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Baker, S.C. and M. Denison. 2008. Cell biology of nidovirus replication complexes. In “The Nidoviruses,” (ed. S. Perlman, T. Gallagher and E.J. Snijder). ASM Press, pp. 103-113.
Baker, S.C. 2008. Coronaviridae: Molecular Biology. In “The Encyclopedia of Virology,” (ed. B. Mahy). Elsevier (in press).
Rowley,
A.H., S.C. Baker, J.M. Orenstein,
S.T. Shulman. 2008. Searching for the cause of Kawasaki Disease - cytoplasmic inclusion
bodies provide new insight. Nature Reviews Microbiology (in press).
Bechill,
J., Z. Chen, J.W. Brewer and S.C. Baker. 2008. Coronavirus infection modulates the unfolded protein response and
mediates sustained translational repression. J. Virol. (in press).
Clementz,
M., A. Kanjanahaluethai, T.E. O’Brien, and S.C. Baker. 2008.
Mutation
in murine coronavirus replicase protein nsp4 alters assembly of double membrane
vesicles. Virology (in press).
Grum-Tokars, V. K.
Ratia, A. Begaye, S.C. Baker and A.D. Mesecar. 2008. Evaluating the 3C-like
protease activity of SARS-coronavirus: Recommendations
for standardized assays for drug discovery. Virus Research 133: 63-73.
Rowley,
A.H., S.C. Baker, S.T. Shulman, F.L. Garcia, L.M. Fox, I.M. Kos, S.E. Crawford,
P.A. Russo, R. Hammadeh, K. Takahashi, and J. Orenstein. 2008. RNA-containing
cytoplasmic inclusion bodies in ciliated bronchial epithelium months to years
after acute Kawasaki Disease. PLoS
ONE 3(2): e1582. doi:
10.1371/journal.pone.0001582.
Devaraj, S.G., N.
Wang, Z. Chen, Z.-H. Chen, M.Tseng, N. Barretto, R. Lin, C. J. Peters, C.-T. K.
Tseng, S.C. Baker, and K. Li. 2007. Regulation of IRF-3 dependent innate immunity by the papain-like protease
domain of the SARS coronavirus. J.
Bio. Chem. 282: 32208-32221.
Ghosh, A.K., K. Xi, V. Grum-Tokars, X. Xu, K. Ratia, W. Fu, K. V. Houser,
S.C. Baker, M.E. Johnson, and A.D. Mesecar. 2007. Structure-based design and synthesis and biological evaluation of
peptidomimetic SARS-CoV 3CLpro inhibitors. Bioorg. Med. Chem. Let. 17:
5876-5880.
Grum-Tokars, V., Ratia, K., Begaye, A.,
Baker, S.C., Mesecar AD. 2007. Evaluating the 3C-like protease activity of SARS-Coronavirus: Recommendations for
standardized assays for drug discovery. Virus Res. Mar 28; [Epub ahead of print]
Chen, Z., Wang, Y., Ratia, K., Mesecar, A.D., Wilkinson, K.
D., Baker, S.C. 2007. Proteolytic processing and deubiquitinating activity of papain-like proteases of human
coronavirus NL63. J. Virol. 81: 6007-18.
Kanjanahaluethai, A., Chen, Z., Jukneliene, D., Baker, S.
C. 2007. Membrane topology of murine coronavirus replicase nonstructural protein 3.
Virology 361:391-401.
Snyder, E.E., Kampanya, N, ,et al. PATRIC: the VBI PathoSystems Resource Integration Center.
Nucleic Acids Res. 2007 Jan;35(Database issue):D401-6.
Ghosh, A.K., K. Xi, M.E. Johnson, S.C. Baker, and A.D. Mesecar. 2006. Progress in Anti-SARS Coronavirus Chemistry, Biology and Chemotherapy. Annual Reports in Medicinal Chemistry, Vol 41: 183-196. Snyder, E.E., N. Kampanya et al., 2007. PATRIC: The VBI PathoSystems Resource Integration Center. Nucleic Acids Res. 35: 401-406. Ratia,
K., K.S. Saikatendu, B.D. Santarsiero, N. Barretto, S.C.
Baker, R.C. Stevens, and A.D. Mesecar.
