Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

DATASET - Mass Spectrometry - Snake venom proteomics of three subspecies of the North African mountain viper (Vipera monticola, Saint-Girons 1954) from Morocco

ABSTRACT: This DATASET collection includes the mass spectrometry files for proteomics venom investigation of three subspecies of the North African mountain viper (Vipera monticola, Saint-Girons 1954) from Morocco. Species list: 1. Vipera monticola monticola 2. Vipera monticola atlantica 3. Vipera monticola saintgironsi Folders 01-03 - BOTTOM-UP PROTEOMICS: The venom pools were investigated by the bottom-up "snake venomics" (labled as SVX) approach and in short: separated by RP-HPLC, followed by SDS-PAGE separation and the single bands were in-gel processed by DTT, IAC and finally o/n tryptic digested. Samples submitted to HPLC-MS/MS. Early peptidic fractions of the first HPLC run were directly submitted to HPLC-MS/MS analytic w/o further gel procession. Folders 01 to 03 include the MS and MS/MS spectra of the snake species 1-3, respectively. Files are included as RAW and MZML format. Used instrument: LTQ Orbitrap XL mass spectrometer (Thermo, Bremen, Germany) with an Agilent 1260 HPLC system (Agilent Technologies, Waldbronn, Germany) using a reversed-phase Grace Vydac 218MS C18 (2.1 x 150 mm; 5 um particle size) column. Modifications: UNIMOD:4 - \"Iodoacetamide derivative.\" Used protein database: Uniprot_8570_serpentes_reviewed_CandIso_2747_entries_230398.fasta

INSTRUMENT(S): LTQ Orbitrap XL

ORGANISM(S): Vipera Monticola Atlantica Vipera Monticola Saintgironsi Vipera Monticola Monticola Vipera Monticola (ncbitaxon:1588684)

SUBMITTER: Maik Damm

PROVIDER: MSV000094724 | MassIVE | Thu May 09 06:31:00 BST 2024

REPOSITORIES: MassIVE

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

DATASET - Bottom-Up - Snake venom proteomics of seven taxa of the genera Vipera, Montivipera, Macrovipera and Daboia across Turkiye/Turkey

Project description:This DATASET collection includes the mass spectrometry files for proteomics venom investigation of seven taxa of the genera Vipera, Montivipera, Macrovipera and Daboia across Turkiye/Turkey. Species list: Vipera berus barani Vipera darevskii Montivipera bulgardaghica bulgardaghica Montivipera bulgardaghica albizona Montivipera xanthina Macrovipera lebetinus obtusa Daboia palaestinae Folders 01-07 - BOTTOM-UP PROTEOMICS: The venom pools were investigated by the bottom-up "snake venomics" (labled as SVX) approach and in short: separated by RP-HPLC, followed by SDS-PAGE separation and the single bands were in-gel processed by DTT, IAC and finally o/n tryptic digested. Samples submitted to HPLC-MS/MS. Early peptidic fractions of the first HPLC run were directly submitted to HPLC-MS/MS analytic w/o further gel procession. Folders 01 to 07 include the MS and MS/MS spectra of the snake species 1-7, respectively. Files are included as RAW and MZML format. Used instrument: LTQ Orbitrap XL mass spectrometer (Thermo, Bremen, Germany) with an Agilent 1260 HPLC system (Agilent Technologies, Waldbronn, Germany) using a reversed-phase Grace Vydac 218MS C18 (2.1 x 150 mm; 5 um particle size) column. Modifications: UNIMOD:4 - \"Iodoacetamide derivative.\"

2024-03-04 | MSV000094228 | MassIVE

DATASET - Mass Spectrometry - Snake venom proteomics of island and mainland V. ammodytes populations from North Macedonia

