Uetz Lab Publications

For selected publications see Home or PubMed. For metrics see Google Scholar. If you do not have access to the linked papers, please email me at uetz@vcu.edu. In order to keep track of the literature and to make notes for myself (and others), I have also made more than 5000 edits on Wikipedia.

2024

• Chowdhury, S., Fong, S. & Uetz, P. (2024) The protein interactome of Escherichia coli carbohydrate metabolism. BioRxiv 2024.03.12.584555; https://doi.org/10.1101/2024.03.12.584555
•  Uetz PH, Patel M., Gbadamosi Z., ShoopeS., Nguyen A. (2024) A reference database of reptile images. BioRxiv, https://biorxiv.org/cgi/content/short/2024.03.08.584020v1
• Uetz, P. (2024) Myths about overpopulation. Free Inquiry, April/May 2024, pp. 36-41

2023

• Raz, T., T. M. Doan, A. Slavenko […], P. Uetz, U. Roll, S. Meiri (2023) Diversity gradients of terrestrial vertebrates. Journal of Zoology, https://doi.org/10.1111/jzo.13130
• Uetz, P.; Darko, Y.A.; Zeliff, D. (2023) Towards digital descriptions of all extant reptile species. Megataxa 010 (1): 027–042; https://doi.org/10.11646/megataxa.10.1.6
• Rodionova I., Hosseinni A., Kim S., Goodacre N., Zhang L., Zhang Z., Uetz P. Babu M. & Saier MH (2023) The E. coli allantoinase is activated by the downstream metabolic enzyme, glycerate kinase, and stabilizes the allantoin transporter by direct binding. Scientific Reports, 13:7345, https://doi.org/10.1038/s41598-023-31812-4
• Sandall EL, Maureaud AA, Guralnick R, McGeoch M, Sica YV, Rogan M, Booher D, Costello MJ, Edwards R, Franz N, Ingenloff K, Lucas M, Marsh CJ, McGowan J, Pinkert S, Ranipeta A, Uetz P, Wieczorek J, Jetz W (2023) A Globally Integrated Structure of Taxonomy to support biodiversity science and conservation. Trends in Ecology and Evolution, https://doi.org/10.1016/j.tree.2023.08.004
• Uetz, P. (2023) Eight myths about (human) overpopulation that are still widely believed.

Other stuff

• Book Review: Bill Gates, How to Avoid a Climate Disaster, Goodreads
• Book Review: Ulrike Herrmann, Das Ende des Kapitalismus (The End of capitalism), Goodreads
• Book Review: Paul R. Ehrlich, Life: A Journey through Science and Politics, Goodreads
• Q&A Blog – Reptile Awareness Day, Peter Uetz Interview, Young Geographic Association
• Snake species named after VCU professor, VCU News, Nov 2, 2023
• Toxic new species that can wither your organs has been discovered, Metro News, UK

2022

• Sandall EL, Maureaud AA, Guralnick R, McGeoch M, Sica YV, Rogan M, Booher D, Costello MJ, Edwards R, Franz N, Ingenloff K, Lucas M, Marsh CJ, McGowan J, Pinkert S, Ranipeta A, Uetz P, Wieczorek J, Jetz W (2022) A Globally Integrated Structure of Taxonomy supporting biodiversity science and conservation. EcoEvoRxiv. https://ecoevorxiv.org/repository/view/4627/
• Zimin, Anna; Zimin, Sean; Shine, Richard; Avila, Luciano; Bauer, Aaron; Böhm, Monika; Brown, Rafe; Barki, Goni; de Oliveira Caetano, Gabriel Henrique; Herrera, Fernando-Castro; Chapple, David; Chirio, Laurent; Colli, Guarino; Doan, Tiffany; Glaw, Frank; Grismer, L. Lee; Itescu, Yuval; Kraus, Fred; LeBreton, Matthew; Martins, Marcio; Morado, Mariana; Murali, Gopal; Nagy, Zoltán; Novosolov, Maria; Oliver, Paul; Passos, Paulo; Pauwels, Olivier; Pincheira-Donoso, Daniel; Ribeiro-Junior, Marco-Antonio; Shea, Glenn; Tingley, Reid; Torres-Carvajal, Omar; Trape, Jean-François; Uetz, Peter; Wagner, Philipp; Roll, Uri; Meiri, Shai (2021) A global analysis of viviparity in squamates highlights its prevalence in cold climates and high elevations. Global Ecology and Biogeography, https://doi.org/10.1111/geb.13598
• Crécy-Lagard V, Amorin de Hegedus R, Arighi C, Babor J, Bateman A, Blaby I, Blaby-Haas C, Bridge AJ, Burley SK, Cleveland S, Colwell LJ, Conesa A, Dallago C, Danchin A, de Waard A, Deutschbauer A, Dias R, Ding Y, Fang G, Friedberg I, Gerlt J, Goldford J, Gorelik M, Gyori BM, Henry C, Hutinet G, Jaroch M, Karp PD, Kondratova L, Lu Z, Marchler-Bauer A, Martin MJ, McWhite C, Moghe GD, Monaghan P, Morgat A, Mungall, Natale DA, Nelson WC, O’Donoghue S, Orengo C, O’Toole KH, Radivojac P, Reed C, Roberts RJ, Rodionov D, Rodionova IA, Rudolf JD, Saleh L, Sheynkman G, Thibaud-Nissen F, Thomas PD, Uetz P, Vallenet D, Carter EW, Weigele PR, Wood V, Wood-Charlson EM, Xu J. (2022) A roadmap for the functional annotation of protein families: a community perspective. Database (Oxford). 2022 Aug 12;2022:baac062. doi: https://doi.org/10.1093/database/baac062.
• Sandall EL, Maureaud AA, Guralnick R, McGeoch M, Sica YV, Rogan M, Booher D, Costello MJ, Edwards R, Franz N, Ingenloff K, Lucas M, Marsh CJ, McGowan J, Pinkert S, Ranipeta A, Uetz P, Wieczorek J, Jetz W (2022) Getting the GIST: testing an integrative data structure for linking taxonomy, biodiversity and conservation. Biodiversity Information Science and Standards, 6: e94209. https://doi.org/10.3897/biss.6.94209
• Darko YA, Voß A, Uetz P (2022) A dictionary of abbreviations used in reptile descriptions. Zootaxa 5219 (5): 421–432, https://doi.org/10.11646/zootaxa.5219.5.2
• Uetz, P., Rai, T.P., Thapa, R., Lester, B. & Freed, P. (2022) A herpetological trip to Nepal. Sauria, 44(4): 3–31

