157

As of January 18, 2005

Carl Anderson Brookhaven National Laboratory cwa@bnl.gov

Gordon Anderson Pacific Northwest National Laboratory gordon@pnnl.gov

Adam Arkin Lawrence Berkeley National Laboratory aparkin@lbl.gov

Holly Baden-Tillson J. Craig Venter Institute HBaden-Tillson@venterinstitute.org

Ray Bair Argonne National Laboratory bair@mcs.anl.gov

Kristin Balder-Froid Lawrence Berkeley National Laboratory KHBalder-Froid@lbl.gov

Duhee Bang University of Chicago duhee@uchicago.edu

Gang Bao Georgia Institute of Technology / Emory University gang.bao@bme.gatech.edu

Christian Barnes J. Craig Venter Institute cbarnes@venterinstitute.org

Paul Bayer U.S. Department of Energy paul.bayer@science.doe.gov

Jane BearingerLawrence Livermore National Laboratorybearinger1@llnl.gov

Appendix 1: Attendees

David Beck University of Washington dacb@u.washington.edu

Alexander Beliaev Pacific Northwest National Laboratory alex.beliaev@pnl.gov

Andrea BelgranoNational Center for Genome Resourcesab@ncgr.org

Harvey Bolton Pacific Northwest National Laboratory harvey.bolton@pnl.gov

Jennifer Bownas Oak Ridge National Laboratory bownasjl@ornl.gov

Timothy Boyle Sandia National Laboratories tjboyle@Sandia.gov

Andrew Bradbury Los Alamos National Laboratory amb@lanl.gov

James Brainard Los Alamos National Laboratory jbrainard@lanl.gov

Joseph BreenNational Institutes of Healthjbreen@niaid.nih.gov

David Bruce DOE Joint Genome Institute / Los Alamos National Laboratory dbruce@lanl.gov

James Bruce Washington State University james_bruce@wsu.edu

Attendees

158

Erick Butzlaff University of Wisconsin admiralexe@yahoo.com

Denise Casey Oak Ridge National Laboratory caseydk@ornl.gov

Parag Chitnis National Science Foundation pchitnis@nsf.gov

Paul Choi Harvard University pjchoi@fas.harvard.edu

Ray-Yuan Chuang J. Craig Venter Institute rchuang@venterinstitute.org

Bruce Church Gene Network Sciences kelly@gnsbiotech.com

George ChurchHarvard University / Massachusetts Institute of Technologyg1m1c1@arep.med.harvard.edu

