PUBLICATIONS

2023

176: Baldwin ET, van Eeuwen T, Hoyos D, Zalevsky A, Tchesnokov EP, Sánchez R, Miller BD, Di Stefano LH, Ruiz FX, Hancock M, Işik E, Mendez-Dorantes C, Walpole T, Nichols C, Wan P, Riento K, Halls-Kass R, Augustin M, Lammens A, Jestel A, Upla P, Xibinaku K, Congreve S, Hennink M, Rogala KB, Schneider AM, Fairman JE, Christensen SM, Desrosiers B, Bisacchi GS, Saunders OL, Hafeez N, Miao W, Kapeller R, Zaller DM, Sali A, Weichenrieder O, Burns KH, Götte M, Rout MP, Arnold E, Greenbaum BD, Romero DL, LaCava J, Taylor MS. “Structures, functions, and adaptations of the human LINE-1 ORF2 protein.” Nature. 2023 Dec 14. doi: 10.1038/s41586-023-06947-z. Online ahead of print. PMID: 38096902

175: Akey CW, Echeverria I, Ouch C, Nudelman I, Shi Y, Wang J, Chait BT, Sali A, Fernandez-Martinez J, Rout MP. “Implications of a multiscale structure of the yeast nuclear pore complex.” Mol Cell. 2023 Sep 21;83(18):3283-3302.e5. doi:10.1016/j.molcel.2023.08.025. PMID: 37738963.

174: Choudhry SK, Neal ML, Li S, Navare AT, Van Eeuwen T, Wozniak RW, Mast FD, Rout MP, Aitchison JD. “Nuclear pore complexes mediate subtelomeric gene silencing by regulating PCNA levels on chromatin.” J Cell Biol. 2023 Sep 4;222(9):e202207060. doi: 10.1083/jcb.202207060. Epub 2023 Jun 26. PMC10292210.

173: Ketaren NE, Mast FD, Fridy PC, Olivier JP, Sanyal T, Sali A, Chait BT, Rout MP, Aitchison JD. “Nanobody repertoire generated against the spike protein of ancestral SARS-CoV-2 remains efficacious against the rapidly evolving virus.” bioRxiv [Preprint]. 2023 Jul 14:2023.07.14.549041. doi:10.1101/2023.07.14.549041. PMID: 37503298; PMCID: PMC10369967.

172: Kumar S, Neal ML, Li S, Navare AT, Van Eeuwen T, Wozniak RW, Mast FD, Rout MP, Aitchison JD. Nuclear pore complexes mediate subtelomeric gene silencing by regulating PCNA levels on chromatin. J Cell Biol. 2023 Sep 4;222(9):e202207060. doi: 10.1083/jcb.202207060. Epub 2023 Jun 26. PMID: 37358474; PMCID: PMC10292210.

171: Udi Y, Zhang W, Stein ME, Ricardo-Lax I, Pasolli HA, Chait BT, Rout MP. A general method for quantitative fractionation of mammalian cells. J Cell Biol. 2023 Jun 5;222(6):e202209062. doi: 10.1083/jcb.202209062. Epub 2023 Mar 15. PMID: 36920247; PMCID: PMC10040634.

170: Cowburn D, Rout M. Improving the hole picture: towards a consensus on the mechanism of nuclear transport. Biochem Soc Trans. 2023 Apr 26;51(2):871-886. doi: 10.1042/BST20220494. PMID: 37099395; PMCID: PMC10212546.

169: Kozai T, Fernandez-Martinez J, van Eeuwen T, Gallardo P, Kapinos LE, Mazur A, Zhang W, Tempkin J, Panatala R, Delgado-Izquierdo M, Raveh B, Sali A, Chait BT, Veenhoff LM, Rout MP, Lim RYH. Dynamic molecular mechanism of the nuclear pore complex permeability barrier. bioRxiv [Preprint]. 2023 Apr 14:2023.03.31.535055. doi: 10.1101/2023.03.31.535055. PMID: 37066338; PMCID: PMC10103940.

168: Markert J, Luger K, Lee H, Hu H, Taylor NMI, Fernandez-Martinez J, Rout M, Alder N. Depicting protein structures as schematics. Trends Biochem Sci. 2023 Apr;48(4):307-310. doi: 10.1016/j.tibs.2023.01.006. PMID: 36931235.

167: Cross FR, Fridy PC, Ketaren NE, Mast FD, Li S, Olivier JP, Pecani K, Chait BT, Aitchison JD, Rout MP. “Expanding and improving nanobody repertoires using ayeast display method: Targeting SARS-CoV-2.” J Biol Chem. 2023 Jan 28;299(3):102954. doi: 10.1016/j.jbc.2023.102954. Epub ahead of print. PMID:36720309; PMCID: PMC9884143.

166: Taylor MS, Wu C, Fridy PC, Senussi Y, Cheng WC, Heaps J, Mori K, Cohen L, Molloy KR, Chait BT, Goggins M, Bhan I, Franses JW, Yang X, Taplin ME, Wang X, Christiani DC, Johnson BE, Meyerson M, Uppaluri R, Egloff AM, Denault EN, Spring LM, Wang TL, Shih IM, Jung E, Arora KS, Zukerberg LR, Yilmaz OH, Chi G, Norden BL, Song Y, Nieman L, Parikh AR, Strickland M, Mustelin T, Eng G, Yilmaz ÖH, Matulonis UA, Skates SJ, Rueda BR, Drapkin R, Klempner SJ, Deshpande V, Ting DT, Rout MP, LaCava J, Walt DR, Burns KH. “Ultrasensitive detection of circulating LINE-1 ORF1p as a specific multi-cancer biomarker.” bioRxiv [Preprint]. 2023 Jan 25:2023.01.25.525462. doi: 10.1101/2023.01.25.525462. PMID: 36747644; PMCID: PMC9900799.

2022

165. Field MC, Rout MP. “Coatomer in the universe of cellular complexity.” Mol Biol Cell. 2022 Dec 1;33(14):pe8. doi: 10.1091/mbc.E19-01-0012. PMID: 36399624; PMCID: PMC9727805.

164. Obado SO, Rout MP, Field MC. “Sending the message: specialized RNA export mechanisms in trypanosomes.” Trends Parasitol. 2022 Oct;38(10):854-867. doi: 10.1016/j.pt.2022.07.008. Epub 2022 Aug 24. PMC8928745. Review.

163. Serganov AA, Udi Y, Stein ME, Patel V, Fridy PC, Rice CM, Saeed M, Jacobs EY, Chait BT, Rout MP. Proteomic elucidation of the targets and primary functions of the picornavirus 2A protease. J Biol Chem. 2022 Mar 30:101882. doi: 10.1016/j.jbc.2022.101882. Online ahead of print. PMID: 35367208

162. Nudelman I, Fernandez-Martinez J, Rout MP. Affinity Isolation of Endogenous Saccharomyces Cerevisiae Nuclear Pore Complexes. Methods Mol Biol. 2022;2502:3-34. doi: 10.1007/978-1-0716-2337-4_1. PMID: 35412228

161. Akey CW, Singh D, Ouch C, Echeverria I, Nudelman I, Varberg JM, Yu Z, Fang F, Shi Y, Wang J, Salzberg D, Song K, Xu C, Gumbart JC, Suslov S, Unruh J, Jaspersen SL, Chait BT, Sali A, Fernandez-Martinez J, Ludtke SJ, Villa E, Rout MP. Comprehensive structure and functional adaptations of the yeast nuclear pore complex. Cell. 2022 Jan 20;185(2):361-378.e25. doi: 10.1016/j.cell.2021.12.015. Epub 2022 Jan 3. PMID: 34982960; PMCID: PMC8928745.

2021

160. Mast FD, Fridy PC, Ketaren NE, Wang J, Jacobs EY, Olivier JP, Sanyal T, Molloy KR, Schmidt F, Rutkowska M, Weisblum Y, Rich LM, Vanderwall ER, Dambrauskas N, Vigdorovich V, Keegan S, Jiler JB, Stein ME, Olinares PDB, Herlands L, Hatziioannou T, Sather DN, Debley JS, Fenyö D, Sali A, Bieniasz PD, Aitchison JD, Chait BT, Rout MP. Highly synergistic combinations of nanobodies that target SARS-CoV-2 and are resistant to escape. Elife. 2021 Dec 7;10:e73027. doi: 10.7554/eLife.73027. PMID: 34874007; PMCID: PMC8651292.

