Biochemical dissection of the mitochondrial proteome from Arabidopsis thaliana by three-dimensional gel electrophoresis.
Wolf Werhahn,Hans-Peter Braun +1 more
TLDR
A subdivision of the mitochondrial proteome into defined sets of proteins is reported, which is based on the combination of three different gel electrophoresis procedures, which allows the separation of isoforms of subunits forming part of protein complexes.Abstract:
We report a subdivision of the mitochondrial proteome into defined sets of proteins, which is based on the combination of three different gel electrophoresis procedures. First, Blue-native polyacrylamide gel electrophoresis is employed to separate mitochondrial protein complexes. The protein complexes are electroeluted and completely detached from Coomasssie blue. Subsequently the subunits of the protein complexes are separated by isoelectric focusing and finally by sodium dodecyl sulfate (SDS)-polyacrylamide gel electrophoresis. The resolution capacity of the procedure is demonstrated for the ATP synthase complex, the cytochrome c reductase complex and the preprotein translocase of the outer mitochondrial membrane (the TOM complex). The method allows the separation of isoforms of subunits forming part of protein complexes, whose occurrence seems to be rather a rule than an exception in higher eukaryotes. Furthermore, extremely hydrophobic proteins are detectable on the gels.read more
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Blue native PAGE
TL;DR: This protocol describes methodology to perform BN-PAGE followed by (i) native extraction or native electroblotting of separated proteins, or (ii) a second dimension of tricine-SDS-PA GE or modified BN, followed by a third dimension of isoelectric focusing (IEF) for the separation of subunits of complexes.
Journal Article
Phytoremediation : 植物による環境/土壌浄化
TL;DR: This work found significant variation in Arabidopsis thaliana ecotypes in accumulation and tolerance of Pb, and screened ethyl methanesulfonate-mutagenized M2 populations and identified several Pb-accumulating mutants.
Journal ArticleDOI
Experimental Analysis of the Arabidopsis Mitochondrial Proteome Highlights Signaling and Regulatory Components, Provides Assessment of Targeting Prediction Programs, and Indicates Plant-Specific Mitochondrial Proteins
Joshua L. Heazlewood,Julian Tonti-Filippini,Alexander M. Gout,David A. Day,James Whelan,A. Harvey Millar +5 more
TL;DR: Maps of putative orthology networks between yeast, human, and Arabidopsis mitochondrial proteomes and the Rickettsia prowazekii proteome provide detailed insights into the divergence of the plant mitochondrial proteome from those of other eukaryotes.
Journal ArticleDOI
Organization and regulation of mitochondrial respiration in plants.
TL;DR: Recent advances in understanding of the mitochondrial respiratory machinery of cells are described, including the presence of a classical oxidative phosphorylation system linked to the cytosol by transporters discussed alongside nonphosphorylating bypasses that alter the efficiency of ATP synthesis and play a role in oxidative stress responses in plants.
Journal ArticleDOI
Reversible glutathionylation of complex I increases mitochondrial superoxide formation
TL;DR: This mechanism of reversible mitochondrial ROS production suggests how mitochondria might regulate redox signaling and shows how oxidation of the mitochondrial glutathione pool could contribute to the pathological changes that occur to mitochondria during oxidative stress.
References
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TL;DR: The results of an international collaboration to produce and make freely available a draft sequence of the human genome are reported and an initial analysis is presented, describing some of the insights that can be gleaned from the sequence.
Journal ArticleDOI
The sequence of the human genome.