Book reviews: 

• Vanessa Baird (2011) The No-Nonsense Guide to World Population. Review on Goodreads
• Reiner Klingholz (2021) Zu viel für diese Welt: Wege aus der doppelten Überbevölkerung. Review on Goodreads
• Thomas Später (2021) Die Überbevölkerung. Review on Goodreads

2021

• Uetz P (2021) Addressing the biodiversity crisis with 12,000 reptiles – or one database? EMBL etc Winter 2021: 46-47.
• Farooq H. & Uetz P (2021) Can we identify European snakes by color patterns? Salamandra 57(4): 520–528.
• Uetz P (2021) The Reptile Database: Curating the biodiversity literature without funding. Biodiversity Information Science and Standards 5: e75448. 
• Uetz P, Koo MS, Aguilar R, Brings E, Catenazzi A, Chang AT, Chaitanya R, Freed P, Gross J, Hammermann M, Hosek J, Lambert M, Sergi Z, Spencer CL, Summers K, Tarvin R, Vredenburg VT, Wake DB (2021) A Quarter Century of Reptile and Amphibian Databases. Herpetological Review 52 (2): 246-255
• Durso, A. M., Ruiz de Castañeda, R., Montalcini, C., Mondardini, M.R., Fernandez- Marques, J.L. Grey, F., Müller, M.M., Uetz, P. et al. (2021) Citizen Science and Online Data: Opportunities and Challenges for Snake Ecology and Action against Snakebite. Toxicon, https://doi.org/10.1016/j.toxcx.2021.100071
• Chowdhury, S.; Hepper, S.; Lodi, M.K.; Saier, M.H., Jr.; Uetz, P. The Protein Interactome of Glycolysis in Escherichia coli. Proteomes 2021, 9, 16
• Mehla J, Liechti G, Morgenstein R, Brockett M, Sakhawalkar N, Caufield JH, Hunt JH, Vorobiev S, Rong X & Uetz P (2021) ZapG (YhcB/DUF1043), a novel cell division protein in gamma-proteobacteria linking the Z-ring to septal peptidoglycan synthesis. J. Biol. Chem.,296: 100700
• Mehla J, Liechti G, Morgenstein R, Brockett M, Sakhawalkar N, Caufield JH, Hunt JH, Vorobiev S, Rong X & Uetz P (2021) Functional and structural characterization of YhcB, DUF1043, an unknown protein conserved across proteobacteria. BioRxiv, posted 2 Jan 2021
• Chapple, David G, Uri Roll, et al. 2021. “Conservation Status of the World’s Skinks (Scincidae): Taxonomic and Geographic Patterns in Extinction Risk.” Biological Conservation 257: 109101.
• Uetz, P.; E.K. Ehmoser, D. Klostermeier, K. Richter, U. Curth (2021) Protein-Protein-Wechselwirkungen. In: Lottspeich, F. & Engels, J.W. (eds.) Bioanalytik, 4. Aufl., Spektrum-Verlag, Heidelberg, pp. 433-471 (online 10 Dec 2021, but imprinted 2022)
• Uetz P. & Pohl E. (2021) Protein-DNA and Protein-Protein-Interactions. In: Wink, M. (ed.), Introduction to Molecular Biotechnology, 3rd ed., Wiley-VCH, pp. 261-276 (textbook)
• Uetz P. (2021) Anole photos galore. Anole Annals, 16 Jan 2021

2020

• Marshall BM, Freed P, Vitt L, Bernardo P, Vogel G, Lotzkat S, Franzen M, Hallermann J, Sage RD, Bush B, Ribeiro-Duarte M, Avila LJ, Jandzik D, Klusmeyer B & Uetz P (2020) An inventory of online reptile images. Zootaxa, 4896 (2): 251–264
• Uetz, P., Slavenko, A., Meiri, S. & Heinicke, M. (2020) Gecko diversity: a history of global discovery. Israel Journal of Ecology & Evolution 66 (3-4): 117–125
• Uetz, P (2020) Book review: Pingleton, M. & Holbrook, J. (2019) The Field Herping Guide – Finding Amphibians and Reptiles in the Wild. Sauria, 42(2): 51–52
• Uetz, P. (2020) Six reasons why (and how) you should digitize your herp library. Bibliotheca Herpetologica, 14(7):47-50.
• Farooq, H. & Uetz, P. (2020) Identifying Australian snakes by color patterns. Vertebrate Zoology, 70 (3): 473–482
• Uetz, P., Freed, P. and Hošek, J. (2020) The Reptile Database — New Release August 2020. Herpetological Review 51 (4): 929

2019

• Uetz P, Cherikh S, Shea G, Ineich I, Campbell PD, Doronin IV, Rosado J, Wynn A, Tighe KA, Mcdiarmid R, Lee JL, Köhler G, Ellis R, Doughty P, Raxworthy CJ, Scheinberg L, Resetar A, Sabaj M, Schneider G, Franzen M, Glaw F, Böhme W, Schweiger S, Gemel R, Couper P, Amey A, Dondorp E, Ofer G, Meiri S, Wallach V. (2019) A global catalog of primary reptile type specimens. Zootaxa, 4695 (5): 438–450.
• Garg, A., Leipe, D. & Uetz, P. (2019) The disconnect between DNA and species names: lessons from reptile species in the NCBI taxonomy database. Zootaxa 4706 (3): 401–407
• Vidan E., Novosolov M., Bauer A.M., Castro Herrera F., Chirio L., de Campos Nogueira C., Doan T.M., Lewin A., Meirte D., Nagy Z.T., Pincheira-Donoso D., Tallowin O.J.S., Torres Carvajal O., Uetz P., Wagner P., Wang Y., Belmaker J., Meiri S. (2019) The global biogeography of lizard functional groups. Journal of Biogeography 46: 2147–2158, DOI: 10.1111/jbi.13667