159. Ricardo-Lax I, Luna JM, Thao TTN, Le Pen J, Yu Y, Hoffmann HH, Schneider WM, Razooky BS, Fernandez-Martinez J, Schmidt F, Weisblum Y, Trüeb BS, Berenguer Veiga I, Schmied K, Ebert N, Michailidis E, Peace A, Sánchez-Rivera FJ, Lowe SW, Rout MP, Hatziioannou T, Bieniasz PD, Poirier JT, MacDonald MR, Thiel V, Rice CM. Replication and single-cycle delivery of SARS-CoV-2 replicons. Science. 2021 Nov 26;374(6571):1099-1106. doi: 10.1126/science.abj8430. Epub 2021 Oct 14. PMID: 34648371.

158. Hakhverdyan Z, Molloy KR, Subbotin RI, Fernandez-Martinez J, Chait BT, Rout MP. Measuring in vivoprotein turnover and exchange in yeast macromolecular assemblies. STAR Protoc. 2021 Sep 8;2(3):100800. doi:10.1016/j.xpro.2021.100800. PMID: 34527957; PMCID: PMC8433251.

157. Borah S, Thaller DJ, Hakhverdyan Z, Rodriguez EC, Isenhour AW, Rout MP, King MC, Lusk CP. Heh2/Man1 may be an evolutionarily conserved sensor of NPC assembly state. Mol Biol Cell. 2021 Jul 15;32(15):1359-1373. doi:10.1091/mbc.E20-09-0584. Epub 2021 May 19. PMID: 34010011; PMCID: PMC8694041.

156. Fernandez-Martinez J, Rout MP. One Ring to Rule them All? Structural and Functional Diversity in the Nuclear Pore Complex. Trends Biochem Sci. 2021 Jul;46(7):595-607. doi: 10.1016/j.tibs.2021.01.003. Epub 2021 Feb 6. PMID: 33563541; PMCID: PMC8195821.

155. Mast FD, Fridy PC, Ketaren NE, Wang J, Jacobs EY, Olivier JP, Sanyal T, Molloy KR, Schmidt F, Rutkowska M, Weisblum Y, Rich LM, Vanderwall ER, Dambrauskas N, Vigdorovich V, Keegan S, Jiler JB, Stein ME, Olinares PDB, Hatziioannou T, Sather DN, Debley JS, Fenyö D, Sali A, Bieniasz PD, Aitchison JD, Chait BT, Rout MP. Nanobody Repertoires for Exposing Vulnerabilities of SARS-CoV-2. bioRxiv [Preprint]. 2021 Apr 10:2021.04.08.438911. doi: 10.1101/2021.04.08.438911. PMID: 33851164; PMCID: PMC8043454.

154. Hakhverdyan Z, Molloy KR, Keegan S, Herricks T, Lepore DM, Munson M, Subbotin RI, Fenyö D, Aitchison JD, Fernandez-Martinez J, Chait BT, Rout MP. Dissecting the Structural Dynamics of the Nuclear Pore Complex. Mol Cell. 2021 Jan 7;81(1):153-165.e7. doi: 10.1016/j.molcel.2020.11.032. Epub 2020 Dec 16. PMID: 33333016; PMCID: PMC8121378.

153. Schureck MA, Darling JE, Merk A, Shao J, Daggupati G, Srinivasan P, Olinares PDB, Rout MP, Chait BT, Wollenberg K, Subramaniam S, Desai SA. Malaria parasites use a soluble RhopH complex for erythrocyte invasion and an integral form for nutrient uptake. Elife. 2021 Jan 4;10:e65282. doi: 10.7554/eLife.65282. PMID: 33393463; PMCID: PMC7840181.

2020

152. Dou Y, Kalmykova S, Pashkova M, Oghbaie M, Jiang H, Molloy KR, Chait BT, Rout MP, Fenyö D, Jensen TH, Altukhov I, LaCava J. Affinity proteomic dissection of the human nuclear cap-binding complex interactome. Nucleic Acids Res. 2020 Oct 9;48(18):10456-10469. doi: 10.1093/nar/gkaa743. PMID: 32960270; PMCID: PMC7544204.

151. Mast FD, Navare AT, van der Sloot AM, Coulombe-Huntington J, Rout MP, Baliga NS, Kaushansky A, Chait BT, Aderem A, Rice CM, Sali A, Tyers M, Aitchison JD. Crippling life support for SARS-CoV-2 and other viruses through synthetic lethality. J Cell Biol. 2020 Oct 5;219(10):e202006159. doi: 10.1083/jcb.202006159. PMID: 32785687; PMCID: PMC7659715.

150. Ganesan SJ, Feyder MJ, Chemmama IE, Fang F, Rout MP, Chait BT, Shi Y, Munson M, Sali A. Integrative structure and function of the yeast exocyst complex. Protein Sci. 2020 Jun;29(6):1486-1501. doi: 10.1002/pro.3863. Epub 2020 May 1. PMID: 32239688; PMCID: PMC7255525.

149. Sparks S, Hayama R, Rout MP, Cowburn D. Analysis of Multivalent IDP Interactions: Stoichiometry, Affinity, and Local Concentration Effect Measurements. Methods Mol Biol. 2020;2141:463-475. doi: 10.1007/978-1-0716-0524-0_23. PMID: 32696372.

2019

148. Hayama R, Sorci M, Keating Iv JJ, Hecht LM, Plawsky JL, Belfort G, Chait BT, Rout MP. Interactions of nuclear transport factors and surface-conjugated FG nucleoporins: Insights and limitations. PLoS One. 2019 Jun 6;14(6):e0217897. doi: 10.1371/journal.pone.0217897. PMID: 31170242; PMCID: PMC6553764.

147. Rout MP, Sali A. Principles for Integrative Structural Biology Studies. Cell. 2019 May 30;177(6):1384-1403. doi: 10.1016/j.cell.2019.05.016. PMID: 31150619; PMCID: PMC6810593.

146. Field MC, Rout MP. Pore timing: the evolutionary origins of the nucleus and nuclear pore complex.F1000Res. 2019 Apr 3;8:F1000 Faculty Rev-369. doi: 10.12688/f1000research.16402.1. PMID: 31001417; PMCID: PMC6449795.

2018

145. Holden JM, Koreny L, Obado S, Ratushny AV, Chen WM, Bart JM, Navarro M, Chait BT, Aitchison JD, Rout MP, Field MC. Involvement in surface antigen expression by a moonlighting FG-repeat nucleoporin in trypanosomes. Mol Biol Cell. 2018 May 1;29(9):1100-1110. doi: 10.1091/mbc.E17-06-0430. PMID: 29496964; PMCID: PMC5921576.

144. Chook YM, Fontoura BMA, Rout MP. Günter Blobel 1936-2018. Nat Struct Mol Biol. 2018 Apr;25(4):297-298. doi: 10.1038/s41594-018-0053-5. PMID: 29610492.

143. Hayama R, Sparks S, Hecht LM, Dutta K, Karp JM, Cabana CM, Rout MP, Cowburn D. Thermodynamic characterization of the multivalent interactions underlying rapid and selective translocation through the nuclear pore complex. J Biol Chem. 2018 Mar 23;293(12):4555-4563. doi: 10.1074/jbc.AC117.001649. Epub 2018 Jan 26. PMID: 29374059; PMCID: PMC5868264.

142. Kim SJ, Fernandez-Martinez J, Nudelman I, Shi Y, Zhang W, Raveh B, Herricks T, Slaughter BD, Hogan JA, Upla P, Chemmama IE, Pellarin R, Echeverria I, Shivaraju M, Chaudhury AS, Wang J, Williams R, Unruh JR, Greenberg CH, Jacobs EY, Yu Z, de la Cruz MJ, Mironska R, Stokes DL, Aitchison JD, Jarrold MF, Gerton JL, Ludtke SJ, Akey CW, Chait BT, Sali A, Rout MP. Integrative structure and functional anatomy of a nuclear pore complex. Nature. 2018 Mar22;555(7697):475-482. doi: 10.1038/nature26003. Epub 2018 Mar 14. PMID:29539637; PMCID: PMC6022767.

141. Sparks S, Temel DB, Rout MP, Cowburn D. Deciphering the “Fuzzy” Interaction of FG Nucleoporins and Transport Factors Using Small-Angle Neutron Scattering. Structure. 2018 Mar 6;26(3):477-484.e4. doi: 10.1016/j.str.2018.01.010. Epub 2018 Feb 8. PMID: 29429880; PMCID: PMC5929991.

