Erratum: The ancient and widespread nature of the er-mitochondria encounter structure (Molecular Biology and Evolution (2013) 30:9 (2044-2049) DOI:10.1093/molbev/mst120);The ancient and widespread nature of the ER-mitochondria encounter structure

Molecular Biology and Evolution

Volumn 30, Issue 9, 2013, Pages 2044-2049

  Wideman, Jeremy G ^a,b   Gawryluk, Ryan M R ^c   Gray, Michael W ^c   Dacks, Joel B ^a  

^a UNIVERSITY OF ALBERTA   (Canada)

^b UNIVERSITY OF ALBERTA   (Canada)

^c DALHOUSIE UNIVERSITY   (Canada)

Author keywords

ER mitochondria contacts; ERMES complex; hydrogenosomes and mitosomes; organelle evolution

Indexed keywords

ACANTHAMOEBA CASTELLANII; ARTICLE; ENCEPHALITOZOON CUNICULI; ENDOPLASMIC RETICULUM; ENTAMOEBA HISTOLYTICA; EVOLUTION; GIARDIA LAMBLIA; MASS SPECTROMETRY; MITOCHONDRION; NONHUMAN;

ACANTHAMOEBA CASTELLANII; AMOEBOZOA; ANIMALIA; BACTERIA (MICROORGANISMS); EUKARYOTA; EXCAVATA; FUNGI;

EID: 84883233522     PISSN: 07374038     EISSN: 15371719     Source Type: Journal    
DOI: 10.1093/molbev/mst224     Document Type: Erratum

References (43)

