ArticlePloS one2015
Whole cell formaldehyde cross-linking simplifies purification of mitochondrial nucleoids and associated proteins involved in mitochondrial gene expression.
Article in PloS one, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed, 42 citations in OpenAlex.
- Molecular Kaleidoscope of Nucleoid-Associated Proteins Regulatory Network and Chromosome Architecture in Mycobacterium Tuberculosis.Current microbiology · 2026Review
- Uncharacterized protein C17orf80 - a novel interactor of human mitochondrial nucleoids.Journal of cell science · 2023Article
- 35 Years of TFAM Research: Old Protein, New Puzzles.Biology · 2023Review
- Methods to Study RNA-Chromatin Interactions.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Identification of Proximity Interactors of Mammalian Nucleoid Proteins by BioID.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Controlling the topology of mammalian mitochondrial DNA.Open biology · 2021Review
- RNA Granules in the Mitochondria and Their Organization under Mitochondrial Stresses.International journal of molecular sciences · 2021Review
- Mitochondrial functional resilience after TFAM ablation in the adult heart.American journal of physiology. Cell physiology · 2021Article
- POLRMT mutations impair mitochondrial transcription causing neurological disease.Nature communications · 2021Article
- A second hybrid-binding domain modulates the activity of Drosophila ribonuclease H1.Journal of biochemistry · 2020Article
- Mitochondrial HMG-Box Containing Proteins: From Biochemical Properties to the Roles in Human Diseases.Biomolecules · 2020Review
- Manipulating mtDNA in vivo reprograms metabolism via novel response mechanisms.PLoS genetics · 2019Article
- Organization of DNA in Mammalian Mitochondria.International journal of molecular sciences · 2019Review
- Mitochondrial RNA granules are critically dependent on mtDNA replication factors Twinkle and mtSSB.Nucleic acids research · 2019Article
- A Combined Mass Spectrometry and Data Integration Approach to Predict the Mitochondrial Poly(A) RNA Interacting Proteome.Frontiers in cell and developmental biology · 2019Article
- Mitochondrial DNA degradation: A quality control measure for mitochondrial genome maintenance and stress response.The Enzymes · 2019Review
- The role of Lon-mediated proteolysis in the dynamics of mitochondrial nucleic acid-protein complexes.Scientific reports · 2017Article
- Proximity Biotinylation as a Method for Mapping Proteins Associated with mtDNA in Living Cells.Cell chemical biology · 2017Article
- Mitochondrial Nucleoid: Shield and Switch of the Mitochondrial Genome.Oxidative medicine and cellular longevity · 2017Review
- Comparative proteomics ofPeerJ · 2017Article
Corrections and comments
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Authors and funding
6 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Mitochondrial DNA/protein complexes (nucleoids) appear as discrete entities inside the mitochondrial network when observed by live-cell imaging and immunofluorescence. This somewhat trivial observation in recent years has spurred research towards isolation of these complexes and the identification of nucleoid-associated proteins. Here we show that whole cell formaldehyde crosslinking combined with affinity purification and tandem mass-spectrometry provides a simple and reproducible method to identify potential nucleoid associated proteins. The method avoids spurious mitochondrial isolation and subsequent multifarious nucleoid enrichment protocols and can be implemented to allow for label-free quantification (LFQ) by mass-spectrometry. Using expression of a Flag-tagged Twinkle helicase and appropriate controls we show that this method identifies many previously identified nucleoid associated proteins. Using LFQ to compare HEK293 cells with and without mtDNA, but both expressing Twinkle-FLAG, identifies many proteins that are reduced or absent in the absence of mtDNA. This set not only includes established mtDNA maintenance proteins but also many proteins involved in mitochondrial RNA metabolism and translation and therefore represents what can be considered an mtDNA gene expression proteome. Our data provides a very valuable resource for both basic mitochondrial researchers as well as clinical geneticists working to identify novel disease genes on the basis of exome sequence data.
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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.