140. Taylor MS, Altukhov I, Molloy KR, Mita P, Jiang H, Adney EM, Wudzinska A, Badri S, Ischenko D, Eng G, Burns KH, Fenyö D, Chait BT, Alexeev D, Rout MP, Boeke JD, LaCava J. Dissection of affinity captured LINE-1 macromolecular complexes. Elife. 2018 Jan 8;7:e30094. doi: 10.7554/eLife.30094. PMID: 29309035; PMCID: PMC5821459.

2017

139. Obado SO, Field MC, Rout MP. Comparative interactomics provides evidence for functional specialization of the nuclear pore complex. Nucleus. 2017 Jul 4;8(4):340-352. doi: 10.1080/19491034.2017.1313936. Epub 2017 May 2. PMID: 28463551; PMCID: PMC5597298.

138. Rout MP, Field MC. The Evolution of Organellar Coat Complexes and Organization of the Eukaryotic Cell. Annu Rev Biochem. 2017 Jun 20;86:637-657. doi: 10.1146/annurev-biochem-061516-044643. Epub 2017 May 3. PMID: 28471691.

137. Hayama R, Rout MP, Fernandez-Martinez J. The nuclear pore complex core scaffold and permeability barrier: variations of a common theme. Curr Opin Cell Biol. 2017 Jun;46:110-118. doi: 10.1016/j.ceb.2017.05.003. Epub 2017 Jun 15. PMID: 28624666; PMCID: PMC5568245.

136. Manna PT, Obado SO, Boehm C, Gadelha C, Sali A, Chait BT, Rout MP, Field MC. Lineage-specific proteins essential for endocytosis in trypanosomes. J Cell Sci. 2017 Apr 15;130(8):1379-1392. doi: 10.1242/jcs.191478. Epub 2017 Feb 23. PMID: 28232524; PMCID: PMC5399782.

135. Upla P, Kim SJ, Sampathkumar P, Dutta K, Cahill SM, Chemmama IE, Williams R, Bonanno JB, Rice WJ, Stokes DL, Cowburn D, Almo SC, Sali A, Rout MP, Fernandez- Martinez J. Molecular Architecture of the Major Membrane Ring Component of the Nuclear Pore Complex. Structure. 2017 Mar 7;25(3):434-445. doi: 10.1016/j.str.2017.01.006. Epub 2017 Feb 2. PMID: 28162953; PMCID: PMC5342941.

134. Rout MP, Obado SO, Schenkman S, Field MC. Specialising the parasite nucleus: Pores, lamins, chromatin, and diversity. PLoS Pathog. 2017 Mar 2;13(3):e1006170. doi: 10.1371/journal.ppat.1006170. PMID: 28253370; PMCID: PMC5333908.

133. Boehm CM, Obado S, Gadelha C, Kaupisch A, Manna PT, Gould GW, Munson M, Chait BT, Rout MP, Field MC. The Trypanosome Exocyst: A Conserved Structure Revealing a New Role in Endocytosis. PLoS Pathog. 2017 Jan 23;13(1):e1006063. doi: 10.1371/journal.ppat.1006063. PMID: 28114397; PMCID: PMC5256885.

2016

132. Maishman L, Obado SO, Alsford S, Bart JM, Chen WM, Ratushny AV, Navarro M, Horn D, Aitchison JD, Chait BT, Rout MP, Field MC. Co-dependence between trypanosome nuclear lamina components in nuclear stability and control of gene expression. Nucleic Acids Res. 2016 Dec 15;44(22):10554-10570. doi: 10.1093/nar/gkw751. Epub 2016 Sep 12. PMID: 27625397; PMCID: PMC5159534.

131. LaCava J, Jiang H, Rout MP. Protein Complex Affinity Capture from Cryomilled Mammalian Cells. J Vis Exp. 2016 Dec 9;(118):54518. doi: 10.3791/54518. PMID: 28060343; PMCID: PMC5226390.

130. Fernandez-Martinez J, Kim SJ, Shi Y, Upla P, Pellarin R, Gagnon M, Chemmama IE, Wang J, Nudelman I, Zhang W, Williams R, Rice WJ, Stokes DL, Zenklusen D, Chait BT, Sali A, Rout MP. Structure and Function of the Nuclear Pore Complex Cytoplasmic mRNA Export Platform. Cell. 2016 Nov 17;167(5):1215-1228.e25. doi: 10.1016/j.cell.2016.10.028. Epub 2016 Nov 10. PMID: 27839866; PMCID: PMC5130164.

129. Timney BL, Raveh B, Mironska R, Trivedi JM, Kim SJ, Russel D, Wente SR, Sali A, Rout MP. Simple rules for passive diffusion through the nuclear pore complex. J Cell Biol. 2016 Oct 10;215(1):57-76. doi: 10.1083/jcb.201601004. Epub 2016 Oct 3. PMID: 27697925; PMCID: PMC5057280.

128. Obado SO, Rout MP. Cilia and Nuclear Pore Proteins: Pore No More? Dev Cell. 2016 Sep 12;38(5):445-6. doi: 10.1016/j.devcel.2016.08.019. PMID: 27623377.

127. Domanski M, Upla P, Rice WJ, Molloy KR, Ketaren NE, Stokes DL, Jensen TH, Rout MP, LaCava J. Purification and analysis of endogenous human RNA exosome complexes. RNA. 2016 Sep;22(9):1467-75. doi: 10.1261/rna.057760.116. Epub 2016 Jul 11. PMID: 27402899; PMCID: PMC4986900.

126. Luo Y, Jacobs EY, Greco TM, Mohammed KD, Tong T, Keegan S, Binley JM, Cristea IM, Fenyö D, Rout MP, Chait BT, Muesing MA. HIV-host interactome revealed directly from infected cells. Nat Microbiol. 2016 Jul;1(7):16068. doi: 10.1038/nmicrobiol.2016.68. Epub 2016 May 23. PMID: 27375898; PMCID: PMC4928716.

125. LaCava J, Fernandez-Martinez J, Hakhverdyan Z, Rout MP. Protein Complex Purification by Affinity Capture. Cold Spring Harb Protoc. 2016 Jul 1;2016(7). doi: 10.1101/pdb.top077545. PMID: 27371601.

124. Fernandez-Martinez J, LaCava J, Rout MP. Density Gradient Ultracentrifugation to Isolate Endogenous Protein Complexes after Affinity Capture. Cold Spring Harb Protoc. 2016 Jul 1;2016(7). doi: 10.1101/pdb.prot087957. PMID: 27371598.

123. LaCava J, Fernandez-Martinez J, Rout MP. Native Elution of Yeast Protein Complexes Obtained by Affinity Capture. Cold Spring Harb Protoc. 2016 Jul 1;2016(7). doi: 10.1101/pdb.prot087940. PMID: 27371597.

122. LaCava J, Fernandez-Martinez J, Hakhverdyan Z, Rout MP. Optimized Affinity Capture of Yeast Protein Complexes. Cold Spring Harb Protoc. 2016 Jul 1;2016(7). doi: 10.1101/pdb.prot087932. PMID: 27371596.

121. Chait BT, Cadene M, Olinares PD, Rout MP, Shi Y. Revealing Higher Order Protein Structure Using Mass Spectrometry. J Am Soc Mass Spectrom. 2016 Jun;27(6):952-65. doi: 10.1007/s13361-016-1385-1. Epub 2016 Apr 14. PMID: 27080007; PMCID: PMC5125627.

120. Raveh B, Karp JM, Sparks S, Dutta K, Rout MP, Sali A, Cowburn D. Slide-and- exchange mechanism for rapid and selective transport through the nuclear pore complex. Proc Natl Acad Sci U S A. 2016 May 3;113(18):E2489-97. doi: 10.1073/pnas.1522663113. Epub 2016 Apr 18. PMID: 27091992; PMCID: PMC4983827.

119. Olinares PD, Dunn AD, Padovan JC, Fernandez-Martinez J, Rout MP, Chait BT. A Robust Workflow for Native Mass Spectrometric Analysis of Affinity-Isolated Endogenous Protein Assemblies. Anal Chem. 2016 Mar 1;88(5):2799-807. doi: 10.1021/acs.analchem.5b04477. Epub 2016 Feb 18. PMID: 26849307; PMCID: PMC4790104.

118. Thompson MK, Fridy PC, Keegan S, Chait BT, Fenyö D, Rout MP. Optimizing selection of large animals for antibody production by screening immune response to standard vaccines. J Immunol Methods. 2016 Mar;430:56-60. doi: 10.1016/j.jim.2016.01.006. Epub 2016 Jan 9. PMID: 26775851; PMCID: PMC4769958.