J. Craig Venter,Mark Raymond Adams,Eugene W. Myers,Peter W. Li,Richard J. Mural,Granger G. Sutton,Hamilton O. Smith,Mark Yandell,Cheryl A. Evans,Robert A. Holt,Jeannine D. Gocayne,Peter Amanatides,Richard M. Ballew,Daniel H. Huson,Jennifer R. Wortman,Qing Zhang,Chinnappa D. Kodira,Xiangqun H. Zheng,Lin Chen,Marian P. Skupski,Gangadharan Subramanian,Paul Thomas,Jinghui Zhang,George L. Gabor Miklos,Catherine R. Nelson,Samuel Broder,Andrew G. Clark,J. H. Nadeau,Victor A. McKusick,Norton D. Zinder,Arnold J. Levine,Richard J. Roberts,M. I. Simon,Carolyn W. Slayman,Michael W. Hunkapiller,Randall Bolanos,Arthur L. Delcher,Ian M. Dew,Daniel Fasulo,Michael Flanigan,Liliana Florea,Aaron L. Halpern,Sridhar Hannenhalli,Saul A. Kravitz,Samuel Levy,Clark M. Mobarry,Knut Reinert,Karin A. Remington,Jane Abu-Threideh,Ellen M. Beasley,Kendra Biddick,Vivien Bonazzi,Rhonda Brandon,Michele Cargill,Ishwar Chandramouliswaran,Rosane Charlab,Kabir Chaturvedi,Zuoming Deng,Valentina Di Francesco,Patrick Dunn,Karen Eilbeck,Carlos Evangelista,Andrei Gabrielian,Weiniu Gan,Wangmao Ge,Fangcheng Gong,Zhiping Gu,Ping Guan,Thomas J. Heiman,Maureen E. Higgins,Rui-Ru Ji,Zhaoxi Ke,Karen A. Ketchum,Zhongwu Lai,Yiding Lei,Zhenya Li,Jiayin Li,Yong Liang,Xiaoying Lin,Fu Lu,Gennady V. Merkulov,Natalia Milshina,Helen M. Moore,Ashwinikumar K Naik,Vaibhav A. Narayan,Beena Neelam,Deborah Nusskern,Douglas B. Rusch,Steven L. Salzberg,Wei Shao,Bixiong Chris Shue,Jingtao Sun,Zhen Yuan Wang,Aihui Wang,Xin Wang,Jian Wang,Ming-Hui Wei,Ron Wides,Chunlin Xiao,Chunhua Yan,Alison Yao,Jane Ye,Ming Zhan,Weiqing Zhang,Hongyu Zhang,Qi Zhao,Liansheng Zheng,Fei Zhong,Wenyan Zhong,Shiaoping C. Zhu,Shaying Zhao,Dennis A. Gilbert,Suzanna Baumhueter,Gene Spier,Christine Carter,Anibal Cravchik,Trevor Woodage,Feroze Ali,Huijin An,Aderonke Awe,Danita Baldwin,Holly Baden,Mary Barnstead,Ian Barrow,Karen Beeson,Dana A. Busam,Amy Carver,Ming Lai Cheng,Liz Curry,Steve Danaher,Lionel Davenport,Raymond Desilets,Susanne Dietz,Kristina Dodson,Lisa Doup,Steven Ferriera,Neha Garg,Andres Gluecksmann,Brit J. Hart,Jason Haynes,Charles Haynes,Cheryl Heiner,Suzanne Hladun,Damon Hostin,Jarrett Houck,Timothy Howland,Chinyere Ibegwam,Jeffery Johnson,Francis Kalush,Lesley Kline,Shashi Koduru,Amy Love,Felecia Mann,David May,Steven McCawley,Tina C. McIntosh,Ivy McMullen,Mee Moy,Linda Moy,Brian Murphy,Keith Nelson,Cynthia Pfannkoch,Eric Pratts,Vinita Puri,Hina Qureshi,Matthew Reardon,Robert Rodriguez,Yu-Hui Rogers,Deanna Romblad,Bob Ruhfel,Richard T. Scott,Cynthia