1. Abascal F, Zardoya R, Posada D. 2005. ProtTest: selection of best-fid models of protein evolution. Bioinformatics 21:2104-6.
2. Adl SM, Simpson AG, Lane CE, et al. (25 co-authors). 2012. The revised classification of eukaryotes. J Eukaryot Microbiol. 59:429-493.
3. Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ. 1997. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25: 3389-3402.
4. Benchimol M, Johnson PJ, de Souza W. 1996. Morphogenesis of the hydrogenosome: an ultrastructural study. Biol Cell. 87:197-205.
5. Boldogh IR, Nowakowski DW, Yang HC, Chung H, Karmon S, Royes P, Pon LA. 2003. A protein complex containing Mdm10p, Mdm12p, and Mmm1p links mitochondrial membranes and DNA to the cytoskeleton-based segregation machinery. Mol Biol Cell. 14: 4618-4627.
6. Burger G, Gray MW, Forget L, Lang BF. 2013. Strikingly bacteria-like and gene-rich mitochondrial genomes throughout jakobid protists. Genome Biol Evol. 5:418-438.
7. Dagley MJ, Dolezal P, Likic VA, Smid O, Purcell AW, Buchanan SK, Tachezy J, Lithgow T. 2009. The protein import channel in the outer mitosomal membrane of Giardia intestinalis. Mol Biol Evol. 26:1941-1947.
8. Derelle R, Lang BF. 2012. Rooting the eukaryotic tree with mitochondrial and bacterial proteins. Mol Biol Evol. 29:1277-1289.
9. Edgar RC. 2004. MUSCLE: a multiple sequence alignment method with reduced time and space complexity. BMC Bioinformatics 19:113.
10. Flinner N, Schleiff E, Mirus O. 2012. Identification of two voltagedependent anion channel-like protein sequences conserved in Kinetoplastida. Biol Lett. 8:446-449.
11. Gawryluk RM, Chisholm KA, Pinto DM, Gray MW. 2012. Composition of the mitochondrial electron transport chain in Acanthamoeba castellanii: structural and evolutionary insights. Biochim Biophys Acta. 1817:2027-2037.
12. Gill EE, Diaz-Trivino S, Barbera MJ, Silberman JD, Stechmann A, Gaston D, Tamas I, Roger AJ. 2007. Novel mitochondriaon-related organelles in the anaerobic amoeba Mastigamoeba balamuthi. Mol Microbiol. 66:1306-1320.
13. Guindon S, Gascuel O. 2003. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol. 52: 696-704.
14. Hampl V, Silberman JD, Stechmann A, Diaz-Trivino S, Johnson PJ, Roger AJ. 2008. Genetic evidence for a mitochondriate ancestry in the "amitochondriate" flagellate Trimastix pyriformis. PLoS One 3(1):e1383.
15. Hayashi T, Rizzuto R, Hajnoczky G, Su TP. 2009. MAM: more than just a housekeeper. Trends Cell Biol. 19:81-88.
16. Helle SC, Kanfer G, Kolar K, Lang A, Michel AH, Kornmann B. 2013. Organization and function of membrane contact sites. Biochim Biophys Acta. doi:10.1016/j.bbamcr.2013.01.028.
17. Katz LA, Grant JR, Parfrey LW, Burleigh JG. 2012. Turning the crown upside down: gene tree parsimony roots the eukaryotic tree of life. Syst Biol. 61:653-660.
18. Kim E, Simpson AG, Graham LE. 2006. Evolutionary relationships of apusomonads inferred from taxon-rich analyses of 6 nuclear encoded genes. Mol Biol Evol. 23:2455-2466.
19. Kopec KO, Alva V, Lupas AN. 2010. Homology of SMP domains to the TULIP superfamily of lipid-binding proteins provides a structural basis for lipid exchange between ER and mitochondria. Bioinformatics 26:1927-1931.
20. Kornmann B, Currie E, Collins SR, Schuldiner M, Nunnari J, Weissman JS, Walter P. 2009. An ER-mitochondria tethering complex revealed by a synthetic biology screen. Science 325:477-481.
21. Kornmann B, Osman C, Walter P. 2011. The conserved GTPase Gem1 regulates endoplasmic reticulum-mitochondria connections. Proc Natl Acad Sci USA. 108:14151-14156.
22. Lackey SW, Wideman JG, Kennedy EK, Go NE, Nargang FE. 2011. The Neurospora crassa TOB complex: analysis of the topology and function of Tob38 and Tob37. PLoS One 6:e25650.
23. Meisinger C, Pfannschmidt S, Rissler M, et al. (12 co-authors). 2007. The morphology proteins Mdm12/Mmm1 function in the major beta-barrel assembly pathway of mitochondria. EMBO J. 26: 2229-2239.
24. Meisinger C, Rissler M, Chacinska A, et al. (13 co-authors). 2004. The mitochondrial morphology protein Mdm10 functions in assembly of the preprotein translocase of the outer membrane. Dev Cell. 7: 61-71.
25. Murley A, Lackner LL, Osman C,WestM, Voeltz GK, Walter P, Nunnari J. 2013. ER-associated mitochondrial division links the distribution of mitochondria and mitochondrial DNA in yeast. Elife 2:e00422.
26. Niemann M, Wiese S, Mani J, Chanfon A, Jackson C, Meisinger C, Warscheid B, Schneider A. 2013. Mitochondrial outer membrane proteome of Trypanosoma brucei reveals novel factors required to maintain mitochondrial morphology. Mol Cell Proteomics. 12: 515-528.
27. Nguyen TT, Lewandowska A, Choi JY, Markgraf DF, Junker M, Bilgin M, Ejsing CS, Voelker DR, Rapoport TA, Shaw JM. 2012. Gem1 and ERMES do not directly affect phosphatidylserine transport from ER to mitochondria or mitochondrial inheritance. Traffic 13:880-890.
28. Pusnik M, Charriere F, Maser P, Waller RF, Dagley MJ, Lithgow T, Schneider A. 2009. The single mitochondrial porin of Trypanosoma brucei is the main metabolite transporter in the outer mitochondrial membrane. Mol Biol Evol. 26:671-680.
29. Pusnik M, Schmidt O, Perry AJ, Oeljeklaus S, Niemann M, Warscheid B, Lithgow T, Meisinger C, Schneider A. 2011. Mitochondrial preprotein translocase of trypanosomatids has a bacterial origin. Curr Biol. 21:1738-1743.
30. Rada P, Dolezal P, Jedelsky PL, et al. (12 co-authors). 2011. The core components of organelle biogenesis and membrane transport in the hydrogenosomes of Trichomonas vaginalis. PLoS One 6:e24428.
31. Raturi A, Simmen T. 2013. Where the endoplasmic reticulum and the mitochondrion tie the knot: the mitochondria-associated membrane (MAM). Biochim Biophys Acta. 1833:213-224.
32. Roger AJ, Simpson AG. 2009. Evolution: revisiting the root of the eukaryote tree. Curr Biol. 19:R165-R167.
33. Rogozin IB, Basu MK, Csuros M, Koonin EV. 2009. Analysis of rare genomic changes does not support the unikont-bikont phylogeny and suggests cyanobacterial symbiosis as the point of primary radiation of eukaryotes. Genome Biol Evol. 1:99-113.
34. Ronquist F, Huelsenbeck JP. 2003. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19:1572-1574.
35. Schneider RE, BrownMT, Shiflett AM, Dyall SD, Hayes RD, Xie Y, Loo JA, Johnson PJ. 2011. The Trichomonas vaginalis hydrogenosome proteome is highly reduced relative to mitochondria, yet complex compared with mitosomes. Int J Parasitol. 41:1421-1434.
36. Stamatakis A. 2006. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22:2688-2690.
37. Stroud DA, Oeljeklaus S, Wiese S, Bohnert M, Lewandrowski U, Sickmann A, Guiard B, van der Laan M, Warscheid B, Wiedemann N. 2011. Composition and topology of the endoplasmic reticulum-mitochondria encounter structure. J Mol Biol. 413: 743-750.
38. Takashita K, Kolisko M, Komatsuzaki H, et al. (11 co-authors). 2012. Multigene phylogenies of diverse Carpediemonas-like organisms identify the closest relatives of "amitochondriate" diplomonads and retortamonads. Protist 163:344-355.
39. Vlahou G, Elias M, von Kleist-Retzow JC, Wiesner RJ, Rivero F. 2011. The Ras related GTPase Miro is not required for mitochondrial transport in Dictyostelium discoideum. Eur J Cell Biol. 90: 342-355.
40. Voss C, Lahiri S, Young BP, Loewen CJ, Prinz WA. 2012. ER-shaping proteins facilitate lipid exchange between the ER and mitochondria in S. cerevisiae. J Cell Sci. 125:4791-4799.
41. Waller RF, Jabbour C, Chan NC, Celik N, Likic VA, Mulhern TD, Lithgow T. 2009. Evidence of a reduced and modified mitochondrial protein import apparatus in microsporidian mitosomes. Eukaryot Cell. 8: 19-26.
42. Wideman JG, Go NE, Klein A, Redmond E, Lackey SW, Tao T, Kalbacher H, Rapaport D, Neupert W, Nargang FE. 2010. Roles of the Mdm10, Tom7, Mdm12, and Mmm1 proteins in the assembly of mitochondrial outer membrane proteins in Neurospora crassa. Mol Biol Cell. 21:1725-1736.
43. Zhao S, Burki F, Brate J, Keeling PJ, Klaveness D, Shalchian-Tabrizi K. 2012. Collodictyon-an ancient lineage in the tree of eukaryotes. Mol Biol Evol. 29:1557-1556.