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Maoileidigh DO, Hudspeth AJ
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Effects of cochlear loading on the motility of active outer hair cells
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 2013 APR 2; 110(14):5474-5479
Outer hair cells (OHCs) power the amplification of sound-induced vibrations in the mammalian inner ear through an active process that involves hair-bundle motility and somatic motility. It is unclear, though, how either mechanism can be effective at high frequencies, especially when OHCs are mechanically loaded by other structures in the cochlea. We address this issue by developing a model of an active OHC on the basis of observations from isolated cells, then we use the model to predict the response of an active OHC in the intact cochlea. We find that active hair-bundle motility amplifies the receptor potential that drives somatic motility. Inertial loading of a hair bundle by the tectorial membrane reduces the bundle's reactive load, allowing the OHC's active motility to influence the motion of the cochlear partition. The system exhibits enhanced sensitivity and tuning only when it operates near a dynamical instability, a Hopf bifurcation. This analysis clarifies the ro!
de la Fuente C, Goodman Z, Rice CM
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Genetic and Functional Characterization of the N-Terminal Region of the Hepatitis C Virus NS2 Protein
JOURNAL OF VIROLOGY 2013 APR; 87(8):4130-4145
The hepatitis C virus (HCV) NS2 protein has dual roles within the HCV life cycle. While well characterized as an autoprotease that cleaves the NS2/NS3 junction, NS2, primarily via its N-terminal region, is also involved in virion morphogenesis. In order to map the determinants necessary for infectious virus production and gain further insight into the multiple points at which NS2 may impact this process, a detailed mutational analysis of residues spanning amino acids (aa) 1 to 92 was performed. Initial block mutagenesis (5 or 7 amino acid residues) in both bicistronic and monocistronic HCV cell culture-based (HCVcc) genomes revealed that all but two blocks had various levels of impaired infectious virus production. None of these mutations affected RNA replication, indicating that the N-terminal region of NS2 is not required for NS2-3 processing and replicase assembly. Fine mapping identified 29 critical residues that, when mutated, yielded at least a 1 log decrease in inf!
Jiang H, Khan S, Wang Y, Charron G, He B, Sebastian C, Du JT, Kim R, Ge E, Mostoslavsky R, Hang HC, Hao Q, Lin HN
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SIRT6 regulates TNF-alpha secretion through hydrolysis of long-chain fatty acyl lysine
NATURE 2013 APR 4; 496(7443):110-+
The Sir2 family of enzymes or sirtuins are known as nicotinamide adenine dinucleotide (NAD)-dependent deacetylases(1) and have been implicated in the regulation of transcription, genome stability, metabolism and lifespan(2,3). However, four of the seven mammalian sirtuins have very weak deacetylase activity in vitro. Here we show that human SIRT6 efficiently removes long-chain fatty acyl groups, such as myristoyl, from lysine residues. The crystal structure of SIRT6 reveals a large hydrophobic pocket that can accommodate long-chain fatty acyl groups. We demonstrate further that SIRT6 promotes the secretion of tumour necrosis factor-alpha (TNF-alpha) by removing the fatty acyl modification on K19 and K20 of TNF-alpha. Protein lysine fatty acylation has been known to occur in mammalian cells, but the function and regulatory mechanisms of this modification were unknown. Our data indicate that protein lysine fatty acylation is a novel mechanism that regulates protein secretio!
Guo JJ, Zhou HY, Su ZJ, Chen BB, Wang GM, Wang CQF, Xu YF, Ge RS
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Comparison of cell types in the rat Leydig cell lineage after ethane dimethanesulfonate treatment
REPRODUCTION 2013 APR; 145(4):371-380
The objective of this study was to purify cells in the Leydig cell lineage following regeneration after ethane dimethanesulfonate (EDS) treatment and compare their steroidogenic capacity. Regenerated progenitor (RPLCs), immature (RILCs), and adult Leydig cells (RALCs) were isolated from testes 21, 28 and 56 days after EDS treatment respectively. Production rates for androgens including androsterone and 5a-androstane-17 beta, 3 alpha-diol (DIOL), testosterone and androstenedione were measured in RPLCs, RILCs and RALCs in media after 3-h in vitro culture with 100 ng/ml LH. Steady-state mRNA levels of steroidogenic enzymes and their activities were measured in freshly isolated cells. Compared to adult Leydig cells (ALCs) isolated from normal 90-day-old rat testes, which primarily produce testosterone (69.73%), RPLCs and RILCs primarily produced androsterone (70.21%) and DIOL (69.79%) respectively. Leydig cells isolated from testes 56 days post-EDS showed equivalent capacity !