2006. SARS
coronavirus papain-like protease:
structure of a viral deubiquitinating enzyme.
Proc. Natl. Acad. Sci.
103: 5717-5722. Baker,
S. C., D. Jukneliene, A. Purkayastha, E. E. Snyder,
O. R. Crast, M. J. Czar, J. C. Setubal and B. W. Sobral.
2006. Developing
bioinformatics resources for coronavirus.
Adv. Exp. Med. 581: 395-398. Baker,
S. C., C. Shimizu, H. Shike, F. Garcia, L. van der
Hoek, T. W. Kuijper, S. L. Reed, A. H. Rowley, S. T.
Shulman, H. K. B. Talbot, J. V. Williams, and J. C.
Burns. 2006.
Human coronavirus NL63 infection is not
associated with acute Kawasaki disease.
Adv. Exp. Med. 581:
523-526. Barretto,
N., D. Jukneliene, K. Ratia, Z. Chen, A. D. Mesecar, and
S. C. Baker.
2006. Deubiquitinating
activity of the SARS-CoV papain-like protease.
Adv. Exp. Med.581: 37-41. Bechill,
J., Z. Chen, J. W. Brewer, S. C. Baker.
2006. Mouse
hepatitis virus infection activates the IRE1/XBP1
pathway of the unfolded protein response.
Adv. Exp. Med. 581: 139-144. Rowley,
A. H., S.T.
Shulman, F. L. Garcia, J. A. Guzman-Conttrill, M. Miura,
H. L. Lee, and S. C. Baker.
2005. Cloning
the arterial IgA antibody response during acute Kawasaki
disease. J.
Immunol. 175: 8386-8391. Barretto,
N., D. Jukneliene, K. Ratia, Z. Chen, A. D. Mesecar and S.
C. Baker. 2005.
The papain-like protease of severe acute
respiratory syndrome coronavirus has deubiquitinating
activity. J.
Virol. 79: 15189-15198 (selected for JVI Spotlight). Ghosh,
A. K., K. Xi, K. Ratia, W. Fu, B. H. Harcourt, P. A.
Rota, S. C. Baker, M. E. Johnson and A. D.
Mesecar. 2005.
Design and synthesis of peptidomimetic Severe
Acute Respiratory Syndrome chymotrypsin-like protease
inhibitors. J.
Med. Chem. 48: 6767-6771. Rowley,
A.H., S.C. Baker, S.T. Shulman, L. Fox, K.
Takahasi, F.L. Garcia, S.E. Crawford, P. Chou, and J.M.
Orenstein. 2005.
Cytoplasmic inclusion bodies are detected by
synthetic antibody in ciliated bronchial epithelium
during acute Kawasaki Disease.
J. Infec. Dis 192: 1757-1766. Shimizu,
C., H. Shike, S.C. Baker, F. Garcia, L. van der
Hoek, T. W. Kuijpers, S.L. Reed, A. H. Rowley, S. T.
Shulman, H.K.B. Talbot, J. V. Williams, and J.C. Burns.
2005. Human coronavirus NL63 is not detected in the respiratory
tract of children with acute Kawasaki disease.
J. Infec. Dis. 192: 1767-1771. Harcourt,
B. H., D. Jukneliene, A. Kanjanahaluethai, J. Bechill,
K. M. Severson, C. M. Smith, P.A. Rota and S. C.
Baker. 2004.
Identification of SARS coronavirus replicase
products and characterization of papain-like protease
activity. J.
Virol. 78: 13600-1612. S.
C. Baker. 2004. Coronaviruses:
From Common Colds to SARS. Concise Reviews,
Pediatric Infectious Disease Journal 23:
1049-1050. (invited
review). Rowley,
A. H., S. C. Baker, S. T. Shulman, F. L. Garcia,
J. A. Guzman-Cottrill, P. Chou, M. Terai, T. Kawasaki,
M. B. Kalelkar, and S. E. Crawford.
2004. Detection
of antigen in bronchial epithelium and macrophages in
acute Kawasaki Disease by use of synthetic antibody.
J. Infec. Dis. 190: 856-865. Kanjanahaluethai,
A. and S. C. Baker.
2004. Coronavirus
papain-like endopeptidases, pp. 1265-1269.
