Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Proteomes of the cold-adapted Baikal region amphipods exposed to heat shock

ABSTRACT: The proteomes of three amphipod species, a Holarctic species Gammarus lacustris and two Biakal species Eulimnogammarus verrucosus and Eulimnogammarus cyaneus, were received by LC-MS/MS with TMT-labeling. All animals were collected in August 2018. Before the exposition, animals were acclimated in 6C for 25 days. Three species of amphipods were exposed to heat stress (24.6 C for 24 h) and control temperature (6C for 24 h).

INSTRUMENT(S): Q Exactive

ORGANISM(S): Eulimnogammarus Verrucosus Gammarus Lacustris Eulimnogammarus Cyaneus

TISSUE(S): Whole Body

SUBMITTER: Polina Lipaeva

LAB HEAD: Till Luckenbach

PROVIDER: PXD031000 | Pride | 2024-02-15

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	Ecy_1_f1.raw	Raw
	Ecy_1_f2.raw	Raw
	Ecy_2_f1.raw	Raw
	Ecy_2_f2.raw	Raw
	Ecy_allSpectra.HCD.FTMS.iso_0.apl	Other

Items per page:

1 - 5 of 410

Publications

Cold-adapted amphipod species upon heat stress: Proteomic responses and their correlation with transcriptomic responses.

Lipaeva Polina P Karkossa Isabel I Bedulina Daria D Schubert Kristin K Luckenbach Till T

Comparative biochemistry and physiology. Part D, Genomics & proteomics 20221207

The cellular heat shock response (HSR) comprises transcriptomic and proteomic reactions to thermal stress. It was here addressed, how the proteomic, together with the transcriptomic HSR, relate to the thermal sensitivities of three cold-adapted but differently thermo-sensitive freshwater amphipod species. The proteomes of thermosensitive Eulimnogammarus verrucosus and thermotolerant Eulimnogammarus cyaneus, both endemic to Lake Baikal, and of thermotolerant Holarctic Gammarus lacustris were inve ...[more]

PMID: 36525778

Similar Datasets

De novo transcriptome assembly of the amphipod Echinogammarus marinus exposed to hypoxia following thermal acclimation

Project description:The transcriptome of the amphipod Echinogammarus marinus was sequenced after exposure to hypoxia following acclimation to different temperatures using 100BP paired-end Illumina HiSeq sequencing. Amphipods were acclimated to two temperatures, 10 or 20 °C, for one week before individuals were then acutely exposed to normoxic (80% air saturation) or hypoxic conditions (30% air saturation) at 10 °C (n = 5 per experimental treatment).

2019-09-22 | E-MTAB-8309 | biostudies-arrayexpress

Putative carotenoid-binding proteins from the hemolymph of endemic Lake Baikal amphipod Eulimnogammarus cyaneus and E. vittatus

Project description:Color is an important trait in nature, playing a role in selection and speciation. The most important colorants in crustaceans are carotenoids, which in complexes with carotenoid-binding proteins provide an astonishing variety of colors from red to violet. Over 350 species and subspecies of amphipods (Crustacea: Amphipoda) endemic to Lake Baikal exhibit an impressive variability of colors and coloration patterns. However, the mechanisms forming this diversity are underexplored. In this work, we analyze the coloration of two species of endemic Lake Baikal amphipods, Eulimnogammarus cyaneus and E. vittatus. These species are brightly colored and, even more importantly, characterized by intraspecific color variability. We showed that the color of either species strongly correlated with the abundance of two putative carotenoid-binding proteins (the relative abundance of these proteins was higher in blue or teal-colored animals than in the orange- or yellow-colored ones.). With LC-MS/MS, we were able to identifiy these proteins, which turned out to be similar to the pheromone/odorant-binding protein family.

2020-06-04 | PXD018516 | Pride

Transcription profiling of rat at pheochromocytoma cell line PC12 treated with trimethyltin at low and high doses

Project description:The rat pheochromocytoma cell line PC12 cells were cultured in complete DMEM till 80% confluence, then placed at 5000 cells per squared cm. Cells were then plated in 24-well plates for cell viability assay and in T75 flasks for RNA isolation. Medium was replaced with serum-free fresh medium for 12 hours prior to TMT treatment. Gene expression patterns were then analysed using Rat Expression Array 230A Experiment Overall Design: In this study we analize gene expression patterns in PC12 cells treated with Trimethyltin (TMT). We utilized control cells (untreated) and two different concentration (1 and 5) Experiment Overall Design: We used three biological replicates, for the three concentration tested, according to MIAME guidelines Experiment Overall Design: (total 9 chips were used in this study).