Dean ColeU.S. Department of Energydean.cole@science.doe.gov

Frank CollartArgonne National Laboratoryfcollart@anl.gov

Michael ColvinUniversity of California, Mercedmcolvin@ucmerced.edu

Sean ConlanWadsworth Institutesconlan@wadsworth.org

Maddalena CoppiUniversity of Massachusetts, Amherstmcoppi@microbio.umass.edu

Robert CoyneNational Science Foundationrcoyne@nsf.gov

Paul CrozierSandia National Laboratoriespscrozi@sandia.gov

Barbara CullitonGenome News Networkbjculliton@erols.com

Patrik D’haeseleerLawrence Livermore National Laboratorydhaeseleer2@llnl.gov

Sacha De CarloUniversity of California, Berkeleysachadecarlo@yahoo.com

Anjali DhimanGene Network Scienceskelly@gnsbiotech.com

Timothy DonohueUniversity of Wisconsin, Madisontdonohue@bact.wisc.edu

Norman DovichiUniversity of Washingtondovichi@chem.washington.edu

Kenneth DowningLawrence Berkeley National Laboratorykhdowning@lbl.gov

Daniel DrellU.S. Department of Energydaniel.drell@science.doe.gov

Leland EllisDepartment of Homeland Securityleland.ellis@dhs.gov

Larry FelserGene Network Scienceskelly@gnsbiotech.com

Attendees

159

Matthew FieldsMiami Universityfieldsmw@muohio.edu

Peg FoltaLawrence Livermore National Laboratoryfolta2@llnl.gov

Marvin FrazierJ. Craig Venter Institutemfrazier@venterinstitute.org

James K. FredricksonPacific Northwest National Laboratorytara.hoyem@pnl.gov

Haichun GaoOak Ridge National Laboratoryhai@ornl.gov

Timothy GardnerBoston Universitytgardner@bu.edu

George GarrityMichigan State Universitygarrity@msu.edu

Sara GaucherSandia National Laboratoriesspgauch@sandia.gov

Al GeistOak Ridge National Laboratorygst@ornl.gov

Damian GesslerNational Center for Genome Resourcesddg@ncgr.org

Daniel GibsonJ. Craig Venter Institutedgibson@venterinstitute.org

Carol GiomettiArgonne National Laboratorycsgiometti@anl.gov

Maria GiovanniNational Institutes of Healthmgiovanni@niaid.nih.gov

Stephen GiovannoniOregon State Universitysteve.giovannoni@oregonstate.edu

John GlassJ. Craig Venter Institutejohn.glass@venterinstitute.org

Peter GoodNational Institutes of Healthgoodp@mail.nih.gov

Yuri GorbyPacific Northwest National Laboratoryyuri.gorby@pnl.gov

Andrey GorinOak Ridge National Laboratoryagor@ornl.gov

Patrick GrantLawrence Livermore National Laboratorypggrant@llnl.gov

Chris GunterNaturec.gunter@naturedc.com

David HaalandSandia National Laboratoriesdmhaala@sandia.gov

Masood HadiSandia National Laboratoriesmzhadi@sandia.gov

Qiang HeOak Ridge National Laboratoryheq1@ornl.gov

Grant HeffelfingerSandia National Laboratoriesgsheffe@sandia.gov

Attendees

160

Robert HettichOak Ridge National Laboratoryhettichrl@ornl.gov

Peter HighnamNational Institutes of HealthHighnam@NIH.gov

Roland HirschU.S. Department of Energyroland.hirsch@science.doe.gov

Dawn HolmesUniversity of Massachusetts, Amherstdholmes@microbio.umass.edu

Norman HommesOregon State Universityhommesn@onid.orst.edu

Brian HookerPacific Northwest National Laboratorybrian.hooker@pnl.gov

John HoughtonU.S. Department of Energyjohn.houghton@science.doe.gov

Greg HurstOak Ridge National Laboratoryhurstgb@ornl.gov

Thomas HuserLawrence Livermore National Laboratoryhuser1@llnl.gov

Clyde HutchisonJ. Craig Venter InstituteCHutchison@venterinsitutue.org

Prabha IyerJ. Craig Venter Institutepiyer@venterinstitute.com

Eric JakobssonUniversity of Illinois, Urbana-Champaignjake@ncsa.uiuc.edu

Barbara JasnyScience/AAASbjasny@aaas.org

Grant JensenCalifornia Institute of Technologyjensen@caltech.edu

Matthew KaneNational Science Foundationmkane@nsf.gov

Samuel KaplanUniversity of Texas Medical School, HoustonSamuel.Kaplan@uth.tmc.edu

