input sample). We expect that Ms1 or 6S RNA homologs are enriched in RNA polymerase or sigma A samples compared to the inputs. The experiment was performed in exponential and stationary phase of growth.
2024-02-09 | E-MTAB-13608 | biostudies-arrayexpress
Project description:6S RNA is a small RNA with specific secondary structure that associates with the complex of RNA polymerase (RNAP) and the primary sigma factor in majority of bacteria. Bacillus subtilis has two 6S RNAs. To compare both 6S RNAs and to identify RNAs that might have a similar functions, we sequenced RNAs that co-immunoprecipitated with RNAP or the primary sigma factor (sigma A). We also sequenced total RNA isolated from the lysate (input sample). We expect that putative 6S RNA-like molecules are enriched in RNA polymerase or sigma A samples compared to the inputs. We performed the experiment both in exponential and stationary phase of growth.
2024-02-09 | E-MTAB-11693 | biostudies-arrayexpress
Project description:6S RNA is a small RNA with specific secondary structure that associates with the complex of RNA polymerase (RNAP) and the primary sigma factor in majority of bacteria. In mycobacteria, Ms1 interacts with the RNAP core without the sigma factor and probably replaces 6S RNA. To identify RNAs that have a similar function as Ms1 or to identify a new 6S RNA in mycobacteria, we sequenced RNAs that co-immunoprecipitated with RNAP or the primary sigma factor sigma A. We also sequenced total RNA isolated from the lysate (input sample). We expect that putative regulatory RNAs are enriched in RNA polymerase or sigma A samples compared to the inputs. The experiment was performed in exponential and stationary phase of growth.
2024-02-09 | E-MTAB-11692 | biostudies-arrayexpress
Project description:6S RNA is a small RNA with specific secondary structure that associates with the complex of RNA polymerase (RNAP) and the primary sigma factor in majority of bacteria. In mycobacteria, Ms1 interacts with the RNAP core without the sigma factor and probably replaces 6S RNA. Ms1 has been predicted in many actinobacterial species, except of corynebacteria. To identify RNAs that have a similar function as Ms1 or 6S RNA in Corynebacterium glutamicum, we sequenced RNAs that co-immunoprecipitated with RNAP or the primary sigma factor sigma A. We also sequenced total RNA isolated from the lysate (input sample). We expect that Ms1 or 6S RNA homologs are enriched in RNA polymerase or sigma A samples compared to the inputs. The experiment was performed in exponential and stationary phase of growth.
2024-02-09 | E-MTAB-12351 | biostudies-arrayexpress
Project description:6S RNA is a small RNA with specific secondary structure that associates with the complex of RNA polymerase (RNAP) and the primary sigma factor in majority of bacteria. In Mycobacterium smegmatis, Ms1 interacts with the RNAP core without the sigma factor and probably replaces 6S RNA. It is currently unknown if Ms1 homolog (MTS2823) in M. tuberculosis also binds to RNAP core. We sequenced RNAs that co-immunoprecipitated with RNAP or the primary sigma factor sigma A and total RNA isolated from the lysate (input sample). We expect that putative Ms1 or 6S RNA homologs are enriched in RNA polymerase or sigma A sample compared to the input.
2024-02-09 | E-MTAB-13584 | biostudies-arrayexpress
Project description:6S RNA is a small RNA with specific secondary structure that associates with the complex of RNA polymerase (RNAP) and the primary sigma factor in majority of bacteria. In Mycobacterium smegmatis, Ms1 interacts with the RNAP core without the sigma factor and probably replaces 6S RNA. It is currently unknown if Ms1 homolog (MTS2823) in M. tuberculosis also binds to RNAP core. We sequenced RNAs that co-immunoprecipitated with RNAP or the primary sigma factor sigma A and total RNA isolated from the lysate (input sample). We expect that putative Ms1 or 6S RNA homologs are enriched in RNA polymerase or sigma A sample compared to the input.
2024-02-09 | E-MTAB-12350 | biostudies-arrayexpress