Chatrchyan S, Khachatryan V, Sirunyan AM, Tumasyan A, Adam W, Aguilo E, Bergauer T, Dragicevic M, Ero J, Fabjan C, Friedl M, Fruhwirth R, Ghete VM, Hormann N, Hrubec J, Jeitler M, Kiesenhofer W, Knunz V, Krammer M, Kratschmer I, Liko D, Mikulec I, Pernicka M, Rabady D, Rahbaran B, Rohringer C, Rohringer H, Schofbeck R, Strauss J, Taurok A, Waltenberger W, Wulz CE, Mossolov V, Shumeiko N, Gonzalez JS, Alderweireldt S, Bansal M, Bansal S, Cornelis T, De Wolf EA, Janssen X, Luyckx S, Mucibello L, Ochesanu S, Roland B, Rougny R, Van Haevermaet H, Van Mechelen P, Van Remortel N, Van Spilbeeck A, Blekman F, Blyweert S, D'Hondt J, Suarez RG, Kalogeropoulos A, Maes M, Olbrechts A, Tavernier S, Van Doninck W, Van Mulders P, Van Onsem GP, Villella I, Clerbaux B, De Lentdecker G, Dero V, Gay APR, Hreus T, Leonard A, Marage PE, Mohammadi A, Reis T, Thomas L, Vander Velde C, Vanlaer P, Wang J, Adler V, Beernaert K, Cimmino A, Costantini S, Garcia G, Grunewald M, Klein B, Lellouch J, Marinov A, Mccartin J, Rios AAO, Ryckbosch D, Sigamani M, Strobbe N, Thyssen F, Tytgat M, Walsh S, Yazgan E, Zaganidis N, Basegmez S, Bruno G, Castello R, Ceard L, Delaere C, du Pree T, Favart D, Forthomme L, Giammanco A, Hollar J, Lemaitre V, Liao J, Militaru O, Nuttens C, Pagano D, Pin A, Piotrzkowski K, Selvaggi M, Garcia JMV, Beliy N, Caebergs T, Daubie E, Hammad GH, Alves GA, Martins MC, Martins T, Pol ME, Souza MHG, Alda WL, Carvalho W, Chinellato J, Custodio A, Da Costa EM, Damiao DD, Martins CD, De Souza SF, Malbouisson H, Malek M, Figueiredo DM, Mundim L, Nogima H, Da Silva WLP, Santoro A, Jorge LS, Sznajder A, Manganote EJT, Pereira AV, Anjos TS, Bernardes CA, Dias FA, Tomei TRFP, Gregores EM, Lagana C, Marinho F, Mercadante PC, Novaes SF, Padula SS, Genchev V, Iaydjiev P, Piperov S, Rodozov M, Stoykova S, Sultanov G, Tcholakov V, Trayanov R, Vutova M, Dimitrov A, Hadjiiska R, Kozhuharov V, Litov L, Pavlov B, Petkov P, Bian JG, Chen GM, Chen HS, Jiang CH, Liang D, Liang S, Meng X, Tao J, Wang J, Wang X, Wang Z, Xiao H, Xu M, Zang J, Zhang Z, Asawatangtrakuldee C, Ban Y, Guo Y, Li W, Liu S, Mao Y, Qian SJ, Teng H, Wang D, Zhang L, Zou W, Avila C, Montoya CAC, Gomez JP, Moreno BG, Oliveros AFO, Sanabria JC, Godinovic N, Lelas D, Plestina R, Polic D, Puljak I, Antunovic Z, Kovac M, Brigljevic V, Dune S, Kadija K, Luetic J, Mekterovic D, Morovic S, Tikvica L, Attikis A, Mavromanolakis G, Mousa J, Nicolaou C, Ptochos F, Razis PA, Finger M, Finger M, Assran Y, Elgammal S, Kamel AE, Awad AMK, Mahmoud MA, Radi A, Kadastik M, Muntel M, Murumaa M, Raidal M, Rebane L, Tiko A, Eerola P, Fedi G, Voutilainen M, Harkonen J, Heikkinen A, Karimaki V, Kinnunen R, Kortelainen MJ, Lampen T, Lassila-Perini K, Lehti S, Linden T, Luukka P, Maenpaa T, Peltola T, Tuominen E, Tuominiemi J, Tuovinen E, Ungaro D, Wendland L, Korpela A, Tuuva T, Besancon M, Choudhury S, Couderc F, Dejardin M, Denegri D, Fabbro B, Faure JL, Ferri F, Ganjour S, Givernaud A, Gras P, de Monchenault GH, Jarry P, Locci E, Malcles J, Millischer L, Nayak A, Rander J, Rosowsky A, Titov M, Baffioni S, Beaudette F, Benhabib L, Bianchini L, Bluj M, Busson P, Charlot C, Daci N, Dahms T, Dalchenko M, Dobrzynski L, Florent A, de Cassagnac RG, Haguenauer M, Mine P, Mironov C, Naranjo IN, Nguyen M, Ochando C, Paganini P, Sabes D, Salerno R, Sirois Y, Veelken C, Zabi A, Agram JL, Andrea J, Bloch D, Bodin D, Brom JM, Chabert EC, Collard C, Conte E, Drouhin F, Fontaine JC, Gele D, Goerlach U, Juillot P, Le Bihan AC, Van Hove P, Beauceron S, Beaupere N, Bondu O, Boudoul G, Brochet S, Chasserat J, Chierici R, Contardo D, Depasse P, El Mamouni H, Fay J, Gascon S, Gouzevitch M, Ille B, Kurca T, Lethuillier M, Mirabito L, Perries S, Sgandurra