The mitochondrial proteome: from inventory to function

Mitochondria are central to cellular energetics, metabolism, and signaling. In this issue, Pagliarini et al. (2008) report the largest compendium of mammalian mitochondrial proteins to date. Together with proteomic studies in yeast, this study represents an important step toward the systematic characterization of the mitochondrial proteome and of mitochondrial diseases.     

The effect of using an inappropriate protein database for proteomic data analysis

A recent study by Bromenshenk et al., published in PLoS One (2010), used proteomic analysis to identify peptides purportedly of Iridovirus and Nosema origin; however the validity of this finding is controversial. We show here through re-analysis of a subset of this data that many of the spectra identified by Bromenshenk et al. as deriving from Iridovirus and Nosema proteins are actually products from Apis mellifera honey bee proteins. We find no reliable evidence that proteins from Iridovirus and Nosema are present in the samples that were re-analyzed. This article is also intended as a learning exercise for illustrating some of the potential pitfalls of analysis of mass spectrometry proteomic data and to encourage authors to observe MS/MS data reporting guidelines that would facilitate recognition of analysis problems during the review process.     

A comparative proteomic analysis of human and rat embryonic cerebrospinal fluid

During vertebrate central nervous system development, the apical neuroepithelium is bathed with embryonic Cerebrospinal Fluid (e-CSF) which plays regulatory roles in cortical cell proliferation and maintenance. Here, we report the first proteomic analysis of human e-CSF and compare it to an extensive proteomic analysis of rat e-CSF. As expected, we identified a large collection of protease inhibitors, extracellular matrix proteins, and transport proteins in CSF. However, we also found a surprising suite of signaling and intracellular proteins not predicted by previous proteomic analysis. Some of the intracellular proteins are likely to represent the contents of microvesicles recently described within the CSF (Marzesco, A. M., et al. J. Cell Sci. 2005, 118 (Pt. 13), 2849-2858). Defining the rich composition of e-CSF will enable a greater understanding of its concerted actions during critical stages of brain development.     

The mitochondrial pyruvate carrier: has it been unearthed at last?

The mitochondrial pyruvate carrier (MPC) is essential for several major pathways of carbohydrate, fat, and amino acid metabolism, yet its molecular identity has remained elusive. Two recent papers in Science (Herzig et?al., 2012; Bricker et?al., 2012) implicate three newly identified inner mitochondrial membrane proteins as MPC components.     

In this issue: Proteomics 7/2008

In this issue of Proteomics you will find the following highlighted articles: Modified amino peptides step out of line, reveal identity In thriller movies and spy stories, you can often tell which character is a bad guy if his “confession” changes under pressure or depends on the inquisitor. Likewise for peptides with modifications. Staes et al. use a similar technique to find α‐amino blocked peptides. After chromatography of a digest over a C₁₈ reverse phase column, fractions were treated with TNBS and re‐chromatographed on the same column, under the same conditions. The peptides that had trypsin‐exposed amino groups became much more hydrophobic in the second round because of the addition of the TNBS. The technique (COFRADIC) was also improved by preceding the C₁₈ column by use of a strong cation exchange for fractionation and using a kit for removal of any pyrrolidone carboxylic acid termini from peptides. The revised protocol raised the yield of true amino termini from 60% to 95%. Staes, A. et al., Proteomics 2008, 8, 1362–1370. Decrypting Cryptosporidium parvum: Proteome data revealed by triple analysis As hikers in North America and normal people in many parts of the world know, Cryptosporidium parvum is a protozoan parasite that causes an unpleasant intestinal infection in humans. It also infects livestock species, which leads to widespread waterborne transmission unless effective water treatment is employed. When the oocytes enter the gastrointestinal tract, they are stimulated to undergo excystation, releasing four sporozoites that enter the epithelial cells. There they undergo asexual reproduction and begin a complex series of steps before reproduction is complete and oocytes are released. Although the genome has been completely sequenced, many of the proteins predicted did not have recognizable functions. Sanderson et al. used a tissue culture system of excystation to collect enough sporozoites for proteomic analysis by MuDPIT and LC‐MS/MS after (a) 2‐DE and (b) 1‐DE. Over 1200 unique proteins were identified, representing >30% of the predicted organism proteome, >200 of which had transmembrane domains. Sanderson, S. J. et al., Proteomics 2008, 8, 1398–1414. Oxidized proteins in serum: Inside job or outside contractor? Reactive oxygen species (ROS) seem to be involved in a variety of diseases, including Alzheimer's, Parkinson's, cancer and heart disease. Searches for biomarkers for these diseases have most commonly been done in blood plasma, which contains proteins from essentially every cell type and tissue in the organism. Mirzaei et al. explore questions of cause and effect in rat plasma by trapping ROS‐caused carbonylation points with biotin hydrazide, followed by avidin affinity chromatography and proteomic analysis (LC‐MS/MS). Of 146 proteins identified in four rats, 44 had at least one carbonylation site and 38 had two or more sites. Over 30% of the proteins were membrane proteins, suggesting a major source of ROS was external, a hypothesis supported by the observation that mitochondrial proteins are not affected, despite their proximity to endogenous ROS. On the other hand, 13% were nuclear proteins. Another surprise: virtually no (2%) plasma proteins were found. Mirzaei, H. et al., Proteomics 2008, 8, 1516–1527.     