In "Handbook of Proteolytic Enzymes,"
Second Edition, A. Barratt et al., Eds.
Academic Press. (invited review). Kanjanahaluethai,
A., Jukneliene, D. and S. C. Baker.
2003. Identification
of the murine coronavirus MP1 cleavage site recognized
by papain-like proteinase 2.
J. Virol. 77: 7376-7382. Kanjanahaluethai,
A. and S. C. Baker.
2003. Generating
the coronavirus RNA replication complex:
Proteolytic processing and membrane association.
In “RNA viruses:
Mechanisms of replication and transcription,”
X. Zhang, Ed.
Research Signpost. (invited review). Gosert,
R., A. Kanjanahaluethai, D. Egger, K. Bienz, and S.
C. Baker. 2002.
RNA replication of mouse hepatitis virus takes
place at double-membrane vesicles.
J. Virol. 76:
3697-3708. Rowley,
A. H., S. T. Shulman, B. T. Spike, C. A. Mask, and S.
C. Baker. 2001.
Oligoclonal IgA response in the vascular wall in
acute Kawasaki Disease.
J. Immunol. 166: 1334-1343. Gosert,
R., A. Kanjanahaluethai, D. Egger, K. Bienz and S.C.
Baker. 2001.
Comparison of replicase localization in different
types of mouse hepatitis virus (MHV)-infected cells.
Adv. Exp. Med. 494:
275-281. Kanjanahaluethai,
A. and S. C. Baker.
2001. Processing
of the replicase of murine coronavirus: Papain-like
proteinase 2 (PLP2) acts to generate p150 and p44.
Adv. Exp. Med. 494:
267- 273. Baker,
S. C., A. Kanjanahaluethai, N. M. Sherer, D. D.
Axtell, and J. J. Schiller.
2001. Exploiting
DNA immunization to generate polyclonal antisera to
coronavirus replicase proteins. Adv. Exp. Med. 494:
283-289. Kanjanahaluethai,
A. and S. C. Baker.
2000. Identification
of mouse hepatitis virus papain-like proteinase 2
activity. J.
Virol. 74: 7911-7921. Rowley,
A. H., S. T. Shulman, C. A. Mask, L. Finn, M. Terai, S.
C. Baker, C. A. Galliani, K. Takahashi, S. Naoe, M.
Kalelkar and S. E. Crawford.
2000. IgA
plasma cell infiltration of proximal respiratory tract,
pancreas, kidney and coronary artery in acute Kawasaki
Disease. J. Infect. Dis. 20: 1183-1191. Shi,
S. T., J .J. Schiller, A. Kanjanahaleuthai, S. C.
Baker, J-W. Oh, and M.M.C. Lai.
1999. Colocalization and membrane association of
murine hepatitis virus gene 1 products and de novo
synthesized viral RNA in infected cells.
J. Virol. 73: 5957-5969. Schiller,
J. J. and S. C. Baker.
1998. Coronavirus
papain-like endopeptidase.
In "Handbook of Proteolytic Enzymes,"
A. Barratt et al., Eds.
Academic Press. (invited review). Schiller,
J. J., A. Kanjanahaleuthai, and S. C. Baker. 1998. Processing
of the coronavirus MHV-JHM polymerase polyprotein:
Identification of precursors and proteolytic
products spanning 400 kilodaltons of ORF1a.
Virology 242:
288-302. Schiller,
J.J. and S.C. Baker.
1998. Maturation
of the polymerase polyprotein of the coronavirus MHV
strain JHM involves a cascade of proteolytic processing
events. Adv.
Exp. Med. 440:
135-139. Rowe,
C. L., S. C. Baker, M. J. Nathan, J.-Y. Sgro, A.
Palmenburg and J. O. Fleming.
1998. Evolution
of the MHV quasispecies during persistent infection.
Adv. Exp. Med. 440: 759-765. Rowley,
A. H., C. A. Eckerley, H. M. Jack, S. T. Shulman, and S.
C. Baker. 1997.
IgA plasma cells in vascular tissue of patients
with Kawasaki Syndrome.