117. Obado SO, Brillantes M, Uryu K, Zhang W, Ketaren NE, Chait BT, Field MC, Rout MP. Interactome Mapping Reveals the Evolutionary History of the Nuclear Pore Complex. PLoS Biol. 2016 Feb 18;14(2):e1002365. doi:10.1371/journal.pbio.1002365. PMID: 26891179; PMCID: PMC4758718.

116. Kellner N, Schwarz J, Sturm M, Fernandez-Martinez J, Griesel S, Zhang W, Chait BT, Rout MP, Kück U, Hurt E. Developing genetic tools to exploit Chaetomium thermophilum for biochemical analyses of eukaryotic macromolecular assemblies. Sci Rep. 2016 Feb 11;6:20937. doi: 10.1038/srep20937. PMID: 26864114; PMCID: PMC4750058.

115. Obado SO, Field MC, Chait BT, Rout MP. High-Efficiency Isolation of Nuclear Envelope Protein Complexes from Trypanosomes. Methods Mol Biol. 2016;1411:67-80. doi: 10.1007/978-1-4939-3530-7_3. PMID: 27147034.

114. Taylor MS, LaCava J, Dai L, Mita P, Burns KH, Rout MP, Boeke JD. Characterization of L1-Ribonucleoprotein Particles. Methods Mol Biol. 2016;1400:311-38. doi: 10.1007/978-1-4939-3372-3_20. PMID: 26895062; PMCID: PMC5084692.

113. Heider MR, Gu M, Duffy CM, Mirza AM, Marcotte LL, Walls AC, Farrall N, Hakhverdyan Z, Field MC, Rout MP, Frost A, Munson M. Subunit connectivity, assembly determinants and architecture of the yeast exocyst complex. Nat Struct Mol Biol. 2016 Jan;23(1):59-66. doi: 10.1038/nsmb.3146. Epub 2015 Dec 14. PMID: 26656853; PMCID: PMC4752824.

2015

112. Shi Y, Pellarin R, Fridy PC, Fernandez-Martinez J, Thompson MK, Li Y, Wang QJ, Sali A, Rout MP, Chait BT. A strategy for dissecting the architectures of native macromolecular assemblies. Nat Methods. 2015 Dec;12(12):1135-8. doi: 10.1038/nmeth.3617. Epub 2015 Oct 5. PMID: 26436480; PMCID: PMC4803312.

111. Aitchison JD, Rout MP. The interactome challenge. J Cell Biol. 2015 Nov 23;211(4):729-32. doi: 10.1083/jcb.201510108. Epub 2015 Nov 16. PMID: 26572620; PMCID: PMC4657177.

110. Hough LE, Dutta K, Sparks S, Temel DB, Kamal A, Tetenbaum-Novatt J, Rout MP, Cowburn D. The molecular mechanism of nuclear transport revealed by atomic-scale measurements. Elife. 2015 Sep 15;4:e10027. doi: 10.7554/eLife.10027. PMID: 26371551; PMCID: PMC4621360.

109. Dokudovskaya S, Rout MP. SEA you later alli-GATOR–a dynamic regulator of the TORC1 stress response pathway. J Cell Sci. 2015 Jun 15;128(12):2219-28. doi: 10.1242/jcs.168922. Epub 2015 May 1. PMID: 25934700; PMCID: PMC4487016.

108. Hakhverdyan Z, Domanski M, Hough LE, Oroskar AA, Oroskar AR, Keegan S, Dilworth DJ, Molloy KR, Sherman V, Aitchison JD, Fenyö D, Chait BT, Jensen TH, Rout MP, LaCava J. Rapid, optimized interactomic screening. Nat Methods. 2015 Jun;12(6):553-60. doi: 10.1038/nmeth.3395. Epub 2015 May 4. PMID: 25938370; PMCID: PMC4449307.

107. Fridy PC, Thompson MK, Ketaren NE, Rout MP. Engineered high-affinity nanobodies recognizing staphylococcal Protein A and suitable for native isolation of protein complexes. Anal Biochem. 2015 May 15;477:92-4. doi: 10.1016/j.ab.2015.02.013. Epub 2015 Feb 21. PMID: 25707320; PMCID: PMC4404190.

106. Lord CL, Timney BL, Rout MP, Wente SR. Altering nuclear pore complex function impacts longevity and mitochondrial function in S. cerevisiae. J Cell Biol. 2015 Mar 16;208(6):729-44. doi: 10.1083/jcb.201412024. PMID: 25778920; PMCID: PMC4362458.

105. LaCava J, Molloy KR, Taylor MS, Domanski M, Chait BT, Rout MP. Affinity proteomics to study endogenous protein complexes: pointers, pitfalls, preferences and perspectives. Biotechniques. 2015 Mar 1;58(3):103-19. doi: 10.2144/000114262. PMID: 25757543; PMCID: PMC4465938.

2014

104. Fridy PC, Li Y, Keegan S, Thompson MK, Nudelman I, Scheid JF, Oeffinger M, Nussenzweig MC, Fenyö D, Chait BT, Rout MP. A robust pipeline for rapid production of versatile nanobody repertoires. Nat Methods.2014 Dec;11(12):1253-60. doi: 10.1038/nmeth.3170. Epub 2014 Nov 2. PMID: 25362362; PMCID: PMC4272012.

103. Shi Y, Fernandez-Martinez J, Tjioe E, Pellarin R, Kim SJ, Williams R, Schneidman-Duhovny D, Sali A, Rout MP, Chait BT. Structural characterization by cross-linking reveals the detailed architecture of a coatomer-related heptameric module from the nuclear pore complex. Mol Cell Proteomics. 2014 Nov;13(11):2927-43. doi: 10.1074/mcp.M114.041673. Epub 2014 Aug 26. PMID:25161197; PMCID: PMC4223482.

102. Kim SJ, Fernandez-Martinez J, Sampathkumar P, Martel A, Matsui T, Tsuruta H, Weiss TM, Shi Y, Markina-Inarrairaegui A, Bonanno JB, Sauder JM, Burley SK, Chait BT, Almo SC, Rout MP, Sali A. Integrative structure-function mapping of the nucleoporin Nup133 suggests a conserved mechanism for membrane anchoring of the nuclear pore complex. Mol Cell Proteomics. 2014 Nov;13(11):2911-26. doi: 10.1074/mcp.M114.040915. Epub 2014 Aug 19. PMID: 25139911; PMCID: PMC4223481.

101. Algret R, Fernandez-Martinez J, Shi Y, Kim SJ, Pellarin R, Cimermancic P, Cochet E, Sali A, Chait BT, Rout MP, Dokudovskaya S. Molecular architecture and function of the SEA complex, a modulator of the TORC1 pathway. Mol Cell Proteomics. 2014 Nov;13(11):2855-70. doi: 10.1074/mcp.M114.039388. Epub 2014 Jul 29. PMID: 25073740; PMCID: PMC4223477.

100. Holden JM, Koreny L, Kelly S, Chait BT, Rout MP, Field MC, Obado SO. Touching from a distance.Nucleus. 2014 Jul-Aug;5(4):304-10. doi: 10.4161/nucl.32228. PMID: 25482119; PMCID: PMC4152344.

99. Rout MP, Karpen GH. Editorial overview: Cell nucleus: the nucleus: a dynamic organelle. Curr Opin Cell Biol. 2014 Jun;28:iv-vii. doi: 10.1016/j.ceb.2014.05.005. Epub 2014 Jun 4. PMID: 24908378.

98. Holden JM, Koreny L, Obado S, Ratushny AV, Chen WM, Chiang JH, Kelly S, Chait BT, Aitchison JD, Rout MP, Field MC. Nuclear pore complex evolution: a trypanosome Mlp analogue functions in chromosomal segregation but lacks transcriptional barrier activity. Mol Biol Cell. 2014 May;25(9):1421-36. doi: 10.1091/mbc.E13-12-0750. Epub 2014 Mar 5. PMID: 24600046; PMCID: PMC4004592.

97. Field MC, Koreny L, Rout MP. Enriching the pore: splendid complexity from humble origins. Traffic. 2014 Feb;15(2):141-56. doi: 10.1111/tra.12141. Epub 2014 Jan 8. PMID: 24279500; PMCID: PMC3906644.

96. Jovanovic-Talisman T, Chait BT, Rout MP. NPC mimics: probing the mechanism of nucleocytoplasmic transport. Methods Cell Biol. 2014;122:379-93. doi: 10.1016/B978-0-12-417160-2.00017-5. PMID: 24857739; PMCID: PMC4272007.

95. Simon DN, Rout MP. Cancer and the nuclear pore complex. Adv Exp Med Biol. 2014;773:285-307. doi: 10.1007/978-1-4899-8032-8_13. PMID: 24563353.