Cover Picture: Proteomics 7/2008

In this issue of Proteomics you will find the following highlighted articles: Modified amino peptides step out of line, reveal identity In thriller movies and spy stories, you can often tell which character is a bad guy if his “confession” changes under pressure or depends on the inquisitor. Likewise for peptides with modifications. Staes et al. use a similar technique to find α‐amino blocked peptides. After chromatography of a digest over a C₁₈ reverse phase column, fractions were treated with TNBS and re‐chromatographed on the same column, under the same conditions. The peptides that had trypsin‐exposed amino groups became much more hydrophobic in the second round because of the addition of the TNBS. The technique (COFRADIC) was also improved by preceding the C₁₈ column by use of a strong cation exchange for fractionation and using a kit for removal of any pyrrolidone carboxylic acid termini from peptides. The revised protocol raised the yield of true amino termini from 60% to 95%. Staes, A. et al., Proteomics 2008, 8, 1362–1370. Decrypting Cryptosporidium parvum: Proteome data revealed by triple analysis As hikers in North America and normal people in many parts of the world know, Cryptosporidium parvum is a protozoan parasite that causes an unpleasant intestinal infection in humans. It also infects livestock species, which leads to widespread waterborne transmission unless effective water treatment is employed. When the oocytes enter the gastrointestinal tract, they are stimulated to undergo excystation, releasing four sporozoites that enter the epithelial cells. There they undergo asexual reproduction and begin a complex series of steps before reproduction is complete and oocytes are released. Although the genome has been completely sequenced, many of the proteins predicted did not have recognizable functions. Sanderson et al. used a tissue culture system of excystation to collect enough sporozoites for proteomic analysis by MuDPIT and LC‐MS/MS after (a) 2‐DE and (b) 1‐DE. Over 1200 unique proteins were identified, representing >30% of the predicted organism proteome, >200 of which had transmembrane domains. Sanderson, S. J. et al., Proteomics 2008, 8, 1398–1414. Oxidized proteins in serum: Inside job or outside contractor? Reactive oxygen species (ROS) seem to be involved in a variety of diseases, including Alzheimer's, Parkinson's, cancer and heart disease. Searches for biomarkers for these diseases have most commonly been done in blood plasma, which contains proteins from essentially every cell type and tissue in the organism. Mirzaei et al. explore questions of cause and effect in rat plasma by trapping ROS‐caused carbonylation points with biotin hydrazide, followed by avidin affinity chromatography and proteomic analysis (LC‐MS/MS). Of 146 proteins identified in four rats, 44 had at least one carbonylation site and 38 had two or more sites. Over 30% of the proteins were membrane proteins, suggesting a major source of ROS was external, a hypothesis supported by the observation that mitochondrial proteins are not affected, despite their proximity to endogenous ROS. On the other hand, 13% were nuclear proteins. Another surprise: virtually no (2%) plasma proteins were found. Mirzaei, H. et al., Proteomics 2008, 8, 1516–1527.     