2009-04-29 | E-GEOD-5073 | biostudies-arrayexpress

Melita plumulosa toxicant response: What is contaminant mode of action?

Project description:The southeastern Australian epibenthic amphipod Melita plumulosa was exposed to eight different contaminants for 48 hours. RNA from exposed animals (10 individuals, pooled) was hybridised against reference RNA from unexposed animals. Each treatment was replicated 5 times. Alternate arrays were dye swapped. Data are presented (exposed/unexposed).

2013-07-11 | E-GEOD-48658 | biostudies-arrayexpress

Dissolved and particulate copper exposure induce differing gene expression profiles in a deposit feeding amphipod

Project description:The southeastern Australian epibenthic amphipod Melita plumulosa was exposed to copper via different routes of exposure for 48 hours. RNA from exposed animals (10 individuals, pooled) was hybridised against reference RNA from unexposed animals. Each treatment was replicated 5 times. Alternate arrays were dye swapped. Data are presented (exposed/ unexposed).

2013-08-10 | E-GEOD-49691 | biostudies-arrayexpress

RNA-Seq of three Antarctic invertebrates exposed to different rates of warming

Project description:We assembled de novo transcriptomes for three Antarctic invertebrate species: the limpet Nacella concinna (foot muscle tissue), the amphipod Paracerodocus miersii (body wall tissue) and the urchin Sterechinus neumayeri (coelomic fluid). Individuals (n = 5 per treatment) were sampled following exposure to different rates of warming: 1°C per hour, 1°C per day, 1°C per 3 days, or after acclimation to 2°C for 3 months. For longer term experiments (1°C per day, 1°C per 3 days and acclimation), control animals were sampled at both the start and end of the experiment to identify possible seasonal effects. For the shorter term experiment (1°C per hour) only one set of controls was needed.

2019-08-31 | E-MTAB-8241 | biostudies-arrayexpress

Expression Analysis of Trimethyltin Chlorides (TMT) Impact on Embryonic Development

Project description:Investigation of whole genome expression pattern of 60 and 72 hours post fertilization Danio Rerio embryos exposed to TMT and vehicle control Embryos were exposed to 10uM TMT or control from 48hpf to 60 or 72 hpf. Three replicates were collected for each time point. 40 embryos were pooled to comprise a replicate.

2011-03-23 | E-GEOD-28131 | biostudies-arrayexpress

Functional viromic screens uncover regulatory RNA elements

Project description:The number of sequenced viral genomes has surged recently, presenting an opportunity to understand viral diversity and uncover unknown regulatory mechanisms. Here we conducted a screening of 30,367 viral segments from 143 species representing 96 genera and 37 families. Using a library of viral segments in 3′ UTR, we identified hundreds of elements impacting RNA abundance, translation, and nucleocytoplasmic distribution. To illustrate the power of this approach, we investigated K5, an element conserved in kobuviruses, and found its potent ability to enhance mRNA stability and translation in various contexts, including adeno-associated viral vectors and synthetic mRNAs. Moreover, we identified a previously uncharacterized protein, ZCCHC2, as a critical host factor for K5. ZCCHC2 recruits the terminal nucleotidyl transferase TENT4 to elongate poly(A) tails with mixed sequences, delaying deadenylation. This study provides a unique resource for virus and RNA research and highlights the potential of the virosphere for biological discoveries.

2023-06-23 | PXD041296 | Pride

Melita plumulosa toxicant response: What is contaminant mode of action?

Project description:The southeastern Australian epibenthic amphipod Melita plumulosa was exposed to eight different contaminants for 48 hours.

2013-07-11 | GSE48658 | GEO

Proteomic response to heat shock in males and females of a Baikal endemic amphipod Eulimnogammarus cyaneus (Dyb. 1874) (Crustacea: Amphipoda)

Project description:In this project we aimed to establish a proteome-based pipeline for a non-model Baikal endemic amphipod species Eulimnogammarus cyaneus (Dybowsky, 1874). We used next-generation transcriptome sequencing to create a database for protein identification and investigated the proteome of E. cyaneus with LC-MS with particular emphasis on sexual dimorphism and response to acute thermal stress. We were able to characterize ca. 1000 protein groups and found male- and female-specific proteins, as well as proteins specific for thermal stress conditions.

2020-11-19 | PXD013237 | 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