Evidence map›Paper›PMID 31981894›Full record

ArticleRedox biology2020

Codon optimization is an essential parameter for the efficient allotopic expression of mtDNA genes.

Caitlin J Lewis, Bhavna Dixit, Elizabeth Batiuk, Carter J Hall, Matthew S O'Connor, Amutha Boominathan

Open access · goldAbstract read
In one paragraph

Article in Redox biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.

0numbers the graph read from it
0cells of the map it votes in
14citing papers in PubMed
0.8field-weighted citation impact, top 29% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

14 citing papers in PubMed, 18 citations in OpenAlex.

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  6. Exogenous expression of ATP8, a mitochondrial encoded protein, from the nucleusMolecular therapy. Methods & clinical development · 2024
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors at 1 institution in 1 country.

Caitlin J LewisDepartment of Mitochondrial Research, SENS Research Foundation, Mountain View, CA, 94041, USA.
Bhavna DixitDepartment of Mitochondrial Research, SENS Research Foundation, Mountain View, CA, 94041, USA.
Elizabeth BatiukDepartment of Mitochondrial Research, SENS Research Foundation, Mountain View, CA, 94041, USA.
Carter J HallDepartment of Mitochondrial Research, SENS Research Foundation, Mountain View, CA, 94041, USA.
Matthew S O'ConnorDepartment of Mitochondrial Research, SENS Research Foundation, Mountain View, CA, 94041, USA. Electronic address: matthew.oconnor@sens.org.
Amutha BoominathanDepartment of Mitochondrial Research, SENS Research Foundation, Mountain View, CA, 94041, USA. Electronic address: amutha.boominathan@sens.org.
SENS Research Foundation · US

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Mutations in mitochondrial DNA can be inherited or occur de novo leading to several debilitating myopathies with no curative option and few or no effective treatments. Allotopic expression of recoded mitochondrial genes from the nucleus has potential as a gene therapy strategy for such conditions, however progress in this field has been hampered by technical challenges. Here we employed codon optimization as a tool to re-engineer the protein-coding genes of the human mitochondrial genome for robust, efficient expression from the nucleus. All 13 codon-optimized constructs exhibited substantially higher protein expression than minimally-recoded genes when expressed transiently, and steady-state mRNA levels for optimized gene constructs were 5-180 fold enriched over recoded versions in stably-selected wildtype cells. Eight of thirteen mitochondria-encoded oxidative phosphorylation (OxPhos) proteins maintained protein expression following stable selection, with mitochondrial localization of expression products. We also assessed the utility of this strategy in rescuing mitochondrial disease cell models and found the rescue capacity of allotopic expression constructs to be gene specific. Allotopic expression of codon optimized ATP8 in disease models could restore protein levels and respiratory function, however, rescue of the pathogenic phenotype for another gene, ND1 was only partially successful. These results imply that though codon-optimization alone is not sufficient for functional allotopic expression of most mitochondrial genes, it is an essential consideration in their design.

Indexed as

MutationAnimalsCodon UsageComputational BiologyDNA, MitochondrialGene ExpressionHEK293 CellsHumansMiceMitochondriaMitochondrial DiseasesMitochondrial ProteinsMitochondrial Proton-Translocating ATPasesModels, BiologicalNADH DehydrogenaseDNA, MitochondrialMitochondrial ProteinsMitochondrial Proton-Translocating ATPasesNADH DehydrogenaseNADH dehydrogenase subunit 1, humanAllotopic expressionATP synthaseCodon optimizationGene therapyGene transferMitochondrial diseaseMitochondrial DNA (mtDNA)Mitochondrial respiratory chain complexProtein expression

Identifiers

PMID31981894
PMCPMC6976934
OpenAlexW2999808833

What OpenQuestion holds

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LicenceCC BY-NC-ND
Read underepoch 390

Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.