L, Sordini V, Tschudi Y, Verdier P, Viret S, Tsamalaidze Z, Autermann C, Beranek S, Calpas B, Edelhoff M, Feld L, Heracleous N, Hindrichs O, Jussen R, Klein K, Merz J, Ostapchuk A, Perieanu A, Raupach F, Sammet J, Schael S, Sprenger D, Weber H, Wittmer B, Zhukov V, Ata M, Caudron J, Dietz-Laursonn E, Duchardt D, Erdmann M, Fischer R, Guth A, Hebbeker T, Heidemann C, Hoepfner K, Klingebiel D, Kreuzer P, Merschmeyer M, Meyer A, Olschewski M, Padeken K, Papacz P, Pieta H, Reithler H, Schmitz SA, Sonnenschein L, Steggemann J, Teyssier D, Thuer S, Weber M, Bontenackels M, Cherepanov V, Erdogan Y, Flugge G, Geenen H, Geisler M, Ahmad WH, Hoehle F, Kargoll B, Kress T, Kuessel Y, Lingemann J, Nowack A, Nugent IM, Perchalla L, Pooth O, Sauerland P, Stahl A, Martin MA, Asin I, Bartosik N, Behr J, Behrenhoff W, Behrens U, Bergholz M, Bethani A, Borras K, Burgmeier A, Cakir A, Calligaris L, Campbell A, Castro E, Costanza F, Dammann D, Pardos CD, Dorland T, Eckerlin G, Eckstein D, Flucke G, Geiser A, Glushkov I, Gunnellini P, Habib S, Hauk J, Hellwig G, Jung H, Kasemann M, Katsas P, Kleinwort C, Kluge H, Knutsson A, Kramer M, Krucker D, Kuznetsova E, Lange W, Leonard J, Lohmann W, Lutz B, Mankel R, Marfin I, Marienfeld M, Melzer-Pellmann IA, Meyer AB, Mnich J, Mussgiller A, Naumann-Emme S, Novgorodova O, Nowak F, Olzem J, Perrey H, Petrukhin A, Pitzl D, Raspereza A, Cipriano PMR, Riedl C, Ron E, Rosin M, Salfeld-Nebgen J, Schmidt R, Schoerner-Sadenius T, Sen N, Spiridonov A, Stein M, Walsh R, Wissing C, Blobel V, Enderle H, Erfle J, Gebbert U, Gorner M, Gosselink M, Haller J, Hermanns T, Hoing RS, Kaschube K, Kaussen G, Kirschenmann H, Klanner R, Lange J, Peiffer T, Pietsch N, Rathjens D, Sander C, Schettler H, Schleper P, Schlieckau E, Schmidt A, Schroder M, Schum T, Seidel M, Sibille J, Sola V, Stadie H, Steinbruck G, Thomsen J, Vanelderen L, Barth C, Baus C, Berger J, Boser C, Chwalek T, De Boer W, Descroix A, Dierlamm A, Feindt M, Guthoff M, Hackstein C, Hartmann F, Hauth T, Heinrich M, Held H, Hoffmann KH, Husemann U, Katkov I, Komaragiri JR, Pardo PL, Martschei D, Mueller S, Muller T, Niegel M, Nurnberg A, Oberst O, Oehler A, Ott J, Quast G, Rabbertz K, Ratnikov F, Ratnikova N, Rocker S, Schilling FP, Schott G, Simonis HJ, Stober FM, Troendle D, Ulrich R, Wagner-Kuhr J, Wayand S, Weiler T, Zeise M, Anagnostou G, Daskalakis G, Geralis T, Kesisoglou S, Kyriakis A, Loukas D, Markou A, Markou C, Ntomari E, Gouskos L, Mertzimekis TJ, Panagiotou A, Saoulidou N, Evangelou I, Foudas C, Kokkas P, Manthos N, Papadopoulos I, Bencze G, Hajdu C, Hidas P, Horvath D, Sikler F, Veszpremi V, Vesztergombi G, Zsigmond AJ, Beni N, Czellar S, Molnar J, Palinkas J, Szillasi Z, Karancsi J, Raics P, Trocsanyi ZL, Ujvari B, Beri SB, Bhatnagar V, Dhingra N, Gupta R, Kaur M, Mehta MZ, Mittal M, Nishu N, Saini LK, Sharma A, Singh JB, Kumar A, Kumar A, Ahuja S, Bhardwaj A, Choudhary BC, Malhotra S, Naimuddin M, Ranjan K, Saxena P, Sharma V, Shivpuri RK, Banerjee S, Bhattacharya S, Chatterjee K, Dutta S, Comber B, Jain S, Jain S, Khurana R, Modak A, Mukherjee S, Roy D, Sarkar S, Sharan M, Abdulsalam A, Dutta D, Kailas S, Kumar V, Mohanty AK, Pant LM, Shukla P, Aziz T, Chatterjee RM, Ganguly S, Guchait M, Gurtu A, Maity M, Majumder G, Mazumdar K, Mohanty GB, Parida B, Sudhakar K, Wickramage N, Banerjee S, Dugad S, Arfaei H, Bakhshiansohi H, Etesami SM, Fahim A, Hashemi M, Hesari H, Jafari A, Khakzad M, Najafabadi MM, Mehdiabadi SP, Safarzadeh B, Zeinali M, Abbrescia M, Barbone L, Calabria C, Chhibra SS, Colaleo A, Creanza D, De Filippis N, De Palma M, Fiore L, Iaselli G, Maggi G, Maggi M, Marangelli B, My S, Nuzzo S, Pacifico N, Pompili A, Pugliese G, Selvaggi G, Silvestris L, Singh G, Venditti