INTERMEDIATE CLEAVAGE PEPTIDASE55 Modifies Enzyme Amino Termini and Alters Protein Stability in Arabidopsis Mitochondria

Precursor proteins containing mitochondrial peptide signals are cleaved after import by a mitochondrial processing peptidase. In yeast (Saccharomyces cerevisiae) and human (Homo sapiens), INTERMEDIATE CLEAVAGE PEPTIDASE55 (ICP55) plays a role in stabilizing mitochondrial proteins by the removal of single amino acids from mitochondrial processing peptidase-processed proteins. We have investigated the role of a metallopeptidase (At1g09300) from Arabidopsis (Arabidopsis thaliana) that has sequence similarity to yeast ICP55. We identified this protein in mitochondria by mass spectrometry and have studied its function in a transfer DNA insertion line (icp55). Monitoring of amino-terminal peptides showed that Arabidopsis ICP55 was responsible for the removal of single amino acids, and its action explained the −3 arginine processing motif of a number of mitochondrial proteins. ICP55 also removed single amino acids from mitochondrial proteins known to be cleaved at nonconserved arginine sites, a subset of mitochondrial proteins specific to plants. Faster mitochondrial protein degradation rates not only for ICP55 cleaved protein but also for some non-ICP55 cleaved proteins were observed in Arabidopsis mitochondrial samples isolated from icp55 than from the wild type, indicating that a complicated protease degradation network has been affected. The lower protein stability of isolated mitochondria and the lack of processing of target proteins in icp55 were complemented by transformation with the full-length ICP55. Analysis of in vitro degradation rates and protein turnover rates in vivo of specific proteins indicated that serine hydroxymethyltransferase was affected in icp55. The maturation of serine hydroxymethyltransferase by ICP55 is unusual, as it involves breaking an amino-terminal diserine that is not known as an ICP55 substrate in other organisms and that is typically considered a sequence that stabilizes rather than destabilizes a protein.Plant mitochondria provide energy production through respiration. Most mitochondrial proteins responsible for the machinery of respiration and metabolism are synthesized in the cytosol and imported into mitochondria. After import, N-terminal presequences containing targeting signals are cleaved from many proteins by the mitochondrial processing peptidase (MPP; Sjoling and Glaser, 1998; Zhang and Glaser, 2002), and the mitochondrial presequences themselves are then degraded by presequence peptidases (Ståhl et al., 2002; Moberg et al., 2003; Bhushan et al., 2005) and oligopeptidase (Kmiec et al., 2013). The specificity of the MPP cutting sites has been analyzed by comparison of the experimentally determined N-terminal sequences of mature proteins with the amino acid sequences of the precursor proteins. From this analysis, the most frequently observed MPP cleavage sites are referred to as −2 from an Arg (the −2R cleavage group) and −3 from an Arg (the −3R cleavage group) within the presequence (Zhang et al., 2001; Huang et al., 2009). However, despite the clear presence of both groups in experimental data, the −3R motif did not fit the high-resolution structure of MPP, which revealed −2R as the only probable cleavage site (Taylor et al., 2001). In yeast (Saccharomyces cerevisiae), there are also a group of mitochondrial proteins with a −10R motif that are now known to be first cleaved by MPP and then by OCTAPEPTIDYL AMINOPEPTIDASE1 (Oct1; Isaya et al., 1991; Vögtle et al., 2011). In plants, a group of mitochondrial proteins with nonconserved Arg cleavage sites has been reported (Huang et al., 2009). For many years, it has remained unclear why mitochondrial proteins from plants and yeast differed in the cleavage motif and what other proteases might be involved in these processes in plants.The identification of INTERMEDIATE CLEAVAGE PEPTIDASE55 (P40005.1) in yeast mitochondria solved the long-standing problem of apparent −2R and −3R cleavage sites by MPP (Vögtle et al., 2009). In yeast, ICP55 removes one residue from the mature protein after cleavage by MPP, leading to the Arg residue in the presequence being −3 from the position of the final N terminus of the mature protein. Therefore, the −3R group of proteins undergo a two-step cleavage, first by MPP and then a single amino acid removal by ICP55. In yeast, ICP55 cleaves exclusively after a Tyr, Leu, or Phe, leaving the first residue of the mature protein to typically be Ser, Ala, or Thr (Vögtle et al., 2009). Our analysis of plant mitochondrial presequence cleavage motifs indicated that the major −3R group (55%–58%) in Arabidopsis (Arabidopsis thaliana) and rice (Oryza sativa; Huang et al., 2009) had a very similar motif to that cleaved by ICP55 in yeast (Vögtle et al., 2009). ICP55 belongs to the M24 metallopeptidase peptidase family and is critical for mitochondrial protein stability in yeast (Vögtle et al., 2009). The stability, abundance, and turnover of mitochondrial proteins in yeast are also determined by other mitochondrial proteases (Brandner et al., 2005). Plant mitochondria also contain many other proteases, such as filamentation temperature sensitive H protein, long undivided filaments protein, caseinolytic protease, and degradation of periplasmic protein classes (Gibala et al., 2009; Rigas et al., 2009; Kmiec et al., 2012; Kwasniak et al., 2012; Solheim et al., 2012). Metallopeptidase and other protease classes could be part of a complex network controlling protein stability and, thus, the rate of protein turnover in plant mitochondria (van Wijk, 2015).We have compiled lists of Arabidopsis mitochondrial proteins using organelle isolation, fractionation, and proteomic analysis (Heazlewood et al., 2004; Taylor et al., 2011). Our in-depth analysis of mitochondrial matrix proteins has identified a protein with unknown function encoded by the gene At1g09300. This protein has some similarity to yeast ICP55 ({"type":"entrez-protein","attrs":{"text":"P40051.1","term_id":"731481","term_text":"P40051.1"}}P40051.1) and has been suggested to be an ICP55-like protein in plants based on sequence comparisons (Kwasniak et al., 2012). In this study, we have examined the role of this ICP55-like protein (At1g09300) in the cleavage of plant mitochondrial proteins using peptide mass spectrometry (MS) to compare the wild type with a transfer DNA (T-DNA) insertion line, icp55. The plant mitochondrial ICP55-like protein is not only responsible for −3R group protein cleavage, as observed in yeast, but also the cleavage of non-R group proteins that are only found in plant mitochondria, to our knowledge. The lack of ICP55 alters mitochondrial protein stability, as indicated by an analysis of protein degradation rates in isolated mitochondria. We also show that serine hydromethyltransferase (SHMT) is processed by ICP55, a degradation product of SHMT is stabilized in vitro in the absence of ICP55, and SHMT turns over more rapidly in vivo in icp55. The maturation of SHMT by cleavage of a diserine represents a new substrate class for ICP55 and appears to destabilize rather than stabilize this enzyme.     