2018

• Babu, M. [29 authors] Greenblatt, J.F., Saier, M., Uetz, P., Moraes, T., Parkinson, J. and Emili, A. (2018) Global Landscape of Membrane Protein Complexes in Escherichia coli. Nature Biotechnology, 36 (1): 103-112.
• Wuchty S, SA Mueller, JH Caufield, R Häuser, P Aloy, S Kalkhof, P Uetz (2018) Proteome data improves protein function prediction in the interactome of H. pylori. Mol. Cell. Prot., 17 (5): 961-973
• Rodionova, I.; Mohan Babu, Andrew Emili, Norman Goodacre, Peter Uetz & Milton Saier (2018) The nitrogen regulatory PII protein (GlnB) and N-acetyl-glucosamine 6-phosphate epimerase (NanE) allosterically activate glucosamine 6-phosphate deaminase (NagB) in Escherichia coli. Journal of Bacteriology, Feb 7;200(5). pii: e00691-17. doi: 10.1128/JB.00691-17
• Uetz, P., Mehla, J., K. Sinner, F. Oesterheld, K. Richter, D. Schubert, C. Urbanke (2018) Protein-protein interactions, in Lottspeich, F. (ed.), Bioanalytics, Wiley, pp. 381-417
• Mehla J., Caufield JH & Uetz P. (2018) Making the Right Choice: Critical Parameters of the Y2H Systems. In: Oñate-Sánchez (ed.), Two-Hybrid Systems. Methods and Protocols, Methods in Molecular Biology, 1794: 17-28
• Uetz, P. & Stylianou, A. (2018) The original descriptions of reptiles and their subspecies. Zootaxa 4375: 257-264.
• Arvanitidis CD, […] Uetz P, Utevsky S, Vacelet J, Väinölä R, van der Meij SE, van Haaren T, Venekey V, Vos C, Walker-Smith G, Walter CT, Watling L, Wayland M, Whipps C, Williams G, Wilson R, Yasuhara M, Zanol J, Zeidler W. 2018. Research Infrastructures offer capacity to address scientific questions never attempted before: Are all taxa equal? PeerJ Preprints 6:e26819v2

2017

• Mehla J. et al. (2017) Virus-host protein-protein interactions of mycobacteriophage Giles. Sci. Reports, 7: 16514.
• Babu, M. [29 authors] Greenblatt, J.F., Saier, M., Uetz, P., Moraes, T., Parkinson, J. and Emili, A. (2017) Global Landscape of Membrane Protein Complexes in Escherichia coli. Nature Biotechnology, published online 27 Nov 2017.
• Berjón-Otero M, Lechuga A, Mehla J, Uetz P, Salas M, Redrejo-Rodríguez M. (2017) Bam35 tectivirus intraviral interaction map unveils new function and localization of phage ORFan proteins. J Virol. 2017 Jul 26. pii: JVI.00870-17. doi: 10.1128/JVI.00870-17
• Wuchty S, Rajagopala SV, Blazie SM, Parrish JR, Khuri S, Finley RL Jr, Uetz P (2017) The Protein Interactome of Streptococcus pneumoniae and Bacterial Meta-interactomes Improve Function Predictions. mSystems. 2017 Jun 6;2(3). pii: e00019-17. doi: 10.1128/mSystems.00019-17.
• Rodionova IA, Zhang Z, Mehla J, Goodacre N, Babu M, Emili A, Uetz P, Saier MH Jr (2017) The phosphocarrier protein HPr of the bacterial phosphotransferase system globally regulates energy metabolism by directly interacting with multiple enzymes in Escherichia coli. J Biol Chem. 2017 Jun 20. pii: jbc.M117.795294. doi: 10.1074/jbc.M117.795294
• Uetz, P. & Garg, A. (2017) Correspondence: Increasing disconnect between species and DNA sequences. Nature 545(7655):412
• Caufield JH, Wimble C, Shary S, Wuchty S & Uetz P (2017) Bacterial Protein Meta-Interactomes Predict Cross-Species Interactions and Protein Function. BMC Bioinformatics 18(1):171. doi: 10.1186/s12859-017-1585-0.
• Roll U; [33 other authors], Uetz P, Wagner P, Wang Y, Orme CDL, Grenyer R and Meiri S (2017) The global distribution of tetrapods reveals a need for targeted reptile conservation. Nature Ecol. Evol., DOI: 10.1038/s41559-017-0332-2
• Sakharwalkar, N.; Caufield, J.H. & Uetz, P. (2017) Two‐hybrid and Related Systems. Encyclopedia of Life Sciences, John Wiley & Sons, eLS. 1–9, DOI: 10.1002/9780470015902.a0000981.pub2
• Mehla J, Caufield JH, Sakhawalkar N & Uetz P (2017) A comparison of two hybrid approaches for detecting protein-protein interactions. Methods in Enzymology586:333-358. doi: 10.1016/bs.mie.2016.10.020
• Meiri S; Bauer AM, Allison A, Castro-Herrera F, Chirio L, Colli G, Das I, Doan TM, Glaw F, Grismer LL, Hoogmoed M, Kraus F, LeBreton M, Meirte D, Nagy ZT, C. Nogueira C de, Oliver P, Pauwels OSG, Pincheira-Donoso D, Shea G, Sindaco R, Tallowin OJS, Torres-Carvajal O, Trape JF, Uetz P, Wagner P, Wang Y, Ziegler T, and Roll U (2017) Extinct, obscure or imaginary: the lizard species with the smallest ranges. Diversity and Distributions, DOI: 10.1111/ddi.12678
• Šmek P, Uetz P & Pavón-Vázquez CJ (2017) Range extension of Mesoscincus managuae (Dunn, 1933) in Guatemala. Mesoamerican Herpetology 4 (4): 955-958

2016

• Mariano R., Khuri S., Uetz P. & Wuchty S. (2016) Local Action with Global Impact: Highly Similar Infection Patterns of Human Viruses and Bacteriophages. mSystems 1 (2): e00030-15. doi:10.1128/mSystems.00030-15.
• Mariano R., Wuchty S, Vizoso-Pinto M. Häuser R. & Uetz P. & . (2016) The interactome of Streptococcus pneumoniae and its bacteriophages show highly specific patterns of interactions among bacteria and their phages. Scientific Reports 6:24597. doi: 10.1038/srep24597.
• Goodacre N, Edwards N, Danielsen M, Uetz P, Wu C (2016) Predicting nsSNPs that disrupt protein-protein interactions using docking. IEEE/ACM Trans Comput Biol. Bioinform., 14 pp.
• Uetz P (2016) The Reptile Database at 20. Herpetological Review 47 (2), 330-334.