2013

94. Andersen PR, Domanski M, Kristiansen MS, Storvall H, Ntini E, Verheggen C, Schein A, Bunkenborg J, Poser I, Hallais M, Sandberg R, Hyman A, LaCava J, Rout MP, Andersen JS, Bertrand E, Jensen TH. The human cap-binding complex is functionally connected to the nuclear RNA exosome. Nat Struct Mol Biol. 2013 Dec;20(12):1367-76. doi: 10.1038/nsmb.2703. Epub 2013 Nov 24. PMID: 24270879; PMCID: PMC3923317.

93. Niepel M, Molloy KR, Williams R, Farr JC, Meinema AC, Vecchietti N, Cristea IM, Chait BT, Rout MP, Strambio-De-Castillia C. The nuclear basket proteins Mlp1p and Mlp2p are part of a dynamic interactome including Esc1p and the proteasome. Mol Biol Cell. 2013 Dec;24(24):3920-38. doi:10.1091/mbc.E13-07-0412. Epub 2013 Oct 23. PMID: 24152732; PMCID: PMC3861087.

92. Smith TC, Fridy PC, Li Y, Basil S, Arjun S, Friesen RM, Leszyk J, Chait BT, Rout MP, Luna EJ. Supervillin binding to myosin II and synergism with anillin are required for cytokinesis. Mol Biol Cell. 2013 Dec;24(23):3603-19. doi: 10.1091/mbc.E12-10-0714. Epub 2013 Oct 2. PMID: 24088567; PMCID: PMC3842989.

91. Taylor MS, LaCava J, Mita P, Molloy KR, Huang CR, Li D, Adney EM, Jiang H, Burns KH, Chait BT, Rout MP, Boeke JD, Dai L. Affinity proteomics reveals human host factors implicated in discrete stages of LINE-1 retrotransposition. Cell. 2013 Nov 21;155(5):1034-48. doi: 10.1016/j.cell.2013.10.021. PMID: 24267889; PMCID: PMC3904357.

90. 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. Structure, dynamics, evolution, and function of a major scaffold component in the nuclear pore complex. Structure. 2013 Apr 2;21(4):560-71. doi: 10.1016/j.str.2013.02.005. Epub 2013 Mar 14. PMID: 23499021; PMCID: PMC3755625

89. LaCava J, Chandramouli N, Jiang H, Rout MP. Improved native isolation of endogenous Protein A-tagged protein complexes. Biotechniques. 2013 Apr;54(4):213-6. doi: 10.2144/000114012. PMID: 23581468; PMCID: PMC3667664.

2012

88. Field MC, Horn D, Alsford S, Koreny L, Rout MP. Telomeres, tethers and trypanosomes. Nucleus. 2012 Nov-Dec;3(6):478-86. doi: 10.4161/nucl.22167. Epub 2012 Sep 19. PMID: 22992703; PMCID: PMC3515529.

87. Sampathkumar P, Kim SJ, Manglicmot D, Bain KT, Gilmore J, Gheyi T, Phillips J, Pieper U, Fernandez-Martinez J, Franke JD, Matsui T, Tsuruta H, Atwell S, Thompson DA, Emtage JS, Wasserman SR, Rout MP, Sali A, Sauder JM, Almo SC, Burley SK. Atomic structure of the nuclear pore complex targeting domain of a Nup116 homologue from the yeast, Candida glabrata. Proteins. 2012 Aug;80(8):2110-6. doi: 10.1002/prot.24102. Epub 2012 Jun 4. PMID: 22544723; PMCID: PMC3686472.

86. Field MC, Adung’a V, Obado S, Chait BT, Rout MP. Proteomics on the rims: insights into the biology of the nuclear envelope and flagellar pocket of trypanosomes. Parasitology. 2012 Aug;139(9):1158-67. doi: 10.1017/S0031182011002125. Epub 2012 Feb 6. PMID: 22309600; PMCID: PMC4241632.

85. Domanski M, Molloy K, Jiang H, Chait BT, Rout MP, Jensen TH, LaCava J. Improved methodology for the affinity isolation of human protein complexes expressed at near endogenous levels. Biotechniques. 2012 May;0(0):1-6. doi: 10.2144/000113864. PMID: 22668517; PMCID: PMC3605737.

84. Tetenbaum-Novatt J, Hough LE, Mironska R, McKenney AS, Rout MP. Nucleocytoplasmic transport: a role for nonspecific competition in karyopherin- nucleoporin interactions. Mol Cell Proteomics. 2012 May;11(5):31-46. doi: 10.1074/mcp.M111.013656. Epub 2012 Feb 22. PMID: 22357553; PMCID: PMC3418842.

83. Obado SO, Rout MP. Ciliary and nuclear transport: different places, similar routes? Dev Cell. 2012 Apr 17;22(4):693-4. doi: 10.1016/j.devcel.2012.04.002. PMID: 22516195.

82. Aitchison JD, Rout MP. The yeast nuclear pore complex and transport through it. Genetics. 2012 Mar;190(3):855-83. doi: 10.1534/genetics.111.127803. PMID: 22419078; PMCID: PMC3296253.

81. Fernandez-Martinez J, Phillips J, Sekedat MD, Diaz-Avalos R, Velazquez- Muriel J, Franke JD, Williams R, Stokes DL, Chait BT, Sali A, Rout MP. Structure-function mapping of a heptameric module in the nuclear pore complex. J Cell Biol. 2012 Feb 20;196(4):419-34. doi: 10.1083/jcb.201109008. Epub 2012 Feb 13. PMID: 22331846; PMCID: PMC3283990.

80. Fernandez-Martinez J, Rout MP. A jumbo problem: mapping the structure and functions of the nuclear pore complex. Curr Opin Cell Biol. 2012 Feb;24(1):92-9. doi: 10.1016/j.ceb.2011.12.013. Epub 2012 Feb 8. PMID: 22321828; PMCID: PMC3472030.

79. DuBois KN, Alsford S, Holden JM, Buisson J, Swiderski M, Bart JM, Ratushny AV, Wan Y, Bastin P, Barry JD, Navarro M, Horn D, Aitchison JD, Rout MP, Field MC. NUP-1 Is a large coiled-coil nucleoskeletal protein in trypanosomes with lamin-like functions. PLoS Biol. 2012;10(3):e1001287. doi: 10.1371/journal.pbio.1001287. Epub 2012 Mar 27. PMID: 22479148; PMCID: PMC3313915.

2012

83. Obado SO, Rout MP. Ciliary and nuclear transport: different places, similar routes? Dev Cell. 2012 Apr 17;22(4):693-4. doi: 10.1016/j.devcel.2012.04.002. PMID: 22516195.

82. Aitchison JD, Rout MP. The yeast nuclear pore complex and transport through it. Genetics. 2012 Mar;190(3):855-83. doi: 10.1534/genetics.111.127803. PMID: 22419078; PMCID: PMC3296253.

2011

78. Dokudovskaya S, Rout MP. A novel coatomer-related SEA complex dynamically associates with the vacuole in yeast and is implicated in the response tonitrogen starvation. Autophagy. 2011 Nov;7(11):1392-3. doi: 10.4161/auto.7.11.17347. Epub 2011 Nov 1. PMID: 21804352; PMCID: PMC3242801.

77. Grünwald D, Singer RH, Rout M. Nuclear export dynamics of RNA-protein complexes. Nature. 2011 Jul 20;475(7356):333-41. doi: 10.1038/nature10318. PMID: 21776079

76. Keck JM, Jones MH, Wong CC, Binkley J, Chen D, Jaspersen SL, Holinger EP, Xu T, Niepel M, Rout MP, Vogel J, Sidow A, Yates JR 3rd, Winey M. A cell cycle phosphoproteome of the yeast centrosome. Science. 2011 Jun 24;332(6037):1557-61. doi: 10.1126/science.1205193. PMID: 21700874; PMCID: PMC3825980.

75. Field MC, Sali A, Rout MP. Evolution: On a bender–BARs, ESCRTs, COPs, and finally getting your coat. J Cell Biol. 2011 Jun 13;193(6):963-72. doi: 10.1083/jcb.201102042. PMID: 21670211; PMCID: PMC3115789.

74. Dokudovskaya S, Waharte F, Schlessinger A, Pieper U, Devos DP, Cristea IM, Williams R, Salamero J, Chait BT, Sali A, Field MC, Rout MP, Dargemont C. A conserved coatomer-related complex containing Sec13 and Seh1 dynamically associates with the vacuole in Saccharomyces cerevisiae. Mol Cell Proteomics. 2011 Jun;10(6):M110.006478. doi: 10.1074/mcp.M110.006478. Epub 2011 Mar 31. PMID: 21454883; PMCID: PMC3108837.

