Publications

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2018

  1. Hansen, D. T.; Craciunescu, F. M.; Fromme, P.; Johnston, S. A., Sykes, K. F., Generation of High Specificity Antibodies against Membrane Proteins Using DNA-Gold Micronanoplexes for Gene Gun Immunization. Current Protocols in Protein Science 2018, UNIT 29.20. DOI: 10.1002/cpps.50

  2. Jankovich, J. K.; Chapman, D.; Hansen, D. T.; Robida, M. D.; Loskutov, A.; Craciunescu, F.; Borovkov, A.; Kibler, K.; Goatley, L.; King, K.; Netherton, C. L.; Taylor, G.; Jacobs, B.; Sykes, K.; Dixon, L. K., Immunisation of pigs by DNA prime and recombinant vaccinia virus boost to identify and rank African swine fever virus immunogenic and protective proteins. J. Virol. 2018. DOI: 10.1128/JVI.02219-17


2016

  1. D.T. Hansen, T. Thiyagarajan, A.C. Larson, J.L. Hansen (2016) Telomerase repeat amplification protocol (TRAP) activity upon recombinant expression and purification of human telomerase in a bacterial system. Protein Expr. Purif. 123, 6–13. http://dx.doi.org/10.1016/j.pep.2016.03.001

  2. D.T. Hansen, M.D. Robida, F.M. Craciunescu, A.V. Loskutov, K.H. Dörner, J.C. Rodenberry, X. Wang, T.L. Olson, H. Patel, P. Fromme, K.F. Sykes (2016) Polyclonal antibody production for membrane proteins via genetic immunization. Sci. Rep. 6, 21925. http://dx.doi.org/10.1038/srep21925


2015

  1. G. Zhen, S. Daskalova, F. Craciunescu, H. Song, J. Martin-Garcia, K. Dörner, D.T. Hansen, J. Yang, J. LaBaer, B. Hogue, P. Fromme, T. Mor (2015) Biophysical characterization of a vaccine candidate against HIV-1: the transmembrane and membrane proximal domains of HIV-1 gp41 as a maltose binding protein fusion. PLOS ONE 10, e0136507. http://dx.doi.org/10.1371/journal.pone.0136507

  2. J. Zook, G. Mo, N.J. Sisco, F.M. Craciunescu, D.T. Hansen, B. Baravati, B.R. Cherry, K. Sykes, R. Wachter, W.D. Van Horn, P. Fromme (2015) NMR structure of Francisella tularensis virulence determinant reveals structural homology to Bet v 1 allergen proteins. Structure 23, 1116–1122. PDB accession number 2MU4. http://dx.doi.org/10.1016/j.str.2015.03.025


2014

  1. L. Shen, D.T. Hansen, S.A. Johnston, J.B. Legutki (2014) Could immunosignatures technology enable the development of a preventative cancer vaccine? Expert Rev. Vaccines 13, 577-579. http://dx.doi.org/10.1586/14760584.2014.897616

  2. J.M. Martin-Garcia, D.T. Hansen, J. Zook, A.V. Loskutov, M.D. Robida, F.M. Craciunescu, K.F. Sykes, R.M. Wachter, P. Fromme, J.P. Allen (2014) Purification and biophysical characterization of the CapA membrane protein FTT0807 from Francisella tularensis. Biochemistry 53, 1958-1970. http://dx.doi.org/10.1021/bi401644s


2005

  1. L. Feng, J. Yuan, H. Toogood, D. Tumbula-Hansen, D. Söll (2005) Aspartyl-tRNA synthetase requires a conserved proline in the anticodon-binding loop for tRNAAsn recognition in vivo. J. Biol. Chem. 280, 20638-20641. http://dx.doi.org/10.1074/jbc.M500874200

  2. L. Feng, K. Sheppard, D. Tumbula-Hansen, D. Söll (2005) Gln-tRNAGln formation from Glu-tRNAGln requires cooperation of an asparaginase and a Glu-tRNAGln kinase. J. Biol. Chem. 280, 8150-8155. http://dx.doi.org/10.1074/jbc.M411098200


2004

  1. L. Feng, D. Tumbula-Hansen, B. Min, S. Namgoong, J. Salazar, O. Orellana, D. Söll (2004) Transfer RNA-dependent amidotransferases: key enzymes for Asn-tRNA and Gln-tRNA synthesis in nature. In The Aminoacyl-tRNA Synthetases, M. Ibba, C. Francklyn, S. Cusack (eds.), Landes Bioscience, Georgetown, TX, pp. 314-319.

