Investigating the N-terminal deletion in Mitochondrial Voltage-Dependent Anion Channels in Neurospora crassa
Bibliographic record
Abstract
The mitochondrial outer membrane consists of a class of porin –VDAC – that facilitate diffusion of small hydrophilic molecules across the outer membrane. VDAC proteins share a prominent property in which they display voltage-dependent conformational changes involved in gating when reconstituted into planar lipid bilayers (Benz 1994). The N-terminus of VDAC is the focus of this study, due to conflicting structural and electrophysiological results presented by Geula et al. 2012 and Teijido et al 2012. Thus, it proves essential to verify the N-terminus’s function and mobility in VDAC gating mechanism. The objective of this study is to determine the basis for the phenotypic differences seen in two generated Neurospora crassa strains (∆N2a, WS125.5) that originally had identical VDAC N-terminal deletions of amino acids 2-12. Qualitative and quantitative phenotypic analysis was conducted using race tubes; ∆N2a displayed growth rates at a midpoint between wild-type and WS125.5 growth rates, while WS125.5 displayed significantly reduced growth rates. Genomic DNA was extracted from both variants and sequenced using BigDye Termination 3.1, revealing the N-terminal deletion in ∆N2a. Sequences from WS125.5 failed to provide information regarding the N-terminal deletion in the strain due to incorrect annealing of primers. However, PCR analysis -- using predetermined primers -- of genomic segments of WS125.5 resulted in a double banding pattern -- a band that is characteristic for wild-type and a band characteristic for the strain. This indicates that WS125.5 is a heterokaryon; however, because it does not exhibit the wild type growth phenotype suggests that the N-terminal porin deletion is a dominant deletion.
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How this classification was reachedexpand
Full frame machine prediction
Teacher imitationNot 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.
Distilled classifier scores by category (both heads)
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.000 | 0.000 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.000 | 0.000 |
| Bibliometrics | 0.000 | 0.000 |
| Science and technology studies | 0.000 | 0.000 |
| Scholarly communication | 0.000 | 0.000 |
| Open science | 0.000 | 0.000 |
| Research integrity | 0.000 | 0.001 |
| Insufficient payload (model declined to judge) | 0.000 | 0.000 |
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.
score_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from itClassification
machine, unvalidatedMachine predicted; a candidate call from one source (direct Gemma or distilled Codex), not a consensus.
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".