Proteomics of mitochondrial inner and outer membranes

For the proteomic study of mitochondrial membranes, documented high quality mitochondrial preparations are a necessity to ensure proper localization. Despite the state-of-the-art technologies currently in use, there is no single technique that can be used for all studies of mitochondrial membrane proteins. Herein, we use examples to highlight solubilization techniques, different chromatographic methods, and developments in gel electrophoresis for proteomic analysis of mitochondrial membrane proteins. Blue-native gel electrophoresis has been successful not only for dissection of the inner membrane oxidative phosphorylation system, but also for the components of the outer membrane such as those involved in protein import. Identification of PTMs such as phosphorylation, acetylation, and nitration of mitochondrial membrane proteins has been greatly improved by the use of affinity techniques. However, understanding of the biological effect of these modifications is an area for further exploration. The rapid development of proteomic methods for both identification and quantitation, especially for modifications, will greatly impact the understanding of the mitochondrial membrane proteome.     

Gazing at translocation in the mitochondrion

Most mitochondrial proteins are synthesized in the cytosol and imported into the mitochondrion via molecular machines called translocons on the outer and inner mitochondrial membranes. Alder et al. (2008b) examine protein translocation into intact mitochondria by adapting fluorescent techniques first used to study translocation in the endoplasmic reticulum.     