73. Sampathkumar P, Gheyi T, Miller SA, Bain KT, Dickey M, Bonanno JB, Kim SJ, Phillips J, Pieper U, Fernandez-Martinez J, Franke JD, Martel A, Tsuruta H, Atwell S, Thompson DA, Emtage JS, Wasserman SR, Rout MP, Sali A, Sauder JM, Burley SK. Structure of the C-terminal domain of Saccharomyces cerevisiae Nup133, a component of the nuclear pore complex. Proteins. 2011 May;79(5):1672-7. doi: 10.1002/prot.22973. Epub 2011 Mar 1. PMID: 21365675; PMCID: PMC3350809.

2010

72. Wente SR, Rout MP. The nuclear pore complex and nuclear transport. Cold Spring Harb Perspect Biol. 2010 Oct;2(10):a000562. doi: 10.1101/cshperspect.a000562. Epub 2010 Jul 14. PMID: 20630994; PMCID: PMC2944363.

71. Cristea IM, Moorman NJ, Terhune SS, Cuevas CD, O’Keefe ES, Rout MP, Chait BT, Shenk T. Human cytomegalovirus pUL83 stimulates activity of the viral immediate-early promoter through its interaction with the cellular IFI16 protein. J Virol. 2010 Aug;84(15):7803-14. doi: 10.1128/JVI.00139-10. Epub 2010 May 26. PMID: 20504932; PMCID: PMC2897612.

70. Strambio-De-Castillia C, Niepel M, Rout MP. The nuclear pore complex: bridging nuclear transport and gene regulation. Nat Rev Mol Cell Biol. 2010 Jul;11(7):490-501. doi: 10.1038/nrm2928. PMID: 20571586.

69. Cristea IM, Rozjabek H, Molloy KR, Karki S, White LL, Rice CM, Rout MP, Chait BT, MacDonald MR. Host factors associated with the Sindbis virus RNA-dependent RNA polymerase: role for G3BP1 and G3BP2 in virus replication. JVirol. 2010 Jul;84(13):6720-32. doi: 10.1128/JVI.01983-09. Epub 2010 Apr 14. PMID: 20392851; PMCID: PMC2903289.

68. Terhune SS, Moorman NJ, Cristea IM, Savaryn JP, Cuevas-Bennett C, Rout MP, Chait BT, Shenk T. Human cytomegalovirus UL29/28 protein interacts with components of the NuRD complex which promote accumulation of immediate-early RNA. PLoS Pathog. 2010 Jun 24;6(6):e1000965. doi: 10.1371/journal.ppat.1000965. PMID: 20585571; PMCID: PMC2891856.

67. Zilman A, Di Talia S, Jovanovic-Talisman T, Chait BT, Rout MP, Magnasco MO. Enhancement of transport selectivity through nano-channels by non-specific competition. PLoS Comput Biol. 2010 Jun 10;6(6):e1000804. doi: 10.1371/journal.pcbi.1000804. PMID: 20548778; PMCID: PMC2883555.

66. Sampathkumar P, Ozyurt SA, Do J, Bain KT, Dickey M, Rodgers LA, Gheyi T, Sali A, Kim SJ, Phillips J, Pieper U, Fernandez-Martinez J, Franke JD, Martel A, Tsuruta H, Atwell S, Thompson DA, Emtage JS, Wasserman SR, Rout MP, Sauder JM, Burley SK. Structures of the autoproteolytic domain from the Saccharomyces cerevisiae nuclear pore complex component, Nup145. Proteins. 2010 Jun;78(8):1992-8. doi: 10.1002/prot.22707. PMID: 20310066; PMCID: PMC3136511.

65. Tetenbaum-Novatt J, Rout MP. The mechanism of nucleocytoplasmic transport through the nuclear pore complex. Cold Spring Harb Symp Quant Biol. 2010;75:567-84. doi: 10.1101/sqb.2010.75.033. Epub 2011 Mar 29. PMID: 21447814

2009

64. Oeffinger M, Zenklusen D, Ferguson A, Wei KE, El Hage A, Tollervey D, Chait BT, Singer RH, Rout MP. Rrp17p is a eukaryotic exonuclease required for 5′ end processing of Pre-60S ribosomal RNA. Mol Cell. 2009 Dec 11;36(5):768-81. doi: 10.1016/j.molcel.2009.11.011. PMID: 20005841; PMCID: PMC2806520.

63. DeGrasse JA, DuBois KN, Devos D, Siegel TN, Sali A, Field MC, Rout MP, Chait BT. Evidence for a shared nuclear pore complex architecture that is conserved from the last common eukaryotic ancestor. Mol Cell Proteomics. 2009 Sep;8(9):2119-30. doi: 10.1074/mcp.M900038-MCP200. Epub 2009 Jun 13. PMID: 19525551; PMCID: PMC2742445.

62. Fernandez-Martinez J, Rout MP. Nuclear pore complex biogenesis. Curr Opin Cell Biol. 2009 Aug;21(4):603-12. doi: 10.1016/j.ceb.2009.05.001. Epub 2009 Jun 11. PMID: 19524430; PMCID: PMC2749478.

61. Jovanovic-Talisman T, Tetenbaum-Novatt J, McKenney AS, Zilman A, Peters R, Rout MP, Chait BT. Artificial nanopores that mimic the transport selectivity of the nuclear pore complex. Nature. 2009 Feb 19;457(7232):1023-7. doi: 10.1038/nature07600. Epub 2008 Dec 21. PMID: 19098896; PMCID: PMC2764719.

60. Lew DJ, Rout MP. Cell structure and dynamics. Curr Opin Cell Biol. 2009 Feb;21(1):1-3. doi: 10.1016/j.ceb.2009.01.010. PMID: 19185481; PMCID: PMC2676332.

2008

59. Rout MP. The peroxisome: a production in four acts. J Cell Biol. 2008 Apr 21;181(2):185-7. doi: 10.1083/jcb.200803126. PMID: 18426973; PMCID: PMC2315666.

58. Moorman NJ, Cristea IM, Terhune SS, Rout MP, Chait BT, Shenk T. Human cytomegalovirus protein UL38 inhibits host cell stress responses by antagonizing the tuberous sclerosis protein complex. Cell Host Microbe. 2008 Apr 17;3(4):253-62. doi: 10.1016/j.chom.2008.03.002. PMID: 18407068; PMCID: PMC2759192.

57. Westblade LF, Minakhin L, Kuznedelov K, Tackett AJ, Chang EJ, Mooney RA, Vvedenskaya I, Wang QJ, Fenyö D, Rout MP, Landick R, Chait BT, Severinov K, Darst SA. Rapid isolation and identification of bacteriophage T4-encoded modifications of Escherichia coli RNA polymerase: a generic method to study bacteriophage/host interactions. J Proteome Res. 2008 Mar;7(3):1244-50. doi: 10.1021/pr070451j. Epub 2008 Feb 14. PMID: 18271525; PMCID: PMC2612130.

56. DeGrasse JA, Chait BT, Field MC, Rout MP. High-yield isolation and subcellular proteomic characterization of nuclear and subnuclear structures from trypanosomes. Methods Mol Biol. 2008;463:77-92. doi: 10.1007/978-1-59745-406-3_6. PMID: 18951162. source: https://thebytenews247.blogspot.com/

2007

55. Alber F, Dokudovskaya S, Veenhoff LM, Zhang W, Kipper J, Devos D, Suprapto A, Karni-Schmidt O, Williams R, Chait BT, Sali A, Rout MP. The molecular architecture of the nuclear pore complex. Nature. 2007 Nov 29;450(7170):695-701. doi: 10.1038/nature06405. PMID: 18046406.

54. Alber F, Dokudovskaya S, Veenhoff LM, Zhang W, Kipper J, Devos D, Suprapto A, Karni-Schmidt O, Williams R, Chait BT, Rout MP, Sali A. Determining the architectures of macromolecular assemblies. Nature. 2007 Nov 29;450(7170):683-94. doi: 10.1038/nature06404. PMID: 18046405.

53. Oeffinger M, Wei KE, Rogers R, DeGrasse JA, Chait BT, Aitchison JD, Rout MP. Comprehensive analysis of diverse ribonucleoprotein complexes. Nat Methods. 2007 Nov;4(11):951-6. doi: 10.1038/nmeth1101. Epub 2007 Oct 7. PMID: 17922018.