2015

• Caufield JH, Wimble C, Abreu M & Uetz P (2015) Protein complexes in bacteria. Plos. Comp. Biol., 27;11(2):e1004107. doi: 10.1371/journal.pcbi.1004107.
• Mehla J, Dedrick RM, Caufield JH, Siefring R, Mair M, Johnson A, Hatfull GF, Uetz P. (2015) The protein interactome of mycobacteriophage Giles predicts functions for unknown proteins. J Bacteriol. 2015 May 18. pii: JB.00164-15.
• Müller SA, Pernitzsch SR, Haange SB, Uetz P, von Bergen M, Sharma CM, Kalkhof S. (2015) Stable isotope labeling by amino acids in cell culture based proteomics reveals differences in protein abundances between spiral and coccoid forms of the gastric pathogen Helicobacter pylori. J Proteomics. 2015 May 12. pii: S1874-3919(15)30009-9. doi: 10.1016/j.jprot.2015.05.011
• Osterman A; Stellberger T; Gebhardt A; Kurz, Friedel CC; Uetz P, Nitschko H; Baiker A; Vizoso-Pinto MG (2015) The Hepatitis E virus intraviral interactome. Scientific Reports 5: 13872,
  doi:10.1038/srep13872.
• Mehla, J., J. H. Caufield, & Uetz P. (2015) Mapping Protein–Protein Interactions Using Yeast Two-Hybrid Assays. Cold Spring Harb Protoc. 2015 May 1;2015(5):pdb.prot086157. doi: 10.1101/pdb.prot086157.
• Mehla, J., J. H. Caufield, & Uetz P. (2015) The Yeast Two Hybrid system: A tool for mapping protein-protein interactions. Cold Spring Harb Protoc. 2015 May 1;2015(5):pdb.top083345. doi: 10.1101/pdb.top083345.
• Feldman, A; Bauer, A; Herrera-Castro, F; Chirio, L; Das, I; Doan, T; Maza, E; Meirte, D; de Campos-Nogueira, C; Nagy, Z; Torres-Carvajal, O; Uetz, P; Meiri, S (2015) The geography of snake reproductive mode. Global Ecology and Biogeography 24 (12): 1433–1442

2014

• Rajagopala, SV, Sikorski P, Kumar A, Mosca R, Vlasblom J, Arnold R,  Franca-Koh J, Pakala SB, Phanse S, Ceol A, Häuser R, Siszler G, Wuchty S, Emili A, Babu M, Aloy P, Pieper R and Uetz P (2014) The binary protein-protein interaction landscape of Escherichia coli. Nature Biotechnology, 32, 285–290 [Sequence (Supplement): pGBGT7g]
• Häuser R, Ceol A, Rajagopala SV, Mosca R, Siszler G, Wermke N, Sikorski P, Schwarz F, Schick M, Wuchty S, Aloy P, Uetz P. (2014) A Second-generation Protein-Protein Interaction Network of Helicobacter pylori. Mol Cell Proteomics 13(5):1318-29
• Wagemans J, Blasdel BG, Van den Bossche A, Uytterhoeven B, De Smet J, Paeshuyse J, Cenens W, Aertsen A, Uetz P, Delattre AS, Ceyssens PJ, Lavigne R. (2014) Functional elucidation of antibacterial phage ORFans targeting Pseudomonas aeruginosa. Cell Microbiol. 16 (12): 1822-35. doi: 10.1111/cmi.12330.
• Kolker E, Özdemir V, Martens L, Hancock W, Anderson G, Anderson N, Aynacioglu S, Baranova A, Campagna SR, Chen R, Choiniere J, Dearth SP, Feng WC, Ferguson L, Fox G, Frishman D, Grossman R, Heath A, Higdon R, Hutz MH, Janko I, Jiang L, Joshi S, Kel A, Kemnitz JW, Kohane IS, Kolker N, Lancet D, Lee E, Li W, Lisitsa A, Llerena A, Macnealy-Koch C, Marshall JC, Masuzzo P, May A, Mias G, Monroe M, Montague E, Mooney S, Nesvizhskii A, Noronha S, Omenn G, Rajasimha H, Ramamoorthy P, Sheehan J, Smarr L, Smith CV, Smith T, Snyder M, Rapole S, Srivastava S, Stanberry L, Stewart E, Toppo S, Uetz P, Verheggen K, Voy BH, Warnich L, Wilhelm SW, Yandl G. (2014) Toward more transparent and reproducible omics studies through a common metadata checklist and data publications. OMICS. 2014 Jan;18(1):10-4. doi: 10.1089/omi.2013.0149.
• Wuchty, S. & Uetz, P. (2014) Protein Interaction Networks of E. coli and S. cerevisiae are similar. Scientific Reports 4: 7187 doi:10.1038/srep07187.
• Chibucos M.C., Zweifel A.E., Herrera J.C., Meza W., Eslamfam S., Uetz P., Siegele D. A., Hu J.C., and Giglio M.G. (2014) An ontology for microbial phenotypes. BMC Microbiology 14 (1): 294, doi:10.1186/s12866-014-0294-3
• Blasche S, Arens S, Ceol A, Siszler G, Schmidt MA, Häuser R, Schwarz F, Wuchty S, Aloy P, Uetz P*, Stradal T & Koegl M (2014) The EHEC-host interactome reveals novel targets for the translocated intimin receptor. Scientific Reports 4 (7531): 1-11, doi:10.1038/srep07531 (* corresp. author)
• Scharf I, Feldman A, Novosolov M, Pincheira-Donoso D, Das I, Böhm M, Uetz P, Torres-Carvajal O, Bauer AM, Roll U& Meiri S (2014) Late bloomers and baby boomers: an analysis of ecological drivers of squamate longevity. Global Ecology and Biogeography, published online
• Uetz P; Davison R; Ellis J (2014) Book review: Wallach, V. et al. (2014) Snakes of the World: A Catalogue of Livingand Extinct Species. Herp. Rev. 45 (4): 721-722.