Arthur KatzU.S. Department of Energyarthur.katz@science.doe.gov

Brian KayArgonne National Laboratorybkay@anl.gov

Jay KeaslingUniversity of California, Berkeleykeasling@berkeley.edu

Martin KellerDiversa Corporationmkeller@diversa.com

Stephen KennelOak Ridge National Laboratorykennelsj@ornl.gov

Vladimir KeryPacific Northwest National Laboratoryvladimir.kery@pnl.gov

Arnold KimUniversity of California, Mercedadkim@ucmerced.edu

William KimmerlyPacific Northwest National Laboratorywilliam.kimmerly@pnl.gov

Attendees

161

David KleinGener8, Inc.dklein@gener8.net

Michael KnotekConsultant to DOEm.knotek@verizon.net

Eugene KolkerBIATECHekolker@biatech.org

David KoppenaalPacific Northwest National Laboratorydavid.koppenaal@pnl.gov

Henrietta KulagaIPTOhkulaga@snap.org

Stephen LaneLawrence Livermore National Laboratorylane12@llnl.gov

Jennie LarkinNational Institutes of Healthlarkinj2@nhlbi.nih.gov

Carole LartigueJ. Craig Venter Instituteclartigue@venterinstitute.org

Charles LawrenceBrown UniversityCharles_Lawrence@Brown.edu

Philip LeDucCarnegie Mellon Universityprleduc@cmu.edu

Adam LeeUniversity of Marylandadamlee@umd.edu

Kyriacos LeptosHarvard Medical Schoolleptos@fas.harvard.edu

Huilin LiBrookhaven National Laboratoryhli@bnl.gov

Xiaoxia LinHarvard Medical Schoolxiaoxia@genetics.med.harvard.edu

Derek LovleyUniversity of Massachusettsdlovley@microbio.umass.edu

William MacConnellMacConnell Research Corporationbmacconnell@macconnell.com

Lee MakowskiArgonne National Laboratorylmakowski@anl.gov

Alexander MalkinLawrence Livermore National Laboratorymalkin1@llnl.gov

Reinhold MannOak Ridge National Laboratorymannrc@ornl.gov

Betty MansfieldOak Ridge National Laboratorymansfieldbk@ornl.gov

Roummel MarciaUniversity of Wisconsin, Madisonrmarcia@biochem.wisc.edu

Anthony MartinoSandia National Laboratoriesmartino@sandia.gov

Adam MartinyMassachusetts Institute of Technologymartiny@mit.edu

Mahir MarufJ. Craig Venter Institutemahir.maruf@venterinstitute.org

Attendees

162

M. Uljana Mayer-CumblidgePacific Northwest National Laboratoryuljana.mayer-cumblidge@pnl.gov

Harley McAdamsStanford Universityhmcadams@stanford.edu

Lee Ann McCueWadsworth Centermccue@wadsworth.org

Gail McLeanU.S. Department of Agriculturegmclean@csrees.usda.gov

Barbara MetheThe Institute for Genomic Researchbmethe@tigr.org

Lisa MillerBrookhaven National Laboratorylmiller@bnl.gov

Marissa MillsOak Ridge National Laboratorymillsmd@ornl.gov

Julie MitchellUniversity of Wisconsin, Madisonmitchell@math.wisc.edu

Jennifer Morrell-FalveyOak Ridge National Laboratorymorrelljl1@ornl.gov

Sue MorssArgonne National Laboratorysmorss@anl.gov

Vasantha NagarajanDuPontvasantha.nagarajan@usa.dupont.com

Dave NelsonLawrence Livermore National Laboratorynelson6@llnl.gov

Lee NewbergWadsworth Centerlee.newberg@wadsworth.org

Charles NgoweMichigan State Universityngowe@chemistry.msu.edu

Kim NylanderOak Ridge National Laboratorynylanderk@ornl.gov

Yasuhiro OdaUniversity of Iowayasuhiro-oda@uiowa.edu

Susan OldNational Institutes of Healtholds@nhlbi.nih.gov

Paola OliveriCaltechpoliveri@caltech.edu

Paula OlsiewskiAlfred P. Sloan Foundationolsiewski@sloan.org

Regina O’NeilUniversity of Massachusetts, Amherstrtarallo@microbio.umass.edu

Mary Oster-GraniteNational Institutes of Healthmo96o@nih.gov

Brian PalenikUniversity of California, San Diegobpalenik@ucsd.edu

Aristides PatrinosU.S. Department of Energyari.patrinos@science.doe.gov

Dale PelletierOak Ridge National Laboratorypelletierda@ornl.gov

Attendees

163

Cynthia PfannkochJ. Craig Venter Institutecpfannkoch@venterscience.org

Anne PlantNSTC/OSTPaplant@ostp.eop.gov

Steve PlimptonSandia National Laboratoriessjplimp@sandia.gov

Gemma RegueraUniversity of Massachusetts, Amherstgemma_reguera@microbio.umass.edu

Mark RintoulSandia National Laboratoriesrintoul@sandia.gov

Margie RominePacific Northwest National Laboratorymargie.romine@pnl.gov

Denise RussoNational Institutes of Healthdrusso@mail.nih.gov

Herbert SauroKeck Graduate Insitutehsauro@kgi.edu

Luis Sayavedra-SotoOregon State Universitysayavedl@science.oregonstate.edu

David SchwartzUniversity of Wisconsin, Madisondcschwartz@facstaff.wisc.edu

Salvatore SechiNational Institutes of HealthSalvatore_Sechi@nih.gov

Michael SeibertNational Renewable Energy Laboratorymike_seibert@nrel.gov

Margrethe SerresMarine Biological Laboratorymserres@mbl.edu

Liang ShiPacific Northwestern National LaboratoryLiang.Shi@pnl.gov

Michael SinclairSandia National Laboratoriesmbsincl@sandia.gov

Dinah SingerNational Cancer Instituteds13j@nih.gov

Richard SmithPacific Northwest National Laboratoryrds@pnl.gov

Hamilton SmithJ. Craig Venter Institutehsmith@venterinstitute.org

Harold SmithUniversity of Marylandsmithh@umbi.umd.edu

Thomas SquierPacific Northwest National Laboratorythomas.squier@pnl.gov

Ranjan SrivastavaUniversity of Connecticutsrivasta@engr.uconn.edu

David A. StahlUniversity of Washingtondastahl@u.washington.edu

Marvin StodolskyU.S. Department of EnergyMarvin.Stodolsky@science.doe.gov

F. William StudierBrookhaven National Laboratorystudier@bnl.gov

Attendees

164

John SutherlandBrookhaven National Laboratoryjcs@bnl.gov

F. Robert TabitaOhio State Universitytabita.1@osu.edu

Chad TalleyLawrence Livermore National Laboratorytalley1@llnl.gov

Theodore TarasowLawrence Livermore National Laboratorytarasow2@llnl.gov

Michael TeresinskiU.S. Department of Energymichael.teresinski@science.doe.gov

Michael ThelenLawrence Livermore National Laboratorymthelen@llnl.gov

David ThomassenU.S. Department of Energydavid.thomassen@science.doe.gov

Janelle ThompsonMassachusetts Institute of Technologyjanelle@mit.edu

Joyce ThorpeJ. Craig Venter Institutejthorpe@venterinstitute.org

James TiedjeMichigan State Universitytiedjej@msu.edu

Jerilyn TimlinSandia National Laboratoriesjatimli@sandia.gov

Jeffrey TokLawrence Livermore National Laboratorytok2@llnl.gov

Emily TurnerUniversity of Washingtonemilyt@u.washington.edu

Ravishankar VallabhajosyulaKeck Graduate Instituterrao@kgi.edu

Sanjay VasheeJ. Craig Venter Institutesvashee@venterinstitute.org

Wim VermaasArizona State Universitywim@asu.edu

Judy WallUniversity of Missouri, Columbiawallj@missouri.edu

Sharlene WeatherwaxU.S. Department of Energysharlene.weatherwax@science.doe.gov

Peter WeberLawrence Livermore National Laboratoryweber21@llnl.gov, mcgurn1@llnl.gov