R, Verwilligen P, Zito G, Abbiendi G, Benvenuti AC, Bonacorsi D, Braibant-Giacomelli S, Brigliadori L, Capiluppi P, Castro A, Cavallo FR, Cuffiani M, Dallavalle GM, Fabbri F, Fanfani A, Fasanella D, Giacomelli P, Grandi C, Guiducci L, Marcellini S, Masetti G, Meneghelli M, Montanari A, Navarria FL, Odorici F, Perrotta A, Primavera F, Rossi AM, Rovelli T, Siroli GP, Tosi N, Travaglini R, Albergo S, Cappello G, Chiorboli M, Costa S, Potenza R, Tricomi A, Tuve C, Barbagli G, Ciulli V, Civinini C, D'Alessandro R, Focardi E, Frosali S, Gallo E, Gonzi S, Meschini M, Paoletti S, Sguazzoni G, Tropiano A, Benussi L, Bianco S, Colafranceschi S, Fabbri F, Piccolo D, Fabbricatore P, Musenich R, Tosi S, Benaglia A, De Guio F, Di Matteo L, Fiorendi S, Gennai S, Ghezzi A, Lucchini MT, Malvezzi S, Manzoni RA, Martelli A, Massironi A, Menasce D, Moroni L, Paganoni M, Pedrini D, Ragazzi S, Redaelli N, de Fatis TT, Buontempo S, Cavallo N, De Cosa A, Dogangun O, Fabozzi F, Iorio AOM, Lista L, Meola S, Merola M, Paolucci P, Azzi P, Bacchetta N, Bisello D, Branca A, Carlin R, Checchia P, Dorigo T, Galanti M, Gasparini F, Gasparini U, Gozzelino A, Kanishchev K, Lacaprara S, Lazzizzera I, Margoni M, Meneguzzo AT, Pazzini J, Pegoraro M, Pozzobon N, Ronchese P, Simonetto F, Torassa E, Tosi M, Vanini S, Zotto P, Zumerle G, Gabusi M, Ratti SP, Riccardi C, Torre P, Vitulo P, Biasini M, Bilei GM, Fano L, Lariccia P, Mantovani G, Menichelli M, Nappi A, Romeo F, Saha A, Santocchia A, Spiezia A, Taroni S, Azzurri P, Bagliesi G, Bernardini J, Boccali T, Broccolo G, Castaldi R, D'Agnolo RT, Dell'Orso R, Fiori F, Foa L, Giassi A, Kraan A, Ligabue F, Lomtadze T, Martini L, Messineo A, Palla F, Rizzi A, Serban AT, Spagnolo P, Squillacioti P, Tenchini R, Tonelli G, Venturi A, Verdini PC, Barone L, Cavallari F, Del Re D, Diemoz M, Fanelli C, Grassi M, Longo E, Meridiani P, Micheli F, Nourbakhsh S, Organtini G, Paramatti R, Rahatlou S, Soffi L, Amapane N, Arcidiacono R, Argiro S, Arneodo M, Biino C, Cartiglia N, Casasso S, Costa M, Demaria N, Mariotti C, Maselli S, Migliore E, Monaco V, Musich M, Obertino MM, Pastrone N, Pelliccioni M, Potenza A, Romero A, Ruspa M, Sacchi R, Solano A, Staiano A, Belforte S, Candelise V, Casarsa M, Cossutti F, Della Ricca G, Gobbo B, Marone M, Montanino D, Penzo A, Schizzi A, Kim TY, Nam SK, Chang S, Kim DH, Kim GN, Kong DJ, Park H, Son DC, Kim JY, Kim ZJ, Song S, Choi S, Gyun D, Hong B, Jo M, Kim H, Kim TJ, Lee KS, Moon DH, Park SK, Roh Y, Choi M, Kim JH, Park C, Park IC, Park S, Ryu G, Choi Y, Choi YK, Goh J, Kim MS, Kwon E, Lee B, Lee J, Lee S, Seo H, Yu I, Bilinskas MJ, Grigelionis I, Janulis M, Juodagalvis A, Castilla-Valdez H, De La Cruz-Burelo E, Heredia-de La Cruz I, Lopez-Fernandez R, Martinez-Ortega J, Sanchez-Hernandez A, Villasenor-Cendejas LM, Moreno SC, Valencia FV, Ibarguen HAS, Linares EC, Pineda AM, Reyes-Santos MA, Krofcheck D, Bell AJ, Butler PH, Doesburg R, Reucroft S, Silverwood H, Ahmad M, Asghar MI, Butt J, Hoorani HR, Khalid S, Khan WA, Khurshid T, Qazi S, Shah MA, Shoaib M, Bialkowska H, Boimska B, Frueboes T, Gorski M, Kazana M, Nawrocki K, Romanowska-Rybinska K, Szleper M, Wrochna G, Zalewski P, Brona G, Bunkowski K, Cwiok M, Dominik W, Doroba K, Kalinowski A, Konecki M, Krolikowski J, Misiura M, Wolszczak W, Almeida N, Bargassa P, David A, Faccioli P, Parracho PCF, Gallinaro M, Seixas J, Varela J, Vischia P, Belotelov I, Bunin P, Gavrilenko M, Golutvin I, Gorbunov I, Kamenev A, Karjavin V, Kozlov G, Lanev A, Malakhov A, Moisenz P, Palichik V, Perelygin V, Shmatov S, Smirnov V, Volodko A, Zarubin A, Evstyukhin S, Golovtsov V, Ivanov Y, Kim V, Levchenko P, Murzin V, Oreshkin V, Smirnov I, Sulimov V, Uvarov L, Vavilov S, Vorobyev