2013

• Blasche, S., Mörtl, M., Steuber, H., Siszler, G., Nisa, S., Schwarz, F., Lavrik, I., Maskos, K., Donnenberg, M.S., Ullmann, D., Uetz*, P. & Kögl, M. (2013) The E. coli effector protein NleF is a caspase inhibitor. Plos One, 8(3): e58937. (*corresponding author).
• Blasche S, Wuchty S, Rajagopala SV, Uetz P. (2013) The Protein Interaction Network of Bacteriophage Lambda with Its Host, Escherichia coli. J Virol. 2013 Dec;87(23):12745-55
• Goodacre, N.F., Gerloff, D.L. & Uetz, P. (2013) Protein domains of unknown function (DUFs) are essential in bacteria. mBio 5 (1): e00744-13. doi:10.1128/mBio.00744-13 (published online 31 Dec 2013 but appearing in Jan/Feb 2014 issue of mBio)
• Hardisty, A., Roberts, D. and The Biodiversity Informatics Community [including Uetz, P.] (2013) A decadal view of biodiversity informatics: challenges and priorities. BMC Ecology. 13:16
• Castoe,Todd A.; A. P. Jason de Koning, Kathryn T. Hall, Daren C. Card, Drew R. Schield, Matthew K. Fujita, Robert P. Ruggiero, Jack F. Degner, Juan M. Daza, Wanjun Gu, Jacobo Reyes-Velasco, Kyle J. Shaney, Jill M. Castoe, Samuel E. Fox, Alex W. Poole, Daniel Polanco, Jason Dobry, Michael W. Vandewege, Qing Li, Ryan K. Schott, Aurélie Kapusta, Patrick Minx, Cédric Feschotte, Peter Uetz, David A. Ray, Federico G. Hoffmann, Robert Bogden, Eric N. Smith, Belinda S. W. Chang, Freek J. Vonk, Nicholas R. Casewell, Christiaan V. Henkel, Michael K. Richardson, Stephen P. Mackessy, Anne M. Bronikowsi, Mark Yandell, Wesley C. Warren, Stephen M. Secor, and David D. Pollock (2013) The Burmese python genome reveals the molecular basis for extreme adaptation in snakes. PNAS, Dec 2, 2013, doi:10.1073/pnas.1314475110.
• Meiri, Shai; Aaron M. Bauer, Laurent Chirio, Guarino R. Colli, Indraneil Das, Tiffany M. Doan, Anat Feldman, Fernando-Castro Herrera, Maria Novosolov, Panayiotis Pafilis, Daniel Pincheira-Donoso, Gary Powney, Omar Torres-Carvajal, Peter Uetz, & Raoul Van Damme (2013) Are lizards feeling the heat? A tale of ecology and evolution under two temperatures. Global Ecology and Biogeography 22: 834–845
• Pincheira-Donoso, D.; Bauer, A.M.; Meiri, S.; Uetz, P. (2013) Global taxonomic diversity in living reptiles. Plos One, 8(3): e59741. doi:10.1371/journal.pone.0059741.
• Uetz, P. (2013) in: Li Vigni, Fabrizio:A Life for Reptiles and Amphibians. Volume 1. A collection of 55 interviews on «How to become a Herpetologist». Chimaira Books, 496 pp.

2012

• Häuser, R. et al. (2012) RsfA (YbeB) proteins are conserved ribosomal silencing factors. Plos Genetics 8(7): e1002815. doi:10.1371/journal.pgen.1002815
• Häuser, R., Stellberger, T., Rajagopala, S.V. & Uetz, P. (2012) Matrix-Based Yeast Two-Hybrid Screen Strategies and comparison of systems. In: Suter, B. (ed.) Yeast Two-Hybrid and related technologies. Methods Mol Biol. 812: 1-20.
• Uetz, P., Bürckstümmer, T., Sinner, E.-K. Urbanke, C. & Oesterhelt, F. (2012) Protein-Protein-Wechselwirkungen. In: Lottspeich, F. & Engels, J.W. (eds.) Bioanalytik, 3. Aufl., Spektrum-Verlag, Heidelberg, pp. 425-458 (see 4th edition 2022)
• Appletans, W., Vanhoorne, B., Decock, W., Paulay, G., [115 aphabetically listed authors including Uetz, P.], Wilson, S.P., Hernandez, F., Mees, J. & Costello, M.J. (2012) The Magnitude of Global Marine Species Diversity. Current Biology 22(23):2189-2202.
• Häuser, R., Stellberger, T., Rajagopala, S.V. & Uetz, P. (2012) Array-Based Yeast Two-Hybrid Screens: A Practical Guide. In: Suter, B. (ed.) Yeast Two-Hybrid and related technologies. Methods Mol Biol. 812: 21-38.
• Stellberger, T., Häuser, R., Uetz, P. & von Brunn, A. (2012) Yeast Two-Hybrid Screens: Improvement of array-based screening results by N- and C-terminally tagged fusion proteins. In: Klinger, C. (ed.), Functional Genomics, second edition. Methods Mol Biol. 815: 277-88.
• Orchard, Sandra; Samuel Kerrien, Sara Abbani, Bruno Aranda, Jignesh Bhate, Shelby Bidwell, Alan Bridge, Leonardo Briganti, Fiona Brinkman, Gianni Cesareni, Andrew Chatr-aryamontri, Emilie Chautard0,, Carol Chen, Marine Dumousseau, David Eisenberg, Johannes Goll, Robert Hancock, Linda I Hannick, Igor Jurisica, Jyoti Khadake, David J Lynn, Usha Mahadevan, Livia Perfetto, Arathi Raghunath, Sylvie Ricard-Blum, Bernd Roechert, Lukasz Salwinski, Volker Stümpflen, Mike Tyers, Peter Uetz, Ioannis Xenarios, & Henning Hermjakob (2012) Protein interaction data curation: the International Molecular Exchange (IMEX) consortium. Nature Methods 9 (4): 345–350.
• Häuser, R., Blasche, S., Haggård, E., Dokland, T., Salas, M., Casjens, S., Molineux, I. and Uetz, P. (2012) Protein-protein interactions of bacteriophage. Advances in Virus Research 83B: 219-298.
• Rajagopala, S.V.; Sikorski, P.; Caufield, J.H.; Tovchigrechko, A. & Uetz, P. (2012) Studying protein complexes by the yeast two-hybrid system. Methods, published online.
• Caufield JH, Sakhawalkar N, Uetz P. (2012) A comparison and optimization of yeast two-hybrid systems. Methods. 2012 Dec 8. doi:pii: S1046-2023(12)00302-7. 10.1016/j.ymeth.2012.12.001
• Uetz, P. (2012) Editorial for “The Yeast two-hybrid system“. Methods 58 (4): 315-316
• Uetz, P. (2012) Book review: Beolens, B. et al. 2011, The eponym dictionary of reptiles. Johns Hopkins University Press. Herp. Rev. 43 (1): 159–160
• Uetz, P. (2012) Book review: POSCHADEL, J.R. & PLATH, M. (2012): Genetik für Terrarianer – Grundlagen und Anwendungen. Sauria 34 (4): 58-59