Xueming WeiOregon State Universityweixue@science.oregonstate.edu

Raymond WildungU.S. Department of Energyraymond.wildung@science.doe.gov

H Steven WileyPacific Northwest National Laboratorysteven.wiley@pnl.gov

David WilsonCornell Universitydbw3@cornell.edu

X. Sunney XieHarvard Universityxie@chemistry.harvard.edu

Attendees

165

Ying XuUniversity of Georgiaxyn@bmb.uga.edu

Qing XuJ. Craig Venter Instituteqxu@tcag.org

Luying XunHarvard Universityxun@mail.wsu.edu

Haw YangUniversity of California, Berkeleyhawyang@berkeley.edu

Jane YeNational Institutes of Healthyej@nhlbi.nih.gov

Shibu YoosephJ. Craig Venter Institutesyooseph@venterinstitute.org

Karsten ZenglerDiversa Corporationkzengler@diversa.com

Jizhong ZhouOak Ridge National Laboratoryzhouj@ornl.gov

Julie ZimmermanLouisiana State Universityjzimme5@lsu.edu

Jeremy ZuckerHarvard Medical Schoolzucker@research.dfci.harvard.edu

Attendees

166

167

Appendix 2: Web Sites

Program Web SitesGenomics:GTL Web site: http://doegenomestolife.org/

This book: http://doegenomestolife.org/pubs/2005abstracts/

DOE Microbial Genome Program: http://microbialgenome.org/

Web Sites Listed in AbstractsBioWarehouse System: http://bioinformatics.ai.sri.com/biowarehouse/

Carbon Sequestration in Synechococcus sp.: From Molecular Machines to Hierarchical: Modeling http://www.genomes2life.org/

Center for Molecular and Cellular Systems: http://www.ornl.gov/GenomestoLife/

GelBank: http://gelbank.anl.gov/

Joint Genome Institute: http://www.jgi.doe.gov/

LAMMPS Molecular Dynamics Simulator: http://www.cs.sandia.gov/~sjplimp/lammps.html

Microbial Ecology, Proteogenomics & Computational Optima. DOE Genomes to Life Center at Harvard/MIT/BWH/MGH: http://arep.med.harvard.edu/DOEGTL/

ProteomeWeb: http://proteomeweb.anl.gov/

Synechococcus sp. WH8102 Knowledgebase: http://csbl.bmb.uga.edu/WH8102/

Synechocystis sp. PCC 6803: http://lsweb.la.asu.edu/synechocystis/

The SEED: An Annotation/Analysis Tool: http://theseed.uchicago.edu/FIG/index.cgi

Virtual Institute of Microbial Stress and Survival (VIMSS): http://vimss.org

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168

169Indexed by page number.

Author Index

AAbulencia, Carl 8, 11, 88Acinas, Silvia G. 89Ackerman, Eric J. 132Adamson, Anne E. 65Adhikari, Devi 115Adkins, Joshua N. 16, 19, 143Ahrendt, Angela 58Albrecht, Huguette 124Allen, Eric 87Alm, Eric 6, 8Alonso, Darwin O. V. 152Alperovich, Nina 60Alton, Anita J. 65Andersen, Gary L. 8, 11, 107Anderson, Gordon A. 51, 114, 115, 143, 144, 148Anderson, Kenneth K. 18Andrews, Shirley H. 65Andronaco, Gregory 130Aravind, L. 83Arkin, Adam 6, 8Arnold, Nikita D. 22Arp, Daniel 93Assad-Garcia, Nacyra 60Atlas, Jordan C. 68Auberry, Deanna L. 16, 18, 19Auberry, Kenneth J. 19, 51

BBabnigg, Gyorgy 51, 58Baden-Tillson, Holly A. 61Bai, Yun 72Baker, Brett J. 87Bakkal, Suphan 44Balhorn, Rod 121, 142Banfield, Jill 87Bang, Duhee 134Bao, Gang 117Barnes, Christian 62Barns, Susan 88Barofsky, Douglas F. 95Battista, J. R. 96Bearinger, Jane 122Beatty, J. Thomas 105Beck, David A. C. 152Becker, Gerald W. 141Belgrano, Andrea 34Beliaev, Alex S. 51, 52, 148

Bench, Graham 122, 146Bender, Kelly 8Benoit, Jennifer 89Bertozzi, Carolyn 147Bibbs, Lisa 95Blake, Robert C., II 87Borglin, Sharon 8, 11Bowers, Peter 150Bownas, Jennifer L. 65Boyer, Stephen 130Bradbury, Andrew 133Brahamsha, Bianca 24Brandes, Aaron 3Brockman, Fred 88Broderick, Joan 99Broderick, William 99Brodie, Eoin L. 8, 11, 107Brown, Steven 14Brown, W. Michael 32Bruce, David 109Bruce, James E. 114, 115Buchanan, Michelle 15Burisch, Christian 38Butler, Jessica 46Butzlaff, Erick A. 74

CCai, Long 128Cai, Zhi 100Callister, Stephen 144Cannon, Bill 15Cantor, C.B. 56Cao, Haishi 135Carmack, C. Steven 72Casey, Denise K. 65Castellanos, Mariajose 68Cate, Jamie H. D. 119Chain, Patrick 109Chan, James W. 121Chan, Priscilla 142Chandramohan, Praveen 21Chang, Sherman 88Chaudhuri, Swades K. 46Chen, Baowei 135Chen, Shaolin 102Chen, X. 34Chhabra, Swapnil 8, 14Chin, Kuk-Jeong 44Chisholm, Sallie W. 4, 5, 90, 103

Index

170Indexed by page number.