Project description:This DATASET collection includes the mass spectrometry files for proteomics venom investigation of island and mainland V. ammodytes populations from North Macedonia. Sample list: 1. Island - adult - male 2. Island - adult - female 3. Island - juvenile 4. Island - subadult 5. Mainland - adult 6. Mainland - subadult 7. Mainland - juvenile Folders 01-07 - BOTTOM-UP PROTEOMICS: The venom pools were investigated by the bottom-up "snake venomics" (labelled as SVX) approach and in short: separated by RP-HPLC, followed by SDS-PAGE separation and the single bands were in-gel processed by DTT, IAC and finally o/n tryptic digested. Samples submitted to HPLC-MS/MS. Early peptidic fractions of the first HPLC run were directly submitted to HPLC-MS/MS analytic w/o further gel procession. Folders 01 to 07 include the MS and MS/MS spectra of the V. ammodytes sample pools from different populations. Files are included as RAW and MZML format. Used instrument: LTQ Orbitrap XL mass spectrometer (Thermo, Bremen, Germany) with an Agilent 1260 HPLC system (Agilent Technologies, Waldbronn, Germany) using a reversed-phase Grace Vydac 218MS C18 (2.1 x 150 mm; 5 um particle size) column. Modifications: UNIMOD:4 - \"Iodoacetamide derivative.\" Used protein database: Uniprot_8750_serpentes_CanNIso_2674_entries_220210_cRAP_220210.fasta

2024-06-18 | MSV000095060 | MassIVE

DATASET - Top-Down - Snake venom proteomics of seven taxa of the genera Vipera, Montivipera, Macrovipera and Daboia across Turkiye/Turkey

Project description:This DATASET collection includes the mass spectrometry files for proteomics venom investigation of seven taxa of the genera Vipera, Montivipera, Macrovipera and Daboia across Turkiye/Turkey. Species list: Vipera berus barani Vipera darevskii Montivipera bulgardaghica bulgardaghica Montivipera bulgardaghica albizona Montivipera xanthina Macrovipera lebetinus obtusa Daboia palaestinae Folders - TOP-DOWN PROTEOMICS: The venom pools were investigated by the non-reduced and TCEP reduced top-down (labled as TD) approach and in short: untreated (non-reduced) or TCEP reduced samples submitted to HPLC-MS/MS. Files are included as RAW and MZML format. Used instrument: Q Exactive HF mass spectrometer (Thermo, Bremen, Germany) with a Vanquish ultra-high performance liquid chromatography (UHPLC) system (Agilent Technologies, Waldbronn, Germany) using a reversed-phase Supelco Discovery BIO wide C18 (2.0 x 150 mm; 3 um particle size; 300 A pore size). Modifications: none (either red. or non-red. disulfide bridges)

2024-03-04 | MSV000094229 | MassIVE

RNA sequencing of venom glands and venom gland organoids

Project description:Both single cell and bulk RNA sequencing was performed on expanding or differentiating snake venom gland organoids (from Aspidelaps Lubricus Cowlesi and Naja Nivea), or tissue (Aspidelaps Lubricus Cowlesi). Bulk RNA sequencing from the snake venom gland, liver and pancreas was performed to construct a de novo transcriptome using Trinity.

2020-02-24 | GSE129581 | GEO

Snake venomics of Vipera seoanei

Project description:Snake venomics analysis of the Vipera seoanei. A venom pool of 49 milked wild specimen were separated by RP-HPLC, followed by SDS-PAGE separation and the single bands were in-gel processed by DTT, IAC and final o/n tryptic digested.

2023-03-23 | MSV000091535 | MassIVE

Vipera ammodytes ammodytes venom proteomics

Project description:The nose-horned viper, its nominotypical subspecies Vipera ammodytes ammodytes (Vaa) in particular is, medically, the most relevant snake in Europe. The local and systemic clinical manifestations of poisoning by the venom of this snake are the result of the pathophysiological effects inflicted by enzymatic and non-enzymatic venom components acting, most prominently, on blood, cardiovascular and nerve systems. This venom comprises the most complex mixture of pharmacologically active proteins and peptides of all European snakes. To help improve the current antivenom therapy towards higher specificity and efficiency, and to assist drug discovery, we have constructed, by combining transcriptomic and proteomic analyses, the most comprehensive library yet of the Vaa venom proteins and peptides. At the protein level, 57 venom proteins belonging to 16 different protein families have been identified and, with SVSPs, sPLA2s, snaclecs and SVMPs, comprise about 80% of all venom proteins.