52. Zhang J, Harnpicharnchai P, Jakovljevic J, Tang L, Guo Y, Oeffinger M, Rout MP, Hiley SL, Hughes T, Woolford JL Jr. Assembly factors Rpf2 and Rrs1 recruit 5S rRNA and ribosomal proteins rpL5 and rpL11 into nascent ribosomes. Genes Dev. 2007 Oct 15;21(20):2580-92. doi: 10.1101/gad.1569307. PMID: 17938242; PMCID: PMC2000323.

51. Zilman A, Di Talia S, Chait BT, Rout MP, Magnasco MO. Efficiency, selectivity, and robustness of nucleocytoplasmic transport. PLoS Comput Biol. 2007 Jul;3(7):e125. doi: 10.1371/journal.pcbi.0030125. PMID: 17630825; PMCID: PMC1914370.

50. Oeffinger M, Fatica A, Rout MP, Tollervey D. Yeast Rrp14p is required for ribosomal subunit synthesis and for correct positioning of the mitotic spindle during mitosis. Nucleic Acids Res. 2007;35(4):1354-66. doi: 10.1093/nar/gkl824. Epub 2007 Feb 1. PMID: 17272295; PMCID: PMC1849896.

2006

49. Timney BL, Tetenbaum-Novatt J, Agate DS, Williams R, Zhang W, Chait BT, Rout MP. Simple kinetic relationships and nonspecific competition govern nuclear import rates in vivo. J Cell Biol. 2006 Nov 20;175(4):579-93. doi: 10.1083/jcb.200608141. PMID: 17116750; PMCID: PMC2064595.

48. Cristea IM, Carroll JW, Rout MP, Rice CM, Chait BT, MacDonald MR. Tracking and elucidating alphavirus-host protein interactions. J Biol Chem. 2006 Oct 6;281(40):30269-78. doi: 10.1074/jbc.M603980200. Epub 2006 Aug 8. PMID: 16895903.

47. Wang QJ, Ding Y, Kohtz DS, Mizushima N, Cristea IM, Rout MP, Chait BT, Zhong Y, Heintz N, Yue Z. Induction of autophagy in axonal dystrophy and degeneration. J Neurosci. 2006 Aug 2;26(31):8057-68. doi: 10.1523/JNEUROSCI.2261-06.2006. Erratum in: J Neurosci. 2006 Aug 15;26(33):1 p preceding 8409. Kohtz, Stave [corrected to Kohtz, D Stave]. PMID: 16885219; PMCID: PMC6673783.

46. Leslie DM, Timney B, Rout MP, Aitchison JD. Studying nuclear protein import in yeast. Methods. 2006 Aug;39(4):291-308. doi: 10.1016/j.ymeth.2006.07.013. PMID: 16979507.

45. Dokudovskaya S, Williams R, Devos D, Sali A, Chait BT, Rout MP. Protease accessibility laddering: a proteomic tool for probing protein structure. Structure. 2006 Apr;14(4):653-60. doi: 10.1016/j.str.2006.02.006. PMID: 16615907.

44. Devos D, Dokudovskaya S, Williams R, Alber F, Eswar N, Chait BT, Rout MP, Sali A. Simple fold composition and modular architecture of the nuclear pore complex. Proc Natl Acad Sci U S A. 2006 Feb 14;103(7):2172-7. doi: 10.1073/pnas.0506345103. Epub 2006 Feb 6. PMID: 16461911; PMCID: PMC1413685.
52. Zhang J, Harnpicharnchai P, Jakovljevic J, Tang L, Guo Y, Oeffinger M, Rout MP, Hiley SL, Hughes T, Woolford JL Jr. Assembly factors Rpf2 and Rrs1 recruit 5S rRNA and ribosomal proteins rpL5 and rpL11 into nascent ribosomes. Genes Dev. 2007 Oct 15;21(20):2580-92. doi: 10.1101/gad.1569307. PMID: 17938242; PMCID: PMC2000323.

2005

43. Cristea IM, Williams R, Chait BT, Rout MP. Fluorescent proteins as proteomic probes. Mol Cell Proteomics. 2005 Dec;4(12):1933-41. doi:10.1074/mcp.M500227-MCP200. Epub 2005 Sep 9. PMID: 16155292.

42. Strambio-de-Castillia C, Tetenbaum-Novatt J, Imai BS, Chait BT, Rout MP. A method for the rapid and efficient elution of native affinity-purified protein A tagged complexes. J Proteome Res. 2005 Nov-Dec;4(6):2250-6. doi: 10.1021/pr0501517. PMID: 16335973.

41. Tackett AJ, DeGrasse JA, Sekedat MD, Oeffinger M, Rout MP, Chait BT. I-DIRT, a general method for distinguishing between specific and nonspecific protein interactions. J Proteome Res. 2005 Sep-Oct;4(5):1752-6. doi: 10.1021/pr050225e. PMID: 16212429.

40. Niepel M, Strambio-de-Castillia C, Fasolo J, Chait BT, Rout MP. The nuclear pore complex-associated protein, Mlp2p, binds to the yeast spindle pole body and promotes its efficient assembly. J Cell Biol. 2005 Jul 18;170(2):225-35. doi: 10.1083/jcb.200504140. PMID: 16027220; PMCID: PMC2171418.

39. Tackett AJ, Dilworth DJ, Davey MJ, O’Donnell M, Aitchison JD, Rout MP, Chait BT. Proteomic and genomic characterization of chromatin complexes at a boundary. J Cell Biol. 2005 Apr 11;169(1):35-47. doi: 10.1083/jcb.200502104. PMID: 15824130; PMCID: PMC2171912.

2004

38. Devos D, Dokudovskaya S, Alber F, Williams R, Chait BT, Sali A, Rout MP. Components of coated vesicles and nuclear pore complexes share a common molecular architecture. PLoS Biol. 2004 Dec;2(12):e380. doi: 10.1371/journal.pbio.0020380. Epub 2004 Nov 2. Erratum in: PLoS Biol. 2005 Feb;3(2):e80. PMID: 15523559; PMCID: PMC524472.

37. Leslie DM, Zhang W, Timney BL, Chait BT, Rout MP, Wozniak RW, Aitchison JD. Characterization of karyopherin cargoes reveals unique mechanisms of Kap121p-mediated nuclear import. Mol Cell Biol. 2004 Oct;24(19):8487-503. doi: 10.1128/MCB.24.19.8487-8503.2004. Erratum in: Mol Cell Biol. 2004 Nov;24(22):10099. PMID: 15367670; PMCID: PMC516728.

36. Archambault V, Chang EJ, Drapkin BJ, Cross FR, Chait BT, Rout MP. Targeted proteomic study of the cyclin-Cdk module. Mol Cell. 2004 Jun 18;14(6):699-711. doi: 10.1016/j.molcel.2004.05.025. PMID: 15200949.

35. Timney BL, Rout MP. Robbing from the pore. Nat Cell Biol. 2004 Mar;6(3):177-9. doi: 10.1038/ncb0304-177. PMID: 15039784.

2003

34. Rout MP, Aitchison JD, Magnasco MO, Chait BT. Virtual gating and nuclear transport: the hole picture. Trends Cell Biol. 2003 Dec;13(12):622-8. doi: 10.1016/j.tcb.2003.10.007. PMID: 14624840.

33. Archambault V, Li CX, Tackett AJ, Wasch R, Chait BT, Rout MP, Cross FR. Genetic and biochemical evaluation of the importance of Cdc6 in regulating mitotic exit. Mol Biol Cell. 2003 Nov;14(11):4592-604. doi:10.1091/mbc.e03-06-0384. Epub 2003 Sep 5. Erratum in: Mol Biol Cell. 2005 Mar;16(3):1568. PMID: 12960422; PMCID: PMC313736.

2002

32. Dokudovskaya S, Veenhoff LM, Rout MP. Cleave to leave: structural insights into the dynamic organization of the nuclear pore complex. Mol Cell. 2002 Aug;10(2):221-3. doi: 10.1016/s1097-2765(02)00606-8. PMID: 12191467.

31. Leslie DM, Grill B, Rout MP, Wozniak RW, Aitchison JD. Kap121p-mediated nuclear import is required for mating and cellular differentiation in yeast. Mol Cell Biol. 2002 Apr;22(8):2544-55. doi: 10.1128/MCB.22.8.2544-2555.2002. PMID: 11909949; PMCID: PMC133723.

30. Aitchison JD, Rout MP. A tense time for the nuclear envelope. Cell. 2002 Feb 8;108(3):301-4. doi: 10.1016/s0092-8674(02)00638-4. PMID: 11853664.