Cho, Jang-Cheon 95Choi, Paul 128Chowdhury, Saiful 115Christian, Allen T. 121, 122Chuang, Ray-Yuan 62Church, Bruce 68Church, George M. 3, 4, 5Cole, James R. 72Coleman, Maureen 103Collart, Frank R. 16, 50, 51, 139, 140, 141Collins, James J. 50, 56Colvin, Michael 75, 124Comolli, Luis 126Conlan, Sean 70Coppi, Maddalena 44Corzett, Michele H. 121Cottarel, G. 56Cottrell, Matthew T. 112Crawford, Jackie 122Crozier, Paul S. 38

DDaggett, Valerie 152Daly, Don S. 18Daly, Michael J. 57Dam, P. 30, 34Dasika, Madhukar 84Davidson, Eric H. 91Davidson, George S. 28Davis, John 99Day, Robert M. 22Day, Ryan 152DeNardo, Sally 124Desiderio, Russell 95DeWitt, David 99Dhiman, Anjali 68DiDonato, Laurie 44DiDonato, Raymond 46Ding, Yanhuai R. 148Distel, Daniel L. 89Doktycz, Mitchel 15Dominguez, Miguel 144Donohue, Timothy J. 110, 144Downing, Kenneth H. 126Driscoll, M. E. 56Dubchak, Inna 6, 8Dugan, Lawrence 122

EEdlefsen, Paul 51Eisenberg, David 150Elias, Dwayne A. 51, 148Emo, Brett 14

Ensman, L. 76Entcheva-Dimitrov, Plamena 112Esposito, Anthony 121Estes, Sherry A. 65Esteve-Núñez, Abraham 44, 46

FFaith, J. 56Fan, J. 76Fang, Ruihua 143, 144, 148Faull, Kym 100Faulon, Jean-Loup 32Fey, Sarah 139, 140, 141Fields, Matthew 8, 11, 14Foote, Bob 15Foote, Linda J. 16Fredrickson, James K. 50, 51, 52, 58, 143, 144, 148Friddle, Raymond W. 124Fridman, Tema 22Friedman, Nir 128

GGalperin, Michael Y. 51Gao, Weimin 14Gardner, Timothy S. 50, 56Garrity, George M. 72Gassman, Natalie R. 55Gaucher, Sara P. 8, 14, 17Geist, Al 21, 37Gelfand, Mikhail 6Geller, Jil 8, 11Gerdes, Sveta 100Gessler, Damian 34Ghirardi, Maria L. 97Gibson, Janet L. 105Gilna, Paul 109Giometti, Carol S. 50, 51, 58Giovannoni, Stephen J. 95Givan, Scott 95Glass, John I. 60Glaven, Richard 44, 46Goddard, Carrie D. 144Gonzales, Arlene 31, 40Gorby, Yuri A. 51, 52, 135, 148Gorin, Andrey 22Grant, Patrick G. 146Green, Michelle L. 81, 82Grossman, Arthur R. 97

HHaaland, David M. 24, 33Hadi, Masood Z. 8, 14, 17

Index

171Indexed by page number.

Hainfeld, James 120Haller, Imke 88Hamad, Sawsan 33, 100Hanson, David 28Hara, Christine A. 121Harwood, Caroline S. 104, 105Harzman, Christina 99Havin, Victor 25Hazen, Terry C. 8, 11He, Qiang 8, 14He, Zhili 8, 14Heffelfinger, Grant S. 20Herman, Rob 24Herzberg, Osnat 137Hettich, Robert 15, 87Hiddessen, Amy 122Higdon, Roger 51Hill, Eric 52Hinz, Angela 122Hixson, Kim K. 143, 148Holland, Trevin 88Hollars, Christopher W. 121Holman, Hoi-Ying 8, 11, 126Holmes, Dawn E. 40, 46Holzman, Ted 51Hommes, Norman 93Hooker, Brian S. 15, 16Howard, Meredith 91Hoyt, Peter 16Hu, Ping 107Huang, Katherine 6, 8Huang, Rick 8, 11Hubbard, K. 76Hunt, Dana E. 89Hurst, Gregory B. 15, 16, 19Huser, Thomas 121, 122Hutcheon, Ian D. 123Hutchison, Clyde A., III 60, 61

IIakounine, Alexander 140Iqbal, Tahera 31Iyer, Gopal 55Iyer, Lakshminarayan 83Iyer, Prabha P. 64

JJacobsen, Janet 8, 11Jaffe, Jacob D. 4Jakobsson, Eric 83Jensen, Grant 117Jiang, T. 34Jonsson, Amanda L. 152