2019-05-06 | PXD012752 | Pride

Mapping the immune cell microenvironment by digital spatial profiling in muscle tissue injected with the venom of Daboia russelii

Project description:Pathological and inflammatory events in muscle after injection of snake venoms vary in different regions of the affected tissue and at different time intervals. In order to study such heterogeneity in the immune cell microenvironment, a murine model of muscle necrosis based on the injection of the venom of Daboia russelii was used.

2023-03-07 | GSE222977 | GEO

A complex pattern of gene expression in tissue affected by viperid snake envenoming: the emerging role of autophagy-related genes

Project description:Cellular and inflammatory events were evaluated in mouse muscle after snake venoms Daboia russelii and Bothrops asper injection over time. A murine model of muscle necrosis based on venom injection was used to investigate up to 800 genes involved in fibrosis diseases and tissue regeneration using the multiplex RNA panel Fibrosis V2 from NanoString technology.

2024-03-21 | GSE248215 | GEO

Comparison of foliage of diploid potato clones 07506-01 and 12120-03

Project description:Verticillium dahliae Kleb., a soil-borne fungus that colonizes vascular tissues, induces wilting, chlorosis and early senescence in potato. Difference in senescence timing found in two diploid potato clones, 07506-01 and 12120-03, was studied and genetic variation in response to V. dahliae infection was identified as a causal factor. The clone, 07506-01, was infected with V. dahliae but did not develop symptoms, indicating tolerance to the pathogen. The other diploid clone, 12120-03 had low levels of pathogen with infection and moderate symptoms indicating partial resistance. 07506-01 was found to carry two susceptible alleles of the Ve2 gene and 12120-03 carried one Ve2 resistant and one susceptible allele. Infected leaves of the two clones were compared using gene expression profiling with the Potato Oligonucleotide Chip Initiative (POCI) microrarray. The results provide further evidence for differences in response of the two clones to infection with V. dahliae. Chlorophyll biosynthesis was higher in the tolerant 07506-01 compared to partially resistant 12120-03. On the other hand, expression of fungal defense genes, Ve resistance genes and defense phytohormone biosynthetic enzyme genes was decreased in 07506-01 compared to 12120-03 suggesting defense responses were suppressed in tolerance compared to resistance. Transcription factor gene expression differences pointed to the WRKY family as potential regulators of V. dahliae responses in potato.

2013-07-15 | GSE48881 | GEO

Proteome and peptidome of Vipera berus berus venom

Project description:Snake venom is a rich source of peptides and proteins with a wide range of actions. Many of the components of the venom are currently being tested for their usefulness in the treatment of many diseases ranging from neurological and cardiovascular to cancer. It is also important to constantly search for new proteins and peptides with properties not yet described. The venom of Vipera berus berus has hemolytic, proteolytic and cytotoxic properties, but its exact composition and the factors responsible for these properties are not known. Therefore, an attempt was made to identify proteins and peptides derived from this species venom by using high resolution two-dimensional electrophoresis and MALDI ToF/ToF mass spectrometry. A total of 11 protein classes have been identified mainly proteases but also L-amino acid oxidases, C-type lectin like proteins, cysteine-rich venom proteins and phospholipases A2 and 5 peptides of molecular weight less than 1500 Da. Most of the identified proteins are responsible for the highly hemotoxic properties of the venom. Presence of venom phospholipases A2 and L- amino acid oxidases cause moderate neuro-, myo- and cytotoxicity. All successfully identified peptides belong to the bradikinin-potentiating peptides family.

2016-12-12 | PXD004958 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data