2011

• Sabri, M., Häuser, R., Ouellette, M., Liu, J., Dehbi, M., Moeck, G., García, E., Titz, B., Uetz*, P. & Moineau*, S. (2011) Genome annotation and intra-viral interactome of the Streptococcus pneumoniae virulent phage Dp-1. J. Bact. 193 (2): 551-562. [* joint corresponding]
• Häuser, R., Sabri, M., Moineau, S. & Uetz, P. (2011) The proteome and interactome of Streptococcus pneumoniae phage Cp1. J. Bact. 193 (12): 3135–3138.
• Rajagopala, S.V. , Casjens, S. & Uetz, P. (2011) The protein interaction map of bacteriophage lambda. BMC Microbiology, 11:213
• Castoe, T.A., A.P. Jason de Koning, K.T. Hall, K. D. Yokoyama, W. Gu, E. N. Smith, C. Feschotte, P. Uetz, D. A Ray, J. Dobry, R. Bogden, S. P. Mackessy, A. M. Bronikowski, W. C. Warren, S. M. Secor and D. D Pollock (2011) Sequencing the genome of the Burmese python (Python molurus bivittatus) as a model for studying extreme adaptations in snakes. Genome Biology 12:406
• Rasmussen, A.R., Murphy, J.C., Ompi, M., Gibbons, J.W. & Uetz, P. (2011) Marine Reptiles. PLoS ONE 6(11): e27373
• Uetz P. & Pohl E. (2011) Protein-DNA und Protein-Protein-Interaktionen. In: Wink, M. (ed.), Molekulare Biotechnologie, 2. Aufl., Wiley-VCH, pp. 269-284
• Uetz P. & Pohl E. (2011) Protein-DNA and Protein-Protein Interactions. In: Wink, M. (ed.), Introduction to Molecular Biotechnology, 2nd ed. Wiley-VCH, pp. 257-271
• Rajagopala, S.V. & Uetz, P. (2011) Analysis of Protein–Protein Interactions Using High-throughput Yeast Two-Hybrid Screens. In: G. Cagney & A. Emili (eds.), Network Biology. Methods in Molecular Biology 781: pp. 1-29
• Uetz, P. (2011) Book review: Largen, M. & Spawls, S. (2010): The Amphibians and Rep tiles of Ethiopia and Eritrea. Sauria 2011 (1): 25-26
• Uetz, P. (2011) Book Review: Murthy, T.S.N (2010): The Reptile Fauna of India. Sauria 2011 (2): 63

2010

• Stellberger, T., Häuser, R., Baiker, A., Pothineni, V.R., Haas, J. & Uetz, P. (2010) Improving the yeast two-hybrid system with permutated fusions proteins: The Varicella Zoster Virus interactome. Proteome Science, 8: 8. [doi:10.1186/1477-5956-8-8
  Genbank: pGBKCg: FJ696409, pGADCg: FJ696408
  Unpublished sequences: pGBKT7g, pGADT7g

• Rajagopala, S.V.; Yamamoto, N., Zweifel, A.E., Nakamichi, T., Huang, H.K., Mendez-Rios, J.D., Franca-Koh, J., Boorgula, M.P., Hu, J.C., Wanner, B.L., Mori, H. & Uetz, P. (2010) The E. coli K-12 ORFeome: a resource for comparative microbiology. BMC Genomics 11:470.

• • Chen, Y.C., Rajagopala, S.V., Stellberger, T. & Uetz, P. (2010) Exhaustive Benchmarking of yeast two-hybrid systems. Nature Methods 7 (9): 667-668
• • Mendez-Rios, J. & Uetz, P. (2010) Global approaches to study protein-protein interactions among viruses and hosts. Future Microbiology 5: 289-301.
• • Uetz, P.; Titz, B.; Rajagopala, S.V. & Cagney, G. (2010) Experimental methods for protein interaction identification and characterization. In: Buchanan, M. et al. (eds.) Networks in the Cell, Cambridge University Press, pp. 53-82
• • Uetz, P. (2010) The original descriptions of reptiles. Zootaxa 2334: 59–68.