Joyner, Dominique 8, 11Judd, Ellen 126Jung, David 37

KKane, Sean 67Kang, Katherine 24, 25Kaplan, Samuel 144Karp, Peter D. 78, 81, 82Kay, Brian K. 141Kaye, Jonathan 40Keasling, Jay D. 8, 14, 147Kehoe, John 141Keller, Keith 8Keller, Martin 8, 11, 14, 88Kennel, Steve J. 15, 16Kent, Stephen B. 134Kery, Vladimir 15, 16, 18, 19Khare, Tripti 58Kim, Arnold 75Kim, Byoung-Chan 44Kim, Sang-Hoon 99Kim, Younggyu 55Kirchman, David L. 112Klappenbach, Joel 51Klein, David 130Klepac-Ceraj, Vanja 89Knorr, Andrea L. 69Kohanski, M. K. 56Kolker, Eugene 50, 51, 140Kolker, Natali 51Kong, Xiangxu 55Konstantinidis, Konstantinos T. 51Kriplani, Ushma 141Krishnamurthy, Ramya 21Krushkal, Julia 42, 44Kuske, Cheryl 88Kyrpides, Nikos 109

LLaidlaw, David 130Land, Miriam L. 51Landorf, Elizabeth 139, 140, 141Lane, Stephen M. 121Lane, Todd W. 31, 40Laney, Samuel 95Langry, Kevin 124Lankford, Trish K. 16Lanthier, Martin 40Lapidus, Alla 109Larimer, Frank W. 15, 18, 19, 50, 51, 104, 105, 109Lartigue, Carole 60Laub, Michael 108

Index

172Indexed by page number.

Laurence, Ted 121Lawrence, Charles E. 50, 51, 70, 72, 86Leang, Ching 44Leary, Julie 147Leavell, Michael D. 31LeDuc, Phil 117Lee, Pei-Yun 91Lee, Tom 78Lei, Chenghong 132Leighton, Terrance J. 127Leptos, Kyriacos C. 4Li, Huilin 120Li, Huiying 150Li, Ting 14Liao, James C. 105Light, Yooli K. 31Lightstone, Felice 75Lilburn, Timothy G. 72Lin, Chiann-Tso 16Lin, Xiaoxia 3Lindell, Debbie 4Lindsey, Susan D. 74Lipton, Mary S. 51, 57, 143, 144, 148Liu, Jun 132Liu, Yongqing 14Livesay, Eric A. 16, 143Llwellyn, Richard 150Londer, Yuri 139Lovley, Derek R. 40, 42, 44, 46, 48, 58, 148Lowry, David F. 135Lu, Tse-Yuan S. 16

MMahadevan, R. 42Maier, Klaus 79Makarova, Kira S. 51Makhatadze, George I. 134Malkin, Alexander J. 127Mansfield, Betty K. 65Mao, F. 30, 34Maranas, Costas D. 84Marcelino, Luisa A. 89Marcia, Roummel F. 74Marletta, Michael 147Marsh, Terence L. 99Martin, Shawn 28, 32Martin, Sheryl A. 65Martino, Anthony 31, 40Martino, Tony 25Martiny, Adam C. 5, 90Maruf, Mahir 60Mathur, Eric 95Mayer, M. Uljana 135

McAdams, Harley H. 107, 110, 126McCarthy, Kevin 46McClay, David 91McCue, Lee Ann 50, 51, 70, 72McDonald, W. Hayes 15, 19McKeown, Cathy K. 16McLean, Jeff 52, 135Mehta, Teena 46Mester, Tunde 46Methé, Barbara 44, 46, 48Miles, Robin 122Miller, Lisa M. 138Mills, Marissa D. 65Minokawa, Takuya 91Mitchell, Julie C. 74Monroe, Matthew E. 51, 143, 144, 148Moore, Priscilla A. 16Moore, Ronald J. 16, 143Morrell, Jenny 15Mottaz, Heather M. 148Moult, John 137Mukhopadhyay, Aindrila 8, 11, 14Munske, Gerhard 114, 115Mutatu, Washington 99

NNatarajan, Shreedhar 83Natarajan, Vijaya 6, 25Naughton, Thomas 25Nealson, Kenneth H. 50, 51, 123Nevin, Kelly 40, 44, 46, 48Newberg, Lee A. 72Ngowe, Michael 99Nie, Shuming 117Noordeweir, Mick 95Noy, Aleksandr 124Nunez, Cinthia 44Nylander, Kim 65

OO’Neil, Regina 40, 44Oda, Yasuhiro 104Oliveri, Paola 91Olman, V. 30, 34Omelchenko, Marina V. 57Ortoleva, P. J. 76Osterman, Andrei 100Ovecka, Milan 133Overbeek, Ross 100

Index

173Indexed by page number.