Sitter,Michelle Smallwood,Erin Stewart,Renee Strong,Ellen Suh,Reginald Thomas,Ni Ni Tint,Sukyee Tse,Claire Vech,Gary Wang,Jeremy Wetter,Sherita Williams,Monica Williams,Sandra Windsor,Emily Winn-Deen,Keriellen Wolfe,Jayshree Zaveri,Karena Zaveri,Josep F. Abril,Roderic Guigó,Michael J. Campbell,Kimmen Sjölander,Brian Karlak,Anish Kejariwal,Huaiyu Mi,Betty Lazareva,Thomas Hatton,Apurva Narechania,Karen Diemer,Anushya Muruganujan,Nan Guo,Shinji Sato,Vineet Bafna,Sorin Istrail,Ross Lippert,Russell Schwartz,Brian P. Walenz,Shibu Yooseph,David Allen,Anand Basu,James Baxendale,Louis Blick,Marcelo Caminha,John Carnes-Stine,Parris Caulk,Yen-Hui Chiang,My Coyne,Carl Dahlke,Anne Deslattes Mays,Maria Dombroski,Michael Donnelly,Dale Ely,Shiva Esparham,Carl Fosler,Harold Gire,Stephen Glanowski,Kenneth Glasser,Anna Glodek,Mark Gorokhov,Ken Graham,Barry Gropman,Michael Harris,Jeremy Heil,Scott Henderson,Jeffrey Hoover,Donald Jennings,Catherine Jordan,James Jordan,John Kasha,Leonid Kagan,Cheryl L. Kraft,Alexander Levitsky,Mark Lewis,Xiangjun Liu,John Lopez,Daniel Ma,William H. Majoros,Joe McDaniel,Sean C. Murphy,Matthew Newman,Trung Hieu Nguyen,Ngoc Nguyen,Marc Nodell,Sue Pan,Jim Peck,Marshall Peterson,William Rowe,Robert Sanders,John Scott,Michael Simpson,Thomas J. Smith,Arlan Sprague,Timothy B. Stockwell,Russell Turner,Eli Venter,Mei Wang,Meiyuan Wen,David Wu,Mitchell Wu,Ashley Xia,Ali Zandieh,Xiaohong Zhu +272 more
TL;DR: Comparative genomic analysis indicates vertebrate expansions of genes associated with neuronal function, with tissue-specific developmental regulation, and with the hemostasis and immune systems are indicated.
Journal ArticleDOI
Tricine-sodium dodecyl sulfate-polyacrylamide gel electrophoresis for the separation of proteins in the range from 1 to 100 kDa.
H. Schägger,G. von Jagow +1 more
TL;DR: A discontinuous sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) system for the separation of proteins in the range from 1 to 100 kDa is described, and the omission of glycine and urea prevents disturbances which might occur in the course of subsequent amino acid sequencing.
Journal ArticleDOI
Analysis of the genome sequence of the flowering plant Arabidopsis thaliana.
TL;DR: This is the first complete genome sequence of a plant and provides the foundations for more comprehensive comparison of conserved processes in all eukaryotes, identifying a wide range of plant-specific gene functions and establishing rapid systematic ways to identify genes for crop improvement.