J. Immun. 159:
5946-5955. Rowe,
C. L., J. O. Fleming, J.Y. Sgro, A. Palmenburg, and S.
C. Baker. 1997.
Generation of coronavirus spike deletion variants
(SDVs) by high frequency recombination at regions of
predicted RNA secondary structure.
J. Virol. 71:
6183-6190. Rowe,
C. L., S. C. Baker, M. J. Nathans and J. O.
Fleming. 1997.
Evolution of mouse hepatitis virus:
Detection and characterization of spike deletion
variants (SDVs) during persistent infection.
J. Virol 71:
2959-2969. Gao,
H.-Q., J. J. Schiller and S. C. Baker.
1996. Identification
of polymerase polyprotein products, p72 and p65, of
murine coronavirus.
Virus Res. 45: 101-109. Adami,
C., J. Pooley, J. Glomb, E. Stecker, F. Fazal, J. O.
Fleming, and S. C. Baker. 1995.
Evolution of mouse hepatitis virus (MHV) during
chronic infection: Quasispecies nature of the persisting MHV RNA.
Virology 209: 337-346. Dong,
S., H.-Q. Gao and S.C. Baker.
1995. Proteolotic processing of the MHV
polymerase polyprotein:
Identification of the p28 cleavage site and the
adjacent protein, p65.
Adv. Exp. Med. 380:
431-435. Fleming,
J.O., C. Adami, J. Pooley, J. Glomb, E. Stecker, F.
Fazal, and S.C. Baker. 1995.
Mutations associated with viral sequences
isolated from mice persistently infected with MHV-JHM. Adv.
Exp. Med. 380: 591-595. Rowley,
A.H., C.L. Rowe,C. A. Eckerley, and S.C. Baker.
1995. Isolation
of novel cDNAs from the serum of patients with Kawasaki
Syndrome. In
“Kawasaki Disease,” pp. 187-192.
H. Kato, editor.
Elsevier Science Press. Dong,
S. and S. C. Baker.
1994. Determinants
of the p28 cleavage site recognized by the first papain-like
cysteine proteinase of murine coronavirus.
Virology 204: 541-549. Baker,
S. C., K. Yokomori, S. Dong, R. Carlisle, A. E.
Gorbalenya, E. V. Koonin and M. M. C. Lai.
1993. Identification
of the catalytic sites of a papain-like cysteine
proteinase of murine coronavirus.
J. Virol. 67: 6065-6063. Fleming,
J. O., J. J. Houtman, H. Alaca, H. C. Hinze, D.
McKenzie, J. Aiken, T. Bleasdale, and S. C. Baker.
1993. Persistence
of viral RNA in the central nervous system of mice
inoculated with MHV-4.
Adv. Exp. Med. 342: 327-332. S.
C. Baker, H.-Q. Gao, and R. S. Baric.
1993. Altered
proteolytic processing of the polymerase polyprotein in
RNA(-) temperature sensitive mutants of murine
coronavirus. Adv.
Exp. Med. 342: 215-220. Yokomori,
K., S. C. Baker , S. A. Stohlman and M. M. C.
Lai. 1992.
Hemagglutinin-esterase-specific monoclonal
antibodies alter the neuropathogenicity of mouse
hepatitis virus. J.
Virol. 66:
2865-2874. Baker,
S. C. and M. M. C. Lai.
1990. An
in vitro system for the leader-primed transcription of
coronavirus mRNAs.
EMBO J. 9: 4173-4179. Lin,
J.-H., M.-F. Chang, S. C. Baker, S. Govindarajan
and M. M. C. Lai. 1990.
Characterization of hepatitis delta antigen:
specific binding to hepatitis delta virus RNA.
J. Virology 64:
4051-4058. Moyer,
S. A., S. C. Baker and S.M. Horikami.
1990. Host
cell proteins required for measles virus reproduction.
J. Gen. Virol.
71: 775-783. Baker,
S. C., N. La Monica, C.-K. Shieh and M. M. C. Lai.
1990. Murine
coronavirus gene 1 contains an autoproteolytic activity.
Adv. Exp. Med. 276:283-289. Baker,
S. C., C.-K. Shieh, L. H. Soe, M.-F. Chang, D. M.
Vannier and M. M. C. Lai.
1989. Identification of a domain required for the autoproteolytic
activity of murine coronavirus gene A polyprotein. J