PPacocha, Sarah 89Pal, Debnath 150Paladugu, Sri 79Palenik, Brian 24, 25, 34Palmblad, Magnus 122, 146Pasa-Tolic, Ljiljana 51, 148Paulsen, Ian 24, 25Pavlik, Peter 133Pelletier, Dale A. 15, 16Peppler, Terese 139, 140, 141Petritis, Konstantinos 143Pfannkoch, Cynthia 60, 61Pharino, Chanathip 89Pharkya, Priti 84Phinney, Brett 99Picone, Alex F. 51Pinchuk, Grigoriy 51, 52Plimpton, Steven J. 38Plomp, Marco 127Podar, Mercha 95Podevels, Angela M. 110Polz, Martin F. 89Pomposiello, Pablo 44Popa, Radu 123Posewitz, Matthew C. 97Postier, Brad 40Pouliot, Yannick 78Price, Morgan 6, 8Purvine, Samuel 51

QQiu, Xiaoyun 51, 57

RRam, Rachna J. 87Rappé, Michael S. 95Ratto, Timothy V. 124Redding, Alyssa 14Reguera, Gemma 46Ren, Xiajia 128Reppas, Nikkos B. 5Richardson, Paul 109Riley, Monica 50, 51, 54Riley, Robert 150Ringbauer, Joseph A., Jr. 8, 14Rintoul, Mark D. 28, 32, 38Roberson, Robert 100Roh, Jung Hyeob 144Rohwer, Forest 103Romine, Margaret F. 51, 52, 144, 148Roth, Martin 67

Ruan, Jin 67Rubin, Eddy 109

SSaffarini, Daad A. 52Salwinski, Lukasz 150Samanta, Sudip K. 104Samatva, Nagiza 21Sapra, Rajat 31Sarma-Rupavtarm, Ramahi 89Sauro, Herbert M. 79Sayavedra-Soto, Luis 93Sayyed-Ahmad, A. 76Schaeffer, R. Dustin 152Schilling, Christophe H. 42, 67Schlitter, Jürgen 38Schmoyer, Denise D. 15, 18, 19Schmutz, Jeremy 109Scholle, Michael 141Schwarz, Fred 137Scott, Bari 153, 155Scott, Kathryn A. 152Segrè, Daniel 3Segura, D. 42Seibert, Michael 97Serres, Margrethe H. 51, 54Shah, Manesh B. 15, 18, 19, 87Shapiro, Lucy 110Shelbolina, Zhenya 40Shen, Yufeng 143Shi, Liang 135Shields, Sharon 146Shin, Yongsoon 132Shiyanov, Pavel 141Shoshani, Arie 25Shuler, Michael L. 68Sinclair, Michael B. 33Singh, Anup 8, 14Slepoy, Alex 38Smith, Hamilton O. 60, 61, 62, 63, 64Smith, Harold 137Smith, Joel 91Smith, Richard D. 51, 143, 144, 148Smithson, David 142Spormann, Alfred M. 112Sprinzak, Einat 150Squier, Thomas C. 135Srivastava, Ranjan 69Stadsklev, Kurt 67Stahl, David 8, 11Stanek, Dawn 14Stanley, F. 76Stapels, Martha D. 95

Index

174Indexed by page number.

Steward, Robert E. 152Stolyar, Sergey 8, 11Strauss, Charlie 32Strittmatter, Eric F. 19Strong, Michael 150Studier, F. William 138Su, Z. 30, 34Sui, Haixin 126Sulchek, Todd A. 124Sullivan, Matthew B. 103Sun, Jun 8, 11, 14Sun, Lianhong 14Sundin, George 57Sutherland, John C. 138

TTabita, F. Robert 105Tai, P. K. Amos 90Talley, Chad E. 121, 122Tang, Xiaoting 114, 115Tarasow, Ted 142Tasneem, Asba 83Tavano, Christine L. 110, 144Thakar, Rajendra 67Thelen, Michael P. 87Thomas, Ed 24Thompson, Anne W. 90Thompson, Dorothea 8, 11, 14Thompson, Janelle R. 89Tiedje, James M. 50, 51, 57, 99Timlin, Jerilyn A. 24, 25, 33Tok, Jeffrey B.-H. 142Tolic, Nikola 114, 115, 144Tollaksen, Sandra L. 58Tran, Hoa 44Travnik, Evelyn 67Tripp, James 95Tsang, Allen 44Tsapin, Sasha 51Tu, Qiang 91Tuncay, K. 76Tuominen, Mark T. 46Tyson, Gene W. 87

UUnkefer, Clifford J. 151

VVajrala, Neeraja 93Vallabhajosyula, Ravishankar R. 79van de Meene, Allison 100van Dien, Steve 8, 11, 67

Varala, K. 76Varma, Sameer 83Vashee, Sanjay 62Vasilenko, Alexander 57Velappan, Nileena 133Venter, J. Craig 60, 61, 62, 63, 64VerBerkmoes, Nathan 87Vergin, Kevin L. 95Verma, Seema 135Vermaas, Wim 33, 100Victry, Kristin D. 16

WWabb, Dave L. 19Wagner, Valerie 78Walcher, Marion 88Walker, Christopher 8Wall, Judy 8, 11, 14Wang, Bing 100Wang, Yue 6Weber, Peter K. 123Webster, Jennifer 48Wei, Jing 8, 14Wei, Xueming 93Weigele, Peter 103Weis, Robert 44Weiss, Shimon 50, 55Wemmer, David 147Werner-Washburne, Margaret 28Wheeler, Elizabeth 122Wheeler, Katherine E. 127White, Amanda M. 18Whitelegge, Julian 100Wiback, Sharon 67Wierzbowski, J. 56Wiley, Steven 15Wilson, David B. 102Winhold, Heiko 121Wolf, Denise 8Wu, H. 34Wu, Liyou 14, 57Wu, Yifei 141Wyborski, Denise 8, 11, 88Wyrick, Judy M. 65

XXiao, Jie 128Xie, X. Sunney 128Xu, Qing 63Xu, Ying 30, 34Xun, Luying 128

Index

175Indexed by page number.