In this issue: Proteomics 8/2008

In this issue of Proteomics you will find the following highlighted articles: Have a heart (mitochondrial) proteome Is a rose always a rose? How clean is clean? Is a proteome always a proteome? Such deep questions to ponder. Zhang et al. don't just ponder, they attack the last two questions. Taking meticulous care to prepare clean mouse cardiac mitochondria, they identify almost a thousand proteins from the functionally and morphologically validated organelle. Half of the proteins had not been previously identified. Functional clusters include the expected and the “under‐appreciated” – proteolysis, protein folding, apoptosis and redox signaling. A close association with rough ER could not be disrupted without damage to the outer mitochondrial membrane. Immunocytological localization of many of the proteins revealed roles in other sites as well, including ER, cytoplasm, and Golgi. Comparative analysis of published mitochondrial proteomes from different tissues suggests that the proteomes are functionally adapted to their particular milieu. A mitochondrion (heart) is not a mitochondrion (liver). Zhang, J. et al., Proteomics 2008, 8, 1564–1575. Ibuprofen: split personality complicates proteome analyses Ibuprofen is one of those two‐fisted drugs that comes in an S form and an R form. The S form of this nonsteroidal anti‐inflammatory drug (NSAID) is the only active one, in this case. Normally sold over the counter for general aches and pains in the US, statistical analysis of its regular users has found it associated with a reduced incidence of Alzheimer's disease. Following up on this lead, Zhang et al. performed proteomic analysis of the effect of the R and S forms and their mixture on neuroblastoma cells. From three replicates, 167 proteins were identified as being quantitatively shifted. A total of 13 were unique. Functionally, they included representatives from metabolic enzymes (5), signaling (6), and cytoskeleton (2). Of interest for the Alzheimer's association was the reduced levels of reactive oxygen species (ROS), probably linked to levels of peroxiredoxins 2 and 6 in ibuprofen S‐treated cells. Zhang, J. et al., Proteomics 2008, 8, 1595–1607. Not your usual marine bacterium Rhodopirellula baltica is a member of the Planctomycetes phylum. These bacteria exhibit a proteinaceous cell wall, budding cell division, and intracellular compartments. From genome sequencing, it has >7300 ORFs. Analyzing the soluble proteins over the range of pH 3–10 by 2‐D PAGE, using narrow range pH gradient gels, nHPLC‐MS, and 1‐D SDS‐PAGE, Hieu et al. added 709 proteins to the proteins identified previously to bring the total identified to 1267, 17% of the predicted total ORFs. Gel‐free analysis (multiple dimension LC‐MS) yielded 145 proteins not seen in gel‐based methods. Both 1‐D and gel‐free methods were used for identification of cell wall and ribosomal proteins. Ninety three proteins were identified in the cell wall proteome and 13 extracellular proteins. No support was found for the hypothesis that R. baltica fed on sinking dead “marine snow” organisms by secreting proteases. Hieu, C. X. et al., Proteomics 2008, 8, 1608–1623.     

Proteomic fingerprinting for the diagnosis of human African trypanosomiasis

Papadopoulos et al. recently reported the discovery of a diagnostic serum proteomic signature for human African trypanosomiasis (HAT), using a combination of surface-enhanced laser desorption-ionization time-of-flight (SELDI-TOF) mass spectrometry and data-mining algorithms. This novel approach, coupled with biochemical characterization of the proteins that contribute to the signature, provides powerful new tools for the development of improved diagnostic tests, disease staging and identification of potential novel drug targets in HAT.     

Quantitative proteomic comparison of rat mitochondria from muscle, heart, and liver

Mitochondria, through oxidative phosphorylation, are the primary source of energy production in all tissues under aerobic conditions. Although critical to life, energy production is not the only function of mitochondria, and the composition of this organelle is tailored to meet the specific needs of each cell type. As an organelle, the mitochondrion has been a popular subject for proteomic analysis, but quantitative proteomic methods have yet to be applied to tease apart subtle differences among mitochondria from different tissues or muscle types. Here we used mass spectrometry-based proteomics to analyze mitochondrial proteins extracted from rat skeletal muscle, heart, and liver tissues. Based on 689 proteins identified with high confidence, mitochondria from the different tissues are qualitatively quite similar. However, striking differences emerged from the quantitative comparison of protein abundance between the tissues. Furthermore we applied similar methods to analyze mitochondrial matrix and intermembrane space proteins extracted from the same mitochondrial source, providing evidence for the submitochondrial localization of a number of proteins in skeletal muscle and liver. Several proteins not previously thought to reside in mitochondria were identified, and their presence in this organelle was confirmed by protein correlation profiling. Hierarchical clustering of microarray expression data provided further evidence that some of the novel mitochondrial candidates identified in the proteomic survey might be associated with mitochondria. These data reveal several important distinctions between mitochondrial and submitochondrial proteomes from skeletal muscle, heart, and liver tissue sources. Indeed approximately one-third of the proteins identified in the soluble fractions are associated predominantly to one of the three tissues, indicating a tissue-dependent regulation of mitochondrial proteins. Furthermore a small percentage of the mitochondrial proteome is unique to each tissue.     

Proteomic analysis and in vitro developmental toxicity tests for mechanism-based safety evaluation of chemicals

Mechanism-based safety evaluation and reduction of animal use are important issues in recent developmental toxicology. In vitro developmental toxicity tests with proteomic analysis are the most promising solution to these issues. Groebe et al. systematically applied proteomic analysis to the embryonic stem cell test, a validated in vitro developmental toxicity test, and found protein-expression changes induced by model test chemicals selected from various categories of toxicity. Cluster analysis of all the proteins with expression changes classified the test chemicals into two groups: highly embryotoxic chemicals and non- or weakly embryotoxic chemicals. In addition, some protein biomarker candidates that were known to be involved in normal development were identified. Although further mechanistic investigations are needed, the use of in vitro developmental toxicity tests with proteomic analysis will contribute to mechanism-based safety evaluation with minimal use of animals.     