A, Vorobyev A, Andreev Y, Dermenev A, Gninenko S, Golubev N, Kirsanov M, Krasnikov N, Matveev V, Pashenkov A, Tlisov D, Toropin A, Epshteyn V, Erofeeva M, Gavrilov V, Kossov M, Lychkovskaya N, Popov V, Safronov G, Semenov S, Shreyber I, Stolin V, Vlasov E, Zhokin A, Andreev V, Azarkin M, Dremin I, Kirakosyan M, Leonidov A, Mesyats G, Rusakov SV, Vinogradov A, Belyaev A, Bogdanova G, Boos E, Khein L, Klyukhin V, Kodolova O, Lokhtin I, Lukina O, Markina A, Obraztsov S, Perfilov M, Petrushanko S, Popov A, Proskuryakov A, Sarycheva L, Savrin V, Volkov V, Azhgirey I, Bayshev I, Bitioukov S, Grishin V, Kachanov V, Konstantinov D, Krychkine V, Petrov V, Ryutin R, Sobol A, Tourtchanovitch L, Troshin S, Tyurin N, Uzunian A, Volkov A, Adzic P, Djordjevic M, Ekmedzic M, Krpic D, Milosevic J, Aguilar-Benitez M, Maestre JA, Arce P, Battilana C, Calvo E, Cerrada M, Llatas MC, Colino N, De La Cruz B, Peris AD, Vazquez DD, Bedoya CF, Ramos JPF, Ferrando A, Flix J, Fouz MC, Garcia-Abia P, Lopez OG, Lopez SG, Hernandez JM, Josa MI, Merino G, Pelayo JP, Olmeda AQ, Redondo I, Romero L, Santaolalla J, Soares MS, Willmott C, Albajar C, Codispoti G, de Troconiz JF, Brun H, Cuevas J, Menendez JF, Folgueras S, Caballero IG, Iglesias LL, Gomez JP, Cifuentes JAB, Cabrillo IJ, Calderon A, Chuang SH, Campderros JD, Felcini M, Fernandez M, Gomez G, Sanchez JG, Graziano A, Jorda C, Virto AL, Marco J, Marco R, Rivero CM, Matorras F, Sanchez FJM, Rodrigo T, Rodriguez-Marrero AY, Ruiz-Jimeno A, Scodellaro L, Vila I, Cortabitarte RV, Abbaneo D, Auffray E, Auzinger G, Bachtis M, Baillon P, Ball AH, Barney D, Bendavid J, Benitez JF, Bernet C, Bianchi G, Bloch P, Bocci A, Bonato A, Botta C, Breuker H, Camporesi T, Cerminara G, Christiansen T, Perez JAC, d'Enterria D, Dabrowski A, De Roeck A, De Visscher S, Di Guida S, Dobson M, Dupont-Sagorin N, Elliott-Peisert A, Eugster J, Frisch B, Funk W, Georgiou G, Giffels M, Gigi D, Gill K, Giordano D, Girone M, Giunta M, Glege F, Garrido RGR, Govoni P, Gowdy S, Guida R, Hammer J, Hansen M, Harris P, Hartl C, Harvey J, Hegner B, Hinzmann A, Innocente V, Janot P, Kaadze K, Karavakis E, Kousouris K, Krajczar K, Lecoq P, Lee YJ, Lenzi P, Lourenco C, Magini N, Maki T, Malberti M, Malgeri L, Mannelli M, Masetti L, Meijers F, Mersi S, Meschi E, Moser R, Mulders M, Musella P, Nesvold E, Orsini L, Cortezon EP, Perez E, Perrozzi L, Petrilli A, Pfeiffer A, Pierini M, Pimia M, Piparo D, Polese G, Quertenmont L, Racz A, Reece W, Antunes JR, Rolandi G, Rovelli C, Rovere M, Sakulin H, Santanastasio F, Schafer C, Schwick C, Segoni I, Sekmen S, Sharma A, Siegrist P, Silva P, Simon M, Sphicas P, Spiga D, Tsirou A, Veres GI, Vlimant JR, Wohri HK, Worm SD, Zeuner WD, Bertl W, Deiters K, Erdmann W, Gabathuler K, Horisberger R, Ingram Q, Kaestli HC, Konig S, Kotlinski D, Langenegger U, Meier F, Renker D, Rohe T, Bachmair F, Bani L, Bortignon P, Buchmann MA, Casal B, Chanon N, Deisher A, Dissertori G, Dittmar M, Donega M, Dunser M, Eller P, Freudenreich K, Grab C, Hits D, Lecomte P, Lustermann W, Marini AC, del Arbol PMR, Mohr N, Moortgat F, Nageli C, Nef P, Nessi-Tedaldi F, Pandolfi F, Pape L, Pauss F, Peruzzi M, Ronga FJ, Rossini M, Sala L, Sanchez AK, Starodumov A, Stieger B, Takahashi M, Tauscher L, Thea A, Theofilatos K, Treille D, Urscheler C, Wallny R, Weber HA, Wehrli L, Amsler C, Chiochia V, Favaro C, Rikova MI, Kilminster B, Mejias BM, Otiougova P, Robmann P, Snoek H, Tupputi S, Verzetti M, Cardaci M, Chang YH, Chen KH, Ferro C, Kuo CM, Li SW, Lin W, Lu YJ, Singh AP, Volpe R, Yu SS, Bartalini P, Chang P, Chang YH, Chang YW, Chao Y, Chen KF, Dietz C, Grundler U, Hou WS, Hsiung Y, Kao KY, Lei YJ, Lu RS, Majumder D, Petrakou E, Shi X, Shiu JG, Tzeng YM, Wan X, Wang