YYan, Bin 42, 44Yan, Ping 135Yang, Haw 119Yang, Lin 138Yates, John R., III 51, 58Yeates, Todd 150Yen, Huei-Che 8, 11, 14Yooseph, Shibu 60, 63Young, Malin M. 17Yu, Ji 128Yu, Wen 14

ZZakrajsek, Brian A. 51Zane, Grant 8, 11, 14Zeng, Xiaihua 144Zengler, Karsten 88Zhang, Kun 5Zhang, Yuan 72Zhang, Zhaoduo 31, 40Zhao, Rui 143Zhou, Jizhong 8, 11, 14, 50, 51, 52, 57, 105Zhu, Harry 115Zhu, Wenhong 51, 58Zimmerman, J. M. 96Zinser, Eric 4Zucker, Jeremy 3Zuniga, Beto 8, 11

Index

176Indexed by page number.

Index

177Indexed by page number.

American Type Culture Collection 72Argonne National Laboratory 16, 50, 51, 58, 139,

140, 141Arizona State University 33, 100A & M College 96BIATECH 50, 51, 140Boston University 50, 56Brookhaven National Laboratory 120, 138Brown University 70, 72, 86California Institute of Technology 91, 117Carnegie Institution of Washington 97Carnegie Mellon University 117Center for Advanced Research in Biotechnology

137Children’s Hospital Oakland Research Institute 127Colorado School of Mines 97Columbus State University 99Cornell University 68, 102Diversa Corporation 8, 11, 14, 88, 95Duke University 91East Carolina University 138Emory University 117Fellowship for the Integration of Genomes (FIG)

100Gener8, Inc. 130Gene Network Sciences 68Genomatica, Inc. 42, 67Georgia Institute of Technology 117Harvard Medical School 3, 4, 5Harvard University 108, 128Hawaii Institute of Marine Biology 95Howard Hughes Medical Institute 6Indiana University, Bloomington 76J. Craig Venter Institute 60, 61, 62, 63, 64Joint Genome Institute 109Keck Graduate Institute 79Lawrence Berkeley National Laboratory 6, 8, 11,

14, 25, 107, 109, 119, 126, 147Lawrence Livermore National Laboratory 75, 109,

121, 122, 123, 124, 127, 142, 146Los Alamos National Laboratory 32, 88, 109, 133,

151Louisiana State University 96Marine Biological Laboratory 50, 51, 54Massachusetts Institute of Technology 4, 5, 89, 90,

103Miami University 8, 11Michigan State University 50, 57, 72, 99

National Center for Genome Resources 34National Institutes of Health 51, 57, 83National Renewable Energy Laboratory 97New England Biolabs 89Oak Ridge National Laboratory 8, 11, 14, 15, 16,

18, 19, 21, 22, 25, 30, 34, 37, 50, 51, 52, 57, 65, 87, 104, 105, 109

Ohio State University 105Oregon State University 93, 95Pacific Northwest National Laboratory 15, 16, 18,

19, 50, 51, 52, 57, 58, 88, 114, 115, 132, 135, 143, 144, 148

Pennsylvania State University 84, 134Rensselaer Polytechnic Institute 72Roche Applied Science 141Ruhr-Universität Bochum 38Sandia National Laboratories 8, 14, 17, 20, 24, 25,

28, 31, 32, 33, 38, 40, 132San Diego State University 103Scripps Institution of Oceanography 24, 25, 34Scripps Research Institute 51, 58SoundVision Productions 153, 155SRI International 78, 81, 82Stanford Human Genome Center 109Stanford University 112Stanford University School of Medicine 107, 110,

126The Institute for Genomic Research 24, 25, 44, 46,

48Tohoku University 91Uniformed Services University of the Health Sci-

ences 57University of British Columbia 105University of California, Berkeley 6, 87University of California, Davis 124University of California, Los Angeles 50, 55, 100,

105, 150University of California, Merced 75University of California, Riverside 34University of California, Santa Barbara 55University of California, San Diego 74University of California, San Francisco 142University of Chicago 134University of Connecticut, Storrs 69University of Delaware 112University of Georgia, Athens 30, 34University of Illinois, Urbana 83University of Iowa 104, 105

Institution Index

Index

178Indexed by page number.

University of Massachusetts, Amherst 40, 42, 44, 46, 48, 58, 148

University of Missouri, Columbia 8, 11, 14University of New Mexico, Albuquerque 28University of Southern California 50, 51, 123University of Stuttgart 79University of Tennessee, Knoxville 87University of Tennessee, Memphis 42University of Tennessee Health Science Center 44University of Texas Medical School 144University of Toronto 140University of Washington, Seattle 8, 11, 152University of Wisconsin, Madison 74, 110, 144University of Wisconsin, Milwaukee 52Wadsworth Center 50, 70, 72Washington State University 114, 115Waters Corporation 95Woods Hole Oceanographic Institution 89Xavier University 87