Journal ArticleDOI
The genome sequence of Drosophila melanogaster
Mark Raymond Adams,Susan E. Celniker,Robert A. Holt,Cheryl A. Evans,Jeannine D. Gocayne,Peter Amanatides,Steve Scherer,Peter W. Li,Roger A. Hoskins,R. Galle,Reed A. George,Suzanna E. Lewis,Stephen Richards,Michael Ashburner,Scott Henderson,Granger G. Sutton,Jennifer R. Wortman,Mark Yandell,Qing Zhang,Lin Chen,Rhonda C. Brandon,Yu-Hui Rogers,R. Blazej,Mark Champe,Barret D. Pfeiffer,Kenneth H. Wan,Colleen Doyle,E. G. Baxter,Gregg Helt,Catherine R. Nelson,G. L. Gabor Miklos,Josep F. Abril,A. Agbayani,Huijin An,C. Andrews-Pfannkoch,Danita Baldwin,Richard M. Ballew,Anand Basu,James Baxendale,Leyla Bayraktaroglu,Ellen M. Beasley,Karen Beeson,Panayiotis V. Benos,Benjamin P. Berman,D. Bhandari,Slava Bolshakov,Dana Borkova,Michael R. Botchan,John Bouck,Peter Brokstein,Philippe Brottier,Kenneth C. Burtis,Dana A. Busam,Heather Butler,Edouard Cadieu,I. Chandra,J. Michael Cherry,Simon Cawley,Carl Dahlke,Lionel Davenport,P. Davies,B. de Pablos,Arthur L. Delcher,Zuoming Deng,A. Deslattes Mays,Ian M. Dew,Susanne Dietz,Kristina Dodson,Lisa Doup,Michael Downes,Shannon Dugan-Rocha,B. C. Dunkov,Patrick J. Dunn,K. J. Durbin,Carlos Evangelista,Concepcion Ferraz,Steven Ferriera,Wolfgang Fleischmann,Carl Fosler,Andrei Gabrielian,Neha Garg,William M. Gelbart,Kenneth Glasser,A. Glodek,Fangcheng Gong,J. Harley Gorrell,Zhiping Gu,Ping Guan,Michael Harris,Nomi L. Harris,Damon A. Harvey,Thomas J. Heiman,Judith Hernandez,Jarrett Houck,Damon Hostin,K. Houston,Timothy Howland,Ming-Hui Wei,Chinyere Ibegwam,M. Jalali,Francis Kalush,Gary H. Karpen,Zhaoxi Ke,James A. Kennison,K. A. Ketchum,B. E. Kimmel,Chinnappa D. Kodira,Cheryl L. Kraft,Saul A. Kravitz,David Kulp,Zhongwu Lai,Paul Lasko,Yiding Lei,Alexander Levitsky,Jun Li,Zhenya Li,Yunye Liang,Xiaoying Lin,Xiangjun Liu,B. Mattei,Tina C. McIntosh,Michael P. McLeod,D. McPherson,Gennady V. Merkulov,Natalia Milshina,Clark M. Mobarry,J. Morris,A. Moshrefi,Stephen M. Mount,Mee Moy,Brian Murphy,Lee Murphy,Donna M. Muzny,David L. Nelson,David R. Nelson,Keith Nelson,K. Nixon,Deborah R. Nusskern,Joanne Pacleb,Michael J. Palazzolo,G. S. Pittman,Sue Pan,J. Pollard,Vinita Puri,Martin G. Reese,Knut Reinert,Karin A. Remington,Robert D. C. Saunders,Robert D. C. Saunders,F. Scheeler,H. Shen,B. Christopher Shue,Inga Siden-Kiamos,Michael Simpson,Marian P. Skupski,Thomas J. Smith,Eugene G. Spier,Allan C. Spradling,Mark Stapleton,Renee Strong,E. Sun,Robert Svirskas,C. Tector,Russell Turner,Eli Venter,Aihui Wang,Xianyuan Wang,Zhen Yuan Wang,David A. Wassarman,George M. Weinstock,Jean Weissenbach,Sherita Williams,Trevor Woodage,Kim C. Worley,D. Wu,Shih-Hung Yang,Q. Alison Yao,Jane Ye,R. F. Yeh,Jayshree Zaveri,Ming Zhan,Gefei Zhang,Qi Zhao,Liansheng Zheng,Xiangqun Zheng,Fei Zhong,Wenyan Zhong,X. Zhou,Shiaoping C. Zhu,Xiancan Zhu,Hamilton O. Smith,Richard A. Gibbs,Eugene W. Myers,Gerald M. Rubin,J. Craig Venter +194 more
TL;DR: The nucleotide sequence of nearly all of the approximately 120-megabase euchromatic portion of the Drosophila genome is determined using a whole-genome shotgun sequencing strategy supported by extensive clone-based sequence and a high-quality bacterial artificial chromosome physical map.