Cover Picture: Proteomics 8/2008

In this issue of Proteomics you will find the following highlighted articles: Have a heart (mitochondrial) proteome Is a rose always a rose? How clean is clean? Is a proteome always a proteome? Such deep questions to ponder. Zhang et al. don't just ponder, they attack the last two questions. Taking meticulous care to prepare clean mouse cardiac mitochondria, they identify almost a thousand proteins from the functionally and morphologically validated organelle. Half of the proteins had not been previously identified. Functional clusters include the expected and the “under‐appreciated” – proteolysis, protein folding, apoptosis and redox signaling. A close association with rough ER could not be disrupted without damage to the outer mitochondrial membrane. Immunocytological localization of many of the proteins revealed roles in other sites as well, including ER, cytoplasm, and Golgi. Comparative analysis of published mitochondrial proteomes from different tissues suggests that the proteomes are functionally adapted to their particular milieu. A mitochondrion (heart) is not a mitochondrion (liver). Zhang, J. et al., Proteomics 2008, 8, 1564–1575. Ibuprofen: split personality complicates proteome analyses Ibuprofen is one of those two‐fisted drugs that comes in an S form and an R form. The S form of this nonsteroidal anti‐inflammatory drug (NSAID) is the only active one, in this case. Normally sold over the counter for general aches and pains in the US, statistical analysis of its regular users has found it associated with a reduced incidence of Alzheimer's disease. Following up on this lead, Zhang et al. performed proteomic analysis of the effect of the R and S forms and their mixture on neuroblastoma cells. From three replicates, 167 proteins were identified as being quantitatively shifted. A total of 13 were unique. Functionally, they included representatives from metabolic enzymes (5), signaling (6), and cytoskeleton (2). Of interest for the Alzheimer's association was the reduced levels of reactive oxygen species (ROS), probably linked to levels of peroxiredoxins 2 and 6 in ibuprofen S‐treated cells. Zhang, J. et al., Proteomics 2008, 8, 1595–1607. Not your usual marine bacterium Rhodopirellula baltica is a member of the Planctomycetes phylum. These bacteria exhibit a proteinaceous cell wall, budding cell division, and intracellular compartments. From genome sequencing, it has >7300 ORFs. Analyzing the soluble proteins over the range of pH 3–10 by 2‐D PAGE, using narrow range pH gradient gels, nHPLC‐MS, and 1‐D SDS‐PAGE, Hieu et al. added 709 proteins to the proteins identified previously to bring the total identified to 1267, 17% of the predicted total ORFs. Gel‐free analysis (multiple dimension LC‐MS) yielded 145 proteins not seen in gel‐based methods. Both 1‐D and gel‐free methods were used for identification of cell wall and ribosomal proteins. Ninety three proteins were identified in the cell wall proteome and 13 extracellular proteins. No support was found for the hypothesis that R. baltica fed on sinking dead “marine snow” organisms by secreting proteases. Hieu, C. X. et al., Proteomics 2008, 8, 1608–1623.     

The special delivery of a tail-anchored protein: why it pays to use a dedicated courier

The membrane-spanning C-terminal regions in tail-anchored proteins must be recognized and delivered posttranslationally to the endoplasmic reticulum or mitochondrial membrane. A paper in this issue of Molecular Cell (Wang et?al., 2010) and another recent report (Mariappan et?al., 2010) delineate early steps in this pathway.     

Traveling Bax and forth from mitochondria to control apoptosis

Antiapoptotic Bcl-2 proteins on mitochondria inhibit prodeath proteins, such as Bax, which are found primarily in the cytosol. In this issue, Edlich et al., (2011) show that Bax and Bcl-xL interact on the mitochondrial surface and then retrotranslocate to the cytosol, effectively preventing Bax-induced permeabilization of mitochondria.     

PINK1 and Parkin flag Miro to direct mitochondrial traffic

The Parkinson's disease proteins PINK1 and Parkin are proposed guardians of mitochondrial fidelity, targeting damaged mitochondria for degradation by mitophagy. In this issue of Cell, Wang et al. (2011) now show that PINK1 and Parkin also regulate mitochondrial trafficking and quarantine damaged mitochondria by severing their connection to the microtubule network.