M, Asavapibhop B, Simili E, Srimanobhas N, Suwonjandee N, Adiguzel A, Bakirci MN, Cerci S, Dozen C, Dumanoglu I, Eskut E, Girgis S, Gokbulut G, Gurpinar E, Hos I, Kangal EE, Karaman T, Karapinar G, Topaksu AK, Onengut G, Ozdemir K, Ozturk S, Polatoz A, Sogut K, Cerci DS, Tali B, Topakli H, Vergili M, Akin IV, Aliev T, Bilin B, Bilmis S, Deniz M, Gamsizkan H, Guler AM, Ocalan K, Ozpineci A, Serin M, Sever R, Surat UE, Yalvac M, Zeyrek M, Gulmez E, Isildak B, Kaya M, Kaya O, Ozkorucuklu S, Sonmez N, Bahtiyar H, Barlas E, Cankocak K, Gunaydin YO, Vardarh FI, Yucel M, Levchuk L, Brooke JJ, Clement E, Cussans D, Flacher H, Frazier R, Goldstein J, Grimes M, Heath GP, Heath HF, Kreczko L, Metson S, Newbold DM, Nirunpong K, Poll A, Senkin S, Smith VJ, Williams T, Basso L, Bell KW, Belyaev A, Brew C, Brown RM, Cockerill DJA, Coughlan JA, Harder K, Harper S, Jackson J, Kennedy BW, Olaiya E, Petyt D, Radburn-Smith BC, Shepherd-Themistocleous CH, Tomalin IR, Womersley WJ, Bainbridge R, Ball G, Beuselinck R, Buchmuller O, Colling D, Cripps N, Cutajar M, Dauncey P, Davies G, 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Betchart B, Bodek A, Chung YS, Covarelli R, de Barbaro P, Demina R, Eshaq Y, Ferbel T, Garcia-Bellido A, Goldenzweig P, Han J, Harel A, Miner DC, Vishnevskiy D, Zielinski M, Bhatti A, Ciesielski R, Demortier L, Goulianos K, Lungu G, Malik S, Mesropian C, Arora S, Barker A, Chou JP, Contreras-Campana C, Contreras-Campana E, Duggan D, Ferencek D, Gershtein Y, Gray R, Halkiadakis E, Hidas D, Lath A, Panwalkar S, Park M, Patel R, Rekovic V, Robles J, Rose K, Salur S, Schnetzer S, Seitz C, Somalwar S, Stone R, Thomas S, Walker M, Cerizza G, Hollingsworth M, Spanier S, Yang ZC, York A, Eusebi R, Flanagan W, Gilmore J, Kamon T, Khotilovich V, Montalvo R, Osipenkov I, Pakhotin Y, Perloff A, Roe J, Safonov A, Sakuma T, Sengupta S, Suarez I, Tatarinov A, Toback D, Akchurin N, Damgov J, Dragoiu C, Dudero PR, Jeong C, Kovitanggoon K, Lee SW, Libeiro T, Volobouev I, Appelt E, Delannoy AG, Florez C, Greene S, Gurrola A, Johns W, Kurt P, Maguire C, Melo A, Sharma M, Sheldon P, Snook B, Tuo S, Velkovska J, Arenton MW, Balazs M, Boutle S, Cox B, Francis B, Goodell J, Hirosky R, Ledovskoy A, Lin C, Neu C, Wood J, Gollapinni S, Harr R, Karchin PE, Don CKK, Lamichhane P, Sakharov A, Anderson M, Belknap DA, Borrello L, Carlsmith D, Cepeda M, Dasu S, Friis E, Gray L, Grogg KS, Grothe M, Hall-Wilton R, Herndon M, Herve A, Klabbers P, Klukas J, Lanaro A, Lazaridis C, Loveless R, Mohapatra A, Mozer MU, Ojalvo I, Palmonari F, Pierro GA, Ross I, Savin A, Smith WH, Swanson J
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Study of the underlying event at forward rapidity in pp collisions at root s=0.9, 2.76, and 7 TeV
JOURNAL OF HIGH ENERGY PHYSICS 2013 APR; ?(4):? Article 072
The underlying event activity in proton-proton collisions at forward pseudorapidity (-6.6 < eta < -5.2) is studied with the CMS detector at the LHC, using a novel observable: the ratio of the forward energy density, dE/d(eta), for events with a charged-particle jet produced at central pseudorapidity (vertical bar eta(jet)vertical bar < 2) to the forward energy density for inclusive events. This forward energy density ratio is measured as a function of the central jet transverse momentum, p(T), at three different pp centre-of-mass energies (root s = 0.9, 2.76, and 7 TeV). In addition, the root s evolution of the forward energy density is studied in inclusive events and in events with a central jet. The results are compared to those of Monte Carlo event generators for pp collisions and are discussed in terms of the underlying event. Whereas the dependence of the forward energy density ratio on jet p(T), at each root s separately can be well reproduced by some models, all models fail to simultaneously describe the increase of the forward energy density with root s in both inclusive events and in events with a central jet.