  2. A. Ambrogelly, S. Kamtekar, A. Sauerwald, B. Ruan, D. Tumbula-Hansen, D. Kennedy, I. Ahel, D. Söll (2004) Cys-tRNACys formation and cysteine biosynthesis in methanogenic archaea: two faces of the same problem? Cell. Mol. Life Sci. 61, 2437-2445.

  3. L. Feng, K. Sheppard, S. Namgoong, A. Ambrogelly, C. Polycarpo, L. Randau, D. Tumbula-Hansen, D. Söll (2004) Aminoacyl-tRNA synthesis by pretranslational amino acid modification. RNAbiology 1, 16-20. http://dx.doi.org/10.4161/rna.1.1.953


2003

  1. L. Feng, D. Tumbula-Hansen, H. Toogood, D. Söll (2003) Expanding tRNA discrimination by a single amino acid change in a tRNA synthetase. Proc. Natl. Acad. Sci. USA, 100, 5676-5681. http://dx.doi.org/10.1073/pnas.0631525100

  2. J.C. Salazar, I. Ahel, O. Orellana, D. Tumbula-Hansen, R. Krieger, L. Daniels, D. Söll (2003) Coevolution of an aminoacyl-tRNA synthetase with its tRNA substrates. Proc. Natl. Acad. Sci. USA, 100, 13863-13868. http://dx.doi.org/10.1073/pnas.1936123100

  3. C. Polycarpo, A. Ambrogelly, B. Ruan, D. Tumbula-Hansen, S.F. Ataide, R. Ishitani, S. Yokoyama, O. Nureki, M. Ibba, D. Söll (2003) Activation of the pyrrolysine suppressor tRNA requires formation of a ternary complex with class I and class II lysyl-tRNA synthetases. Mol. Cell 12, 287-294. http://dx.doi.org/doi:10.1016/S1097-2765(03)00280-6


2002

  1. D. Tumbula-Hansen, L. Feng, H. Toogood, K.O. Stetter, D. Söll (2002) Evolutionary divergence of the archaeal aspartyl‑tRNA synthetases into discriminating and non‑discriminating forms. J. Biol. Chem. 277, 37184-37190. http://dx.doi.org/10.1074/jbc.M204767200

  2. L. Feng, C. Stathopoulos, I. Ahel, A. Mitra, D. Tumbula-Hansen, T. Hartsch, D. Söll (2002) Aminoacyl-tRNA formation in the hyperthermophile Thermus thermophilus. Extremophiles 6, 167-174.

  3. B. Min, J.T. Pelaschier, D. Graham, D. Tumbula-Hansen, D. Söll (2002) Transfer RNA-dependent amino acid biosynthesis: an essential route to asparagine formation. Proc. Natl. Acad. Sci. USA 99, 2678-2683. http://dx.doi.org/10.1073/pnas.012027399


2001

  1. B. Ruan, I. Ahel, A. Ambrogelly, H.D. Becker, S. Bunjun, L. Feng, D. Tumbula-Hansen, M. Ibba, D. Korencic, H. Kobayashi, C. Jacquin-Becker, N. Mejlhede, B. Min, G. Raczniak, J. Rinehart, C. Stathopoulos, T. Li, D. Söll (2001) Genomics and the evolution of aminoacyl-tRNA synthesis. Acta Biochim. Pol. 48, 313-321.

  2. C. Stathopoulos, I. Ahel, K. Ali, A. Ambrogelly, H. Becker, S. Bunjun, L. Feng, S. Herring, C. Jacquin-Becker, H. Kobayashi, D. Korenčič, B. Krett, N. Mejlhede, B. Min, H. Nakano, S. Namgoong, C. Polycarpo, G. Raczniak, J. Rinehart, G. Rosas-Sandoval, B. Ruan, J. Sabina, A. Sauerwald, H. Toogood, D. Tumbula-Hansen, M. Ibba, D. Söll (2001) Aminoacyl-tRNA synthesis: a postgenomic perspective. Cold Spring Harb. Symp. Quant. Biol. 66, 175-183. http://dx.doi.org/10.1101/sqb.2001.66.175


2000

  1. D.L. Tumbula, H.D. Becker, W. Chang, D. Söll (2000) Domain-specific recruitment of amide amino acids for protein synthesis. Nature 497, 106-110. http://dx.doi.org/10.1038/35024120

  2. M. Ibba, H.D. Becker, C. Stathopoulos, D.L. Tumbula, D. Söll (2000) The adaptor hypothesis revisited. Trends Biochem. Sci. 25, 311-316. http://dx.doi.org/10.1016/S0968-0004(00)01600-5

  3. M. Kitabatake, M.W. So, D.L. Tumbula, D. Söll (2000) Cysteine biosynthesis pathway in the archaeon Methanosarcina barkeri encoded by acquired bacterial genes? J. Bacteriol. 182, 143-145.