2009

• Fossum E., Baiker A., Friedel C.C., Suthram S., Rajagopala S.V., Titz B., Schmidt T., Kraus T., Bandyopadhyay S., Rose D., Uhlmann M., Zeretzke C., Dong Y.A., Boulet H., Bailer S., Koszinowski U., Ideker T., Uetz P., Zimmer R. & Haas J. (2009) Evolution and divergence of herpesviral protein interaction networks. PloS Pathogens 5 (9): 00570. [doi:10.1371/journal.ppat.1000570]
• Rajagopala, S.V.; Hughes, K.T. & Uetz, P. (2009) Benchmarking yeast two-hybrid systems using the interactions of bacterial motility proteins. Proteomics, 9: 5296–5302.
• Rajagopala S.V. & Uetz P. (2009) Analysis of yeast proteome using the large-scale yeast two-hybrid system. In: Stagljar, I. (ed.) Methods in Molecular Biology, Yeast Functional Genomics and Proteomics, Humana Press, vol. 548: 223-246.
• Giglio, M., Mungall, C., Uetz, P., Yin, L., Goll, J., Siegele, D., Chibucos, M., and Hu, J. (2009) Development of an Ontology of Microbial Phenotypes (OMP). Nature Precedings

2008

• Koegl, M. & Uetz, P. (2008) Improving yeast two-hybrid systems. Briefings in Functional Genomics and Proteomics 6(4):302-12
• Uetz P., Titz B. & Cagney G. (2008) Experimental methods for protein interaction identification and characterization. In: Przytycka, T. & Panchenko, A., Protein-protein interactions and networks: identification, characterization and prediction.
• Titz B., Rajagopala S.V., Häuser R., Goll J., Wohlbold K., McKevitt M.T., Palzkill T. & Uetz P. (2008) The Binary Protein Interactome of Treponema pallidum – the Syphilis Spirochete. PloS ONE 3(5): e2292. doi:10.1371/journal.pone.0002292
• Goll, J.; Rajagopala, S.V.; Shiau, S.C.; Wu, H.; Lamb, B.T. & Uetz, P. (2008) MPIDB: the microbial protein interaction database. Bioinformatics 24: 1743-1744
• Rajagopala SV, J Goll, NDD Gowda, KC Sunil, B Titz, A Mukherjee, SS Mary, N Raviswaran, CS Poojari, S Ramachandra, S Shtivelband, SM Blazie, J Hofmann, P Uetz (2008) MPI-LIT: A literature-curated dataset of microbial binary protein-protein interactions. Bioinformatics 24 (22): 2622–2627
• Ester, C. & Uetz, P. (2008) The FF domains of yeast U1 snRNP protein Prp40 mediate interactions with Luc7 and Snu71. BMC Biochemistry 9: 29

2007

Original Research

• Titz B., Häuser R., Engelbrecher A. & Uetz P. (2007) The Escherichia coli protein YjjG is a House-Cleaning Nucleotidase in vivo. FEMS Microbiology Letters, 270 (1): 49-57.
• Rajagopala S.V., Titz B., Goll J., Parish J., McKevitt M.T., Palzkill T., Finley R.L. Jr. & Uetz P. (2007) The protein network of bacterial motility. Molecular Systems Biology 3: 128
• Orchard S, Salwinski L, Kerrien S, Montecchi-Palazzi L, Oesterheld M, Stümpflen V, Ceol A, Chatr-aryamontri A, Armstrong J, Woollard P, Salama JJ, Moore S, Wojcik J, Bader GD, Vidal M, Cusick ME, Gerstein M, Gavin AC, Superti-Furga G, Greenblatt J, Bader J, Uetz P, Tyers M, Legrain P, Fields S, Mulder N, Gilson M, Niepmann M, Burgoon L, De Las Rivas J, Prieto C, Perreau VM, Hogue C, Mewes HW, Apweiler R, Xenarios I, Eisenberg D, Cesareni G, Hermjakob H. (2007) The minimum information required for reporting a molecular interaction experiment (MIMIx). Nat Biotechnol. 25 (8):894-8

Invited book chapters:

• Rajagopala S.V.; Titz B. & Uetz P. (2007) Array-based yeast two-hybrid screening for protein-protein interactions. In: Yeast Gene Analysis 2nd Edition. Methods in Microbiology Series, Vol 36, Edited by Mike Stark and Ian Stansfield, Elsevier, pp. 139-163.
• Goll J. & Uetz P. (2007) Analyzing protein interaction networks. In: T.Lengauer (ed.), Bioinformatics – From Genomes to Drugs, Vol. 3, VCH-Wiley, pp. 1121-1177.

2006

Original Research

• Uetz, P., Y.-A. Dong, C. Zeretzke, C. Atzler, A. Baiker, B. Berger, S.V. Rajagopala, M. Roupelieva, D. Rose, E. Fossum & J. Haas (2005) Herpesviral Protein Networks and Their Interaction with the Human Proteome. Science 311: 239-242
• Titz, B., Thomas, S., Rajagopala, S.V., Chiba, T., Ito, T. & Uetz, P. (2006) Transcriptional activators in yeast. Nucleic Acids Res. 34 (3): 955-967
• Titz, B., Rajagopala, S.V., Ester, C., Häuser, R. & Uetz, P. (2006) A novel conserved assembly factor of the bacterial flagellum. J. Bacteriol. 188: 7700-7706

Invited Reviews

• Goll, J. & Uetz, P. (2006) The elusive yeast interactome. Genome Biology 7 (214): 1-6
• Uetz, P. & Stagljar, I. (2006) The interactome of human EGF/ErbB receptors. Molecular Systems Biology, doi:10.1038/msb4100048.
• Uetz, P. & Pohl, E. (2006) Protein-Protein and Protein-DNA Interactions. In: Wink, M. (ed.) Introduction to Molecular Biotechnology [links to 3rd edition of 2020, not this edition], Wiley-VCH, pp. 365-386
• Uetz, P., Sinner, E.-K., Schubert, D., Urbanke, C. (2006) Protein-Protein-Wechselwirkungen: Das two-hybrid-System und andere Methoden. Kapitel 16 in Lottspeich, F. & Engels, J.W., Bioanalytik, 2. Aufl., Spektrum/Elsevier, pp. 373-404.
• Uetz, P. & Vollert, C.S. (2006) Protein-Protein Interactions. Encyclopedic Reference of Genomics and Proteomics in Molecular Medicine (ERGPMM), Springer Verlag, Part 16: 1548-1552
• Vollert, C.S. & Uetz, P. (2006) The Two-hybrid System. Encyclopedic Reference of Genomics and Proteomics in Molecular Medicine (ERGPMM), Springer Verlag, Part 20: 1945-1949.