Sampathkumar P, Kim SJ, Upla P, Rice WJ, Phillips J, Timney BL, Pieper U, Bonanno JB, Fernandez-Martinez J, Hakhverdyan Z, Ketaren NE, Matsui T, Weiss TM, Stokes DL, Sauder JM, Burley SK, Sali A, Rout MP, Almo SC
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Structure, Dynamics, Evolution, and Function of a Major Scaffold Component in the Nuclear Pore Complex
STRUCTURE 2013 APR 2; 21(4):560-571
The nuclear pore complex, composed of proteins termed nucleoporins (Nups), is responsible for nucleocytoplasmic transport in eukaryotes. Nuclear pore complexes (NPCs) form an annular structure composed of the nuclear ring, cytoplasmic ring, a membrane ring, and two inner rings. Nup192 is a major component of the NPC's inner ring. We report the crystal structure of Saccharomyces cerevisiae Nup192 residues 2-960 [ScNup192(2-960)], which adopts an a-helical fold with three domains (i.e., D1, D2, and D3). Small angle X-ray scattering and electron microscopy (EM) studies reveal that ScNup192(2-960) could undergo long-range transition between "open" and "closed" conformations. We obtained a structural model of full-length ScNup192 based on EM, the structure of ScNup192(2-960), and homology modeling. Evolutionary analyses using the ScNup192(2-960) structure suggest that NPCs and vesicle-coating complexes are descended from a common membrane-coating ancestral complex. We show tha!
Shin EC, Park SH, Nascimbeni M, Major M, Caggiari L, de Re V, Feinstone SM, Rice CM, Rehermann B
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The Frequency of CD127(+) Hepatitis C Virus (HCV)-Specific T Cells but Not the Expression of Exhaustion Markers Predicts the Outcome of Acute HCV Infection
JOURNAL OF VIROLOGY 2013 APR; 87(8):4772-4777
T cells are exhausted and overexpress inhibitory molecules in chronic hepatitis C virus (HCV) infection. It is unclear whether this is the cause or consequence of HCV persistence. By studying serial blood and liver samples of chimpanzees during acute infection, we demonstrate that the early expression of the memory precursor marker CD127 on HCV-specific T cells, but not the expression of inhibitory molecules on those T cells or their ligands in the liver, predicts the outcome of acute infection.
Mirabal S, Cadenas AM, Garcia-Bertrand R, Herrera RJ
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Ascertaining the Role of Taiwan as a Source for the Austronesian Expansion
AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY 2013 APR; 150(4):551-564
Taiwanese aborigines have been deemed the ancestors of Austronesian speakers which are currently distributed throughout two-thirds of the globe. As such, understanding their genetic distribution and diversity as well as their relationship to mainland Asian groups is important to consolidating the numerous models that have been proposed to explain the dispersal of Austronesian speaking peoples into Oceania. To better understand the role played by the aboriginal Taiwanese in this diaspora, we have analyzed a total of 451 individuals belonging to nine of the tribes currently residing in Taiwan, namely the Ami, Atayal, Bunun, Paiwan, Puyuma, Rukai, Saisiyat, Tsou, and the Yami from Orchid Island off the coast of Taiwan across 15 autosomal short tandem repeat loci. In addition, we have compared the genetic profiles of these tribes to populations from mainland China as well as to collections at key points throughout the Austronesian domain. While our results suggest that Daic p!