1999

  1. D. Tumbula, U.C. Vothknecht, H.S. Kim, M. Ibba, B. Min, T. Li, J. Pelaschier, C. Stathopoulos, H. Becker, D. Söll (1999) Archaeal aminoacyl-tRNA synthesis: diversity replaces dogma. Genetics 152, 1269-1276. http://dx.doi.org/10.1128/JB.182.1.143-145.2000

  2. D.L. Tumbula, W.B. Whitman (1999) Genetics of Methanococcus: possibilities for functional genomics in Archaea. Mol. Microbiol. 33, 1-7. http://dx.doi.org/10.1046/j.1365-2958.1999.01463.x

  3. U.C. Vothknecht, D.L. Tumbula (1999) Archaea: from genomics to physiology and the origin of life. Trends Cell. Biol. 9, 159-161. http://dx.doi.org/10.1016/S0962-8924(99)01522-6


1998

A.W. Curnow*, D.L. Tumbula*, J.T. Pelaschier, B. Min, D. Söll (1998) Glutamyl-tRNAGln amidotransferase in Deinococcus radiodurans may be confined to asparagine biosynthesis. Proc. Natl. Acad. Sci. USA 95, 12838-12843. http://dx.doi.org/10.1073/pnas.95.22.12838 *Equal first authors.


1997

  1. D.L. Tumbula, Q. Teng, M.G. Bartlett, W.B. Whitman (1997) Ribose biosynthesis and evidence for an alternative first step in the common aromatic amino acid pathway in Methanococcus maripaludis. J. Bacteriol. 179, 6010-6013.

  2. D.L. Tumbula, T.L. Bowen, W.B. Whitman (1997) Characterization of pURB500 from the archaeon Methanococcus maripaludis and construction of a shuttle vector. J. Bacteriol. 179, 2976-2986.

  3. M. Ibba, I. Célic, A. Curnow, H. Kim, J. Pelaschier, D. Tumbula, U. Vothknecht, C. Woese, D. Söll (1997) Aminoacyl-tRNA synthesis in Archaea. Nucleic Acids Symp. Ser. 37, 305-306.

  4. T.L. Bowen, J. Union, D.L. Tumbula, W.B. Whitman (1997) Cloning and phylogenetic analysis of the genes encoding acetohydroxyacid synthase from the archaeon Methanococcus aeolicus. Gene 188, 77-84. http://dx.doi.org/10.1016/S0378-1119(96)00779-2

  5. W.B. Whitman, D.L. Tumbula, J.P. Yu, W. Kim (1997) Development of genetic approaches for the methane-producing archaebacterium Methanococcus maripaludis. Biofactors 6, 37-46. http://dx.doi.org/10.1002/biof.5520060105


1996

J.L. Argyle, D.L. Tumbula, J.A. Leigh (1996) Neomycin resistance as a selectable marker in Methanococcus maripaludis. Appl. Environ. Microbiol. 62, 4233-4237.


1995

  1. D.L. Tumbula, T.L. Bowen, W.J. Jones, W.B. Whitman (1995) Growth of methanogens on solidified media. In Archaea: A Laboratory Manual, pp. 49-55, F.T. Robb et al. (eds.), Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.

  2. D.L. Tumbula, J. Keswani, J. Shieh, W.B. Whitman (1995) Long-term maintenance of methanogen stock cultures in glycerol. In Archaea: A Laboratory Manual, pp. 85-87, F.T. Robb et al. (eds), Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.


1994

D.L. Tumbula, R.A. Makula, W.B. Whitman (1994) Transformation of Methanococcus maripaludis and identification of a PstI-like restriction system. FEMS Micro. Lett. 121, 309-314. http://dx.doi.org/10.1111/j.1574-6968.1994.tb07118.x