Dataset Information

Differential proteome of C. elegans strains expressing human β2-microglobulin

ABSTRACT: The expression of human β2-m affects the proteomic and metabolic profiles of nematodes

INSTRUMENT(S): Q Exactive HF

ORGANISM(S): Caenorhabditis Elegans

SUBMITTER: Paola Nocerino

LAB HEAD: Paola Nocerino

PROVIDER: PXD040230 | Pride | 2024-01-26

REPOSITORIES: Pride

ACCESS DATA

Dataset's files

Source:

			Action	DRS
	20210629_Sample1black_CPV_D76N_B2Mworms_repl1.raw	Raw
	20210629_Sample1black_CPV_D76N_B2Mworms_repl2.raw	Raw
	20210629_Sample1black_CPV_D76N_B2Mworms_repl3.raw	Raw
	20210629_Sample1red_CTRworms_repl1_20210630151046.raw	Raw
	20210629_Sample1red_CTRworms_repl2.raw	Raw

Items per page:

1 - 5 of 39

Publications

Human wild-type and D76N β2-microglobulin variants are significant proteotoxic and metabolic stressors for transgenic C. elegans.

Raimondi Sara S Faravelli Giulia G Nocerino Paola P Mondani Valentina V Baruffaldi Alma A Marchese Loredana L Mimmi Maria Chiara MC Canetti Diana D Verona Guglielmo G Caterino Marianna M Ruoppolo Margherita M Mangione P Patrizia PP Bellotti Vittorio V Lavatelli Francesca F Giorgetti Sofia S

FASEB bioAdvances 20231025 11

β2-microglobulin (β2-m) is a plasma protein derived from physiological shedding of the class I major histocompatibility complex (MHCI), causing human systemic amyloidosis either due to persistently high concentrations of the wild-type (WT) protein in hemodialyzed patients, or in presence of mutations, such as D76N β2-m, which favor protein deposition in the adulthood, despite normal plasma levels. Here we describe a new transgenic Caenorhabditis elegans (C. el ...[more]

PMID: 37936921

Similar Datasets

Project description:The two major methods for growing C. elegans are liquid and plate culture. Differences in oxygenation and other environmental variables could affect many experimentally relevant biological processes, such as metabolism, cellular structure, and gene regulation. Worms on solid support move with deliberate sinusoidal movements, while worms in liquid thrash rapidly and almost constantly, often appearing elongated. We investigated differential gene expression under these two commonly used growth conditions. Embryos were isolated from adults grown on plates. After hatching, animals were placed either on plates or in liquid under standard conditions, and grown until young adulthood, approximately 48 hours later. RNA was isolated independently from each growth, differentially labeled with a fluorescent dye, and mixed directly for comparative hybridization to NimbleGen DNA microarrays, which contained probes designed to measure expression from all predicted C. elegans coding genes. The experiment was performed in triplicate. Analysis of the expression data yielded surprisingly few genes with differential expression, about 1%. Overall, 176 genes were downregulated significantly (p<0.01; Student's t) in liquid culture relative to plates, but of these only 102 genes were down two-fold or more. A total of 121 genes were upregulated (p<0.01. Student's t) in liquid; of these, RNA corresponding to 50 increased by at least two-fold. Surprisingly few genes directly associated with a stress response were differentially regulated in this experiment. However, the single gene most strongly upregulated in liquid is nnt-1, which encodes a mitochondrial NADP transhydrogenase, which protects against oxidative stress (Arkbladt et al., 2005 PMID: 15890626). Other molecules associated with reducing oxidation are also upregulated in liquid culture, including thioredoxin, and two glutathione-S-transferases. As a class, however, the group of genes most differentially regulated encode collagens. A total of 12 collagen genes were downregulated in liquid culture relative to plates, while none are upregulated. Other genes affected include those encoding proteins involved in ubiquitin-mediated proteolysis, Ras signaling, transcriptional regulation, ribosome function, and multiple membrane-associated proteins. The limited changes in relative RNA levels under different culture conditions provide increased confidence in comparisons made between worms grown in liquid and solid culture, and more generally between datasets obtained in different labs under slightly different culture conditions. Knowing which genes are most responsive to different culture conditions inform us about how environment affects the animal, and should be of interest for comparison to other stress and longevity global datasets. Total RNA was extracted from young adult hermaphrodite C. elegans grown either in s-basal liquid cultures or nematode growth medium plates under standard conditions.

Dataset Information

Differential proteome of C. elegans strains expressing human β2-microglobulin

Dataset's files

Publications

Human wild-type and D76N β<sub>2</sub>-microglobulin variants are significant proteotoxic and metabolic stressors for transgenic <i>C. elegans</i>.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets

Dataset Information

Differential proteome of C. elegans strains expressing human β2-microglobulin

Dataset's files

Publications

Human wild-type and D76N β&lt;sub&gt;2&lt;/sub&gt;-microglobulin variants are significant proteotoxic and metabolic stressors for transgenic &lt;i&gt;C. elegans&lt;/i&gt;.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets

Human wild-type and D76N β<sub>2</sub>-microglobulin variants are significant proteotoxic and metabolic stressors for transgenic <i>C. elegans</i>.