2005

Original Research

• Uetz, P., Y.-A. Dong, C. Zeretzke, C. Atzler, A. Baiker, B. Berger, S.V. Rajagopala, M. Roupelieva, D. Rose, E. Fossum & J. Haas (2005) Herpesviral Protein Networks and Their Interaction with the Human Proteome. ScienceExpress (published online Dec. 8. 2005)
• Sharan,R., Suthram,S., Kelley,R.M., Kuhn,T., McCuine,S., Uetz,P. Sittler,T., Karp, R.M. and Ideker,T. (2005) Conserved Patterns of Protein Interaction in Multiple Species. Proc. Natl. Acad. Sci. 102: 1974-1979.

Invited Reviews

• Uetz, P. & Finley, R.L. Jr. (2005) From protein networks to biological systems. FEBS Lett., 579: 1821-1827.
• Serebriskii, I.; Golemis, E. & Uetz, P. (2005) The yeast two-hybrid system for detecting interacting proteins. In: Walker, J.M. (ed.) The Proteomics Handbook, Humana Press, Totowa (NJ), pp. 653-682.
• Uetz, P. & Grigoriev, A. (2005) The yeast interactome [2.9 MB!]. In Jorde, L.B., Little, P.F.R., Dunn, M.J. and Subramaniam, S. (Eds), Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics. John Wiley & Sons Ltd: Chichester, volume 5, pp. 2033-2051.
• Ideker,T. & Tan, K. & Uetz, P. (2005) Visualization and integration of protein-protein interactions. In: Golemis,E. (ed.) Protein-Protein Interactions – A Molecular Cloning Manual, 2nd ed. Cold Spring Harbor Laboratory Press, pp. 839-856.

related stuff (with some mentions of our work):

• McCook, A. (2005) The Human Interactome Falls into place. The Scientist 2005, 19 (15):14
• Greener, M. (2005) From Worm to Fly, Y2H Takes Off. The Scientist 2005, 19 (15):18

2004

Original Research

• Vollert, C.S. & Uetz, P. (2004) The PX domain protein interaction network in yeast. Molecular and Cellular Proteomics 3: 1053-1064.
• Antoniacci, L.M., Kenna, M.A., Uetz, P., Fields, S. & Skibbens, R.V. (2004) The spindle pole body assembly component Mps3p/Nep98p functions in sister chromatid cohesion. J. Biol. Chem. 279: 49542-49550.
• Wilkinson, C.R.M., Dittmar, G.A.G.; Ohi, M.D., Uetz, P., Jones, N. and Finley, D. (2004) Ubiquitin-like Protein Hub1 is Required for pre-mRNA Splicing and Localization of an Essential Splicing Factor in Fission Yeast. Current Biology 14 (24): 2283-2288

 

2003

• Guo M., Aston C., Burchett S.A., Dyke C., Fields S., Rajarao S.J.R., Uetz P., Wang Y., Young K. & Dohlman H.G. (2003) The yeast G protein subunit Gpa1 transmits a signal through a novel effector RNA-binding protein Scp160. Molecular Cell 12: 517-524.

2002

• Burchett SA, Flanary P, Aston CW, Jiang L, Young KH, Uetz P, Fields S and Dohlman HG (2002) Regulation of Stress Response Signaling by the N-terminal DEP (dishevelled/ EGL-10/pleckstrin) domain of Sst2, a Regulator of G Protein Signaling in Saccharomyces cerevisiae. J. Biol. Chem. 277 (25): 22156-22167
• Uetz,P., Ideker,T. & Schwikowski,B. (2002) Visualization and integration of protein-protein interactions [ 1.4 MB]. In: Golemis,E. (ed.) Protein-Protein Interactions – A Molecular Cloning Manual. Cold Spring Harbor Laboratory Press, pp. 623-646
• Uetz,P. (2002) Protein-Protein-Interaktionen im Modell Hefe. Bioforum 25 (1-2): 11-13
• Uetz,P. (2002) Protein-Protein Interactions in Yeast [uncorrected proofs]. Bioforum International 6 (3): 157-159
• Uetz,P. (2002) Proteomik: Proteine im (Hefe-) Kontext. FZK-Nachrichten 34 (1): 55-60

  related stuff:

• Hot paper: A Tale of Two-Hybrid. The Scientist 16 (10): 38
• Uetz, P. (2002) Ran an den Speck! – Pardon…die Leber. Laborjournal 9 (10): 46-47
• ISI Essential Science Indicators: New Hot Paper comment (link died in 2023 with ESI update)

2001

• Cagney G. & Uetz P. (2001) High-throughput two-hybrid screening using yeast arrays. Current Protocols in Protein Science 19.6: 1-12.
• Cagney G., Uetz P. & Fields S. (2001) Two-hybrid analysis of the Saccharomyces cerevisiae 26S proteasome. Physiological Genomics 7: 27-34.
• Tucker C.L., Gera J.F. & Uetz P. (2001) Towards an understanding of complex protein interaction maps. Trends in Cell Biology 11 (23): 102-106
• Uetz P. (2001) Two-Hybrid Arrays. Current Opinion in Chemical Biology, 6: 57-62

2000

• Uetz P. et al. (2000) A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae. Nature 403: 623-627
• Cagney G., Uetz P. & Fields S. (2000) High-throughput screening for protein-protein interactions using the two-hybrid assay. Meth. Enzymol. 328: 3-14
• Schwikowski B., Uetz P. & Fields S. (2000) A network of interacting proteins in yeast. Nature Biotechnology 18 (12): 1257-1261
• Uetz P. & Hughes R. (2000) Systematic and large-scale two-hybrid screens. Curr. Opinion in Microbiol. 3 (3): 304-309
  Uetz,P. (2000) How many reptile species? Herpetological Review 31 (1): 13-15