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Record W2478374710 · doi:10.1093/biolreprod/81.s1.356

Effect of Culture Stress on Expression of RNA Binding Proteins and Target mRNAs in Mouse Embryos.

2009· article· en· W2478374710 on OpenAlexaffabout
Michele D. Calder, Patricia H. Watson, Andrew J. Watson

Bibliographic record

VenueBiology of Reproduction · 2009
Typearticle
Languageen
FieldBiochemistry, Genetics and Molecular Biology
TopicRNA Research and Splicing
Canadian institutionsWestern University
Fundersnot available
KeywordsBiologyEmbryoMolecular biologyMessenger RNAGene expressionCell cultureRNA-binding proteinp38 mitogen-activated protein kinasesCell biologyEmbryo cultureProtein biosynthesisBlastocystMAPK/ERK pathwayEmbryogenesisBiochemistryKinaseGeneGenetics

Abstract

fetched live from OpenAlex

RNA binding proteins (RBP) are expressed in mammalian cells and they affect storage, splicing, localization, adenylation, half-life and translation of mRNAs. Previously, we detected expression of ELAVL1, KHSRP and ZFP36 RBPs in mouse embryos by real-time PCR and immunofluorescence and showed abundance of two RBPs and one target mRNA were affected by culture. Generally, ELAVL1 increases expression of target mRNAs while KHSRP and ZFP36 decrease mRNA expression. Furthermore, all are known to be regulated by MAPK, especially p38. The roles of environmental stress and MAPKs in affecting RBP and target mRNA expression were investigated. Three potential ARE-containing targets were chosen based on the likelihood that their expression would be culture-responsive, GCLC (glutathione synthesis), SLC2A1 (GLUT-1, glucose transport) and CAT-1 (amino acid transport). We investigated two methods of inducing environmental stress: 1) hyperoxia (H, 20% O2) versus low oxygen (L, 5% O2); and 2) culturing embryos in a good culture medium, KSOMaa (K) versus a poor medium without amino acids, Whitten's (W), ± the p38 MAPK inhibitor, SB220025 (10 ìM) or 3) culture in K or W ± the ERK inhibitor U0126 (10 ìM). In expt 1, embryos were cultured from the 2 cell stage in KSOMaa under a 5% or 20% O2 atmosphere to approximately 96h post hCG, and only blastocysts were collected. In expts 2 and 3, embryos were cultured from 2-cell to blastocyst in KSOMaa in 5% O2, then embryos were washed twice and cultured in a) K; b) K + inhibitor, c) W; d) W + inhibitor for approximately 18h. Embryos were frozen, reverse transcribed with oligodT and used for real-time PCR. GCLC (P < 0.001) and CAT-1 mRNAs (P< 0.01) were expressed at higher levels in H vs. L medium, and there was a tendency towards higher expression of SLC2A1 in H than L (P < 0.065). In expt. 2, there were no significant differences due to media, but p38 MAPK inhibition caused expression of CAT-1 mRNA to be markedly reduced (P < .001). In experiment 3, GCLC mRNA was more highly expressed in W than K (P < 0.003), and there was a tendency towards higher expression of CAT-1 mRNA in W than K (P < 0.06) but no differences in the presence of the ERK inhibitor. Further experiments will examine the role of the JUNK/SAPK pathway and examine whether stress affects mRNA half-life. We have therefore identified a culture sensitive stress response pathway that mediates affects on transcript levels likely by affecting mRNA stability rather than transcription. Culture stress acting through the p38 MAPK pathway may influence embryonic mRNA transcript levels via RBP mediated mechanisms controlling target mRNA abundance. Variations in mRNAs levels observed in cultured embryos may therefore occur due to effects to mRNA stability and half-life in addition to transcriptional control mechanisms. Research support by the Natural Science and Engineering Council of Canada (NSERC). (poster)

Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.

How this classification was reachedexpand

Full frame machine prediction

Teacher imitation

Not calibrated prevalence, not ground truth. Human validation pending. The Gemma side is a direct model label for every work in the frame, read from the title-only record. The Codex side is a classifier learned from the 10,348 direct Codex labels and calibrated to design-weighted sample rates; fields without enough sample support carry no Codex call. Candidate is the union of the two sides; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels.

metaresearch head score (Codex)0.000
metaresearch head score (Gemma)0.000
Version: metacan-v3-hybrid-931329e0061cValidation status: machine_predicted_unvalidated
Candidate categoriesnone
Consensus categoriesnone
DomainCandidate signal: none · Consensus signal: none
Study designCandidate signal: Bench or experimental · Consensus signal: Bench or experimental
GenreCandidate signal: Empirical · Consensus signal: Empirical
Teacher disagreement score0.002
Threshold uncertainty score0.006

Distilled classifier scores by category (both heads)

CategoryCodexGemma
Metaresearch0.0000.000
Meta-epidemiology (narrow)0.0010.000
Meta-epidemiology (broad)0.0000.000
Bibliometrics0.0000.000
Science and technology studies0.0000.000
Scholarly communication0.0000.000
Open science0.0000.000
Research integrity0.0000.001
Insufficient payload (model declined to judge)0.0020.000

Machine scores (provisional)

The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.

Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.

Opus teacher head0.007
GPT teacher head0.278
Teacher spread0.271 · how far apart the two teachers sit on this one work
Validation statusscore_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from it

Classification

machine, unvalidated

Machine predicted; a candidate call from one source (direct Gemma or distilled Codex), not a consensus.

The models applied no category: nothing in the taxonomy fit this work.
Study designBench or experimental
Domainnot available
GenreEmpirical

How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".

Quick stats

Citations0
Published2009
Admission routes2
Has abstractyes

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