Chatrchyan S, Khachatryan V, Sirunyan AM, Tumasyan A, Adam W, Aguilo E, Bergauer T, Dragicevic M, Ero J, Fabjan C, Friedl M, Fruhwirth R, Ghete VM, Hammer J, Hormann N, Hrubec J, Jeitler M, Kiesenhofer W, Knunz V, Krammer M, Kratschmer I, Liko D, Mikulec I, Pernicka M, Rahbaran B, Rohringer C, Rohringer H, Schofbeck R, Strauss J, Taurok A, Waltenberger W, Walzel G, Widl E, Wulz CE, Mossolov V, Shumeiko N, Gonzalez JS, Bansal M, Bansal S, Cornelis T, De Wolf EA, Janssen X, Luyckx S, Mucibello L, Ochesanu S, Roland B, Rougny R, Selvaggi M, Staykova Z, Van Haevermaet H, Van Mechelen P, Van Remortel N, Van Spilbeeck A, Blekman F, Blyweert S, D'Hondt J, Suarez RG, Kalogeropoulos A, Maes M, Olbrechts A, Van Doninck W, Van Mulders P, Van Onsem GP, Villella I, Clerbaux B, De Lentdecker G, Dero V, Gay APR, Hreus T, Leonard A, Marage PE, Mohammadi A, Reis T, Thomas L, Vander Marcken G, Vander Velde C, Vanlaer P, Wang J, Adler V, Beernaert K, Cimmino A, Costantini S, Garcia G, Grunewald M, Klein B, Lellouch J, Marinov A, Mccartin J, Rios AAO, Ryckbosch D, Strobbe N, Thyssen F, Tytgat M, Verwilligen P, Walsh S, Yazgan E, Zaganidis N, Basegmez S, Bruno G, Castello R, Ceard L, Delaere C, du Pree T, Favart D, Forthomme L, Giammanco A, Hollar J, Lemaitre V, Liao J, Militaru O, Nuttens C, Pagano D, Pin A, Piotrzkowski K, Schul N, Garcia JMV, Beliy N, Caebergs T, Daubie E, Hammad GH, Alves GA, Martins MC, Damiao DD, Martins T, Pol ME, Souza MHG, Alda WL, Carvalho W, Custodio A, Da Costa EM, Martins CD, De Souza SF, Figueiredo DM, Mundim L, Nogima H, Oguri V, Da Silva WLP, Santoro A, Jorge LS, Sznajder A, Anjos TS, Bernardes CA, Dias FA, Tomei TRFP, Gregores EM, Lagana C, Marinho F, Mercadante PG, Novaes SF, Padula SS, Genchev V, Iaydjiev P, Piperov S, Rodozov M, Stoykova S, Sultanov G, Tcholakov V, Trayanov R, Vutova M, Dimitrov A, Hadjiiska R, Kozhuharov V, Litov L, Pavlov B, Petkov P, Bian JG, Chen GM, Chen HS, Jiang CH, Liang D, Liang S, Meng X, Tao J, Wang J, Wang X, Wang Z, Xiao 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Identification of b-quark jets with the CMS experiment
JOURNAL OF INSTRUMENTATION 2013 APR; 8(?):? Article P04013
At the Large Hadron Collider, the identification of jets originating from b quarks is important for searches for new physics and for measurements of standard model processes. A variety of algorithms has been developed by CMS to select b-quark jets based on variables such as the impact parameters of charged-particle tracks, the properties of reconstructed decay vertices, and the presence or absence of a lepton, or combinations thereof. The performance of these algorithms has been measured using data from proton-proton collisions at the LHC and compared with expectations based on simulation. The data used in this study were recorded in 2011 at root s = 7TeV for a total integrated luminosity of 5.0 fb(-1). The efficiency for tagging b-quark jets has been measured in events from multijet and t-quark pair production. CMS has achieved a b-jet tagging efficiency of 85% for a light-parton misidentification probability of 10% in multijet events. For analyses requiring higher purit!
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Search for new physics in final states with a lepton and missing transverse energy in pp collisions at the LHC
PHYSICAL REVIEW D 2013 APR 8; 87(7):? Article 072005
This Letter describes the search for an enhanced production rate of events with a charged lepton and a neutrino in high-energy pp collisions at the LHC. The analysis uses data collected with the CMS detector, with an integrated luminosity of 5.0 fb(-1) at root s = 7 TeV, and a further 3.7 fb(-1) at root s = 8 TeV. No evidence is found for an excess. The results are interpreted in terms of limits on a heavy charged gauge boson (W') in the sequential standard model, a split universal extra dimension model, and contact interactions in the helicity-nonconserving model. For the last, values of the binding energy below 10.5 (8.8) TeV in the electron (muon) channel are excluded at a 95% confidence level. Interpreting the l(nu) final state in terms of a heavy W' with standard model couplings, masses below 2.90 TeV are excluded. DOI: 10.1103/PhysRevD.87.072005