29. Kipper J, Strambio-de-Castillia C, Suprapto A, Rout MP. Isolation of nuclear envelope from Saccharomyces cerevisiae. Methods Enzymol. 2002;351:394-408. doi: 10.1016/s0076-6879(02)51860-7. PMID: 12073359.

28. Kipper J, Strambio-de-Castillia C, Suprapto A, Rout MP. Isolation of nuclear envelope from Saccharomyces cerevisiae. Methods Enzymol. 2002;351:394-408. doi: 10.1016/s0076-6879(02)51860-7. PMID: 12073359 Review.

27. Strambio-de-Castillia C, Rout MP. The structure and composition of the yeast NPC. Results Probl Cell Differ. 2002;35:1-23. doi: 10.1007/978-3-540-44603-3_1. PMID: 11791402.

2001

26. Rout MP, Field MC. Isolation and characterization of subnuclear compartments from Trypanosoma brucei. Identification of a major repetitive nuclear lamina component. J Biol Chem. 2001 Oct 12;276(41):38261-71. doi: 10.1074/jbc.M104024200. Epub 2001 Jul 26. PMID: 11477078.

25. Dilworth DJ, Suprapto A, Padovan JC, Chait BT, Wozniak RW, Rout MP, Aitchison JD. Nup2p dynamically associates with the distal regions of the yeast nuclear pore complex. J Cell Biol. 2001 Jun 25;153(7):1465-78. doi: 10.1083/jcb.153.7.1465. PMID: 11425876; PMCID: PMC2150724.

24. Rout MP, Aitchison JD. The nuclear pore complex as a transport machine. J Biol Chem. 2001 May 18;276(20):16593-6. doi: 10.1074/jbc.R100015200. Epub 2001 Apr 5. PMID: 11283009.

2001

24. Rout MP, Aitchison JD. The nuclear pore complex as a transport machine. J Biol Chem. 2001 May 18;276(20):16593-6. doi: 10.1074/jbc.R100015200. Epub 2001 Apr 5. PMID: 11283009.

2000

23. Aitchison JD, Rout MP. The road to ribosomes. Filling potholes in the export pathway. J Cell Biol. 2000 Nov 27;151(5):F23-6. doi: 10.1083/jcb.151.5.f23. PMID: 11086014; PMCID: PMC2174363. The Byte News

22. Rout MP, Aitchison JD, Suprapto A, Hjertaas K, Zhao Y, Chait BT. The yeast nuclear pore complex: composition, architecture, and transport mechanism. J Cell Biol. 2000 Feb 21;148(4):635-51. doi: 10.1083/jcb.148.4.635. PMID: 10684247; PMCID: PMC2169373.

21. Rout MP, Aitchison JD. Pore relations: nuclear pore complexes and nucleocytoplasmic exchange. Essays Biochem. 2000;36:75-88. doi: 10.1042/bse0360075. PMID: 12471904.

1990 – 1999

20. Strambio de Castillia C, Rout MP. TAPping into transport. Nat Cell Biol. 1999 Jun;1(2):E31-3. doi: 10.1038/10024. PMID: 10559889.

19. Strambio-de-Castillia C, Blobel G, Rout MP. Proteins connecting the nuclear pore complex with the nuclear interior. J Cell Biol. 1999 Mar 8;144(5):839-55. doi: 10.1083/jcb.144.5.839. PMID: 10085285; PMCID: PMC2148185.

18. Chial HJ, Rout MP, Giddings TH, Winey M. Saccharomyces cerevisiae Ndc1p is a shared component of nuclear pore complexes and spindle pole bodies. J Cell Biol. 1998 Dec 28;143(7):1789-800. doi: 10.1083/jcb.143.7.1789. PMID: 9864355; PMCID: PMC2175219.

17. Wozniak RW, Rout MP, Aitchison JD. Karyopherins and kissing cousins. Trends Cell Biol. 1998 May;8(5):184-8. doi: 10.1016/s0962-8924(98)01248-3. PMID: 9695836.

16. Yang Q, Rout MP, Akey CW. Three-dimensional architecture of the isolated yeast nuclear pore complex: functional and evolutionary implications. Mol Cell. 1998 Jan;1(2):223-34. doi: 10.1016/s1097-2765(00)80023-4. PMID: 9659919.

15. Bullitt E, Rout MP, Kilmartin JV, Akey CW. The yeast spindle pole body is assembled around a central crystal of Spc42p. Cell. 1997 Jun 27;89(7):1077-86. doi: 10.1016/s0092-8674(00)80295-0. PMID: 9215630.

14. Rout MP, Blobel G, Aitchison JD. A distinct nuclear import pathway used by ribosomal proteins. Cell. 1997 May 30;89(5):715-25. doi: 10.1016/s0092-8674(00)80254-8. PMID: 9182759.

13. Aitchison JD, Blobel G, Rout MP. Kap104p: a karyopherin involved in the nuclear transport of messenger RNA binding proteins. Science. 1996 Oct 25;274(5287):624-7. doi: 10.1126/science.274.5287.624. PMID: 8849456.

12. Nehrbass U, Rout MP, Maguire S, Blobel G, Wozniak RW. The yeast nucleoporin Nup188p interacts genetically and physically with the core structures of the nuclear pore complex. J Cell Biol. 1996 Jun;133(6):1153-62. doi: 10.1083/jcb.133.6.1153. PMID: 8682855; PMCID: PMC2120901.

11. Aitchison JD, Blobel G, Rout MP. Nup120p: a yeast nucleoporin required for NPC distribution and mRNA transport. J Cell Biol. 1995 Dec;131(6 Pt 2):1659-75. doi: 10.1083/jcb.131.6.1659. PMID: 8557736; PMCID: PMC2120676.

10. Aitchison JD, Rout MP, Marelli M, Blobel G, Wozniak RW. Two novel related yeast nucleoporins Nup170p and Nup157p: complementation with the vertebrate homologue Nup155p and functional interactions with the yeast nuclear pore-membrane protein Pom152p. J Cell Biol. 1995 Dec;131(5):1133-48. doi: 10.1083/jcb.131.5.1133. PMID: 8522578; PMCID: PMC2120632.

9. Strambio-de-Castillia C, Blobel G, Rout MP. Isolation and characterization of nuclear envelopes from the yeast Saccharomyces. J Cell Biol. 1995 Oct;131(1):19-31. doi: 10.1083/jcb.131.1.19. PMID: 7559775; PMCID: PMC2120596.

8. Kraemer DM, Strambio-de-Castillia C, Blobel G, Rout MP. The essential yeast nucleoporin NUP159 is located on the cytoplasmic side of the nuclear pore complex and serves in karyopherin-mediated binding of transport substrate. J Biol Chem. 1995 Aug 11;270(32):19017-21. doi: 10.1074/jbc.270.32.19017. PMID: 7642562.

7. Pemberton LF, Rout MP, Blobel G. Disruption of the nucleoporin gene NUP133 results in clustering of nuclear pore complexes. Proc Natl Acad Sci U S A. 1995 Feb 14;92(4):1187-91. doi: 10.1073/pnas.92.4.1187. PMID: 7862658; PMCID: PMC42663.

6. Rout MP, Wente SR. Pores for thought: nuclear pore complex proteins. Trends Cell Biol. 1994 Oct;4(10):357-65. doi: 10.1016/0962-8924(94)90085-x. PMID: 14731624.

5. Wozniak RW, Blobel G, Rout MP. POM152 is an integral protein of the pore membrane domain of the yeast nuclear envelope. J Cell Biol. 1994 Apr;125(1):31-42. doi: 10.1083/jcb.125.1.31. PMID: 8138573; PMCID: PMC2120016.

4. Rout MP, Blobel G. Isolation of the yeast nuclear pore complex. J Cell Biol. 1993 Nov;123(4):771-83. doi: 10.1083/jcb.123.4.771. PMID: 8227139; PMCID: PMC2200146.

3. Wente SR, Rout MP, Blobel G. A new family of yeast nuclear pore complex proteins. J Cell Biol. 1992 Nov;119(4):705-23. doi: 10.1083/jcb.119.4.705. PMID: 1385442; PMCID: PMC2289698.

2. Rout MP, Kilmartin JV. Yeast spindle pole body components. Cold Spring Harb Symp Quant Biol. 1991;56:687-92. doi: 10.1101/sqb.1991.056.01.077. PMID: 1819516.

1. Rout MP, Kilmartin JV. Components of the yeast spindle and spindle pole body. J Cell Biol. 1990 Nov;111(5 Pt 1):1913-27. doi: 10.1083/jcb.111.5.1913. PMID: 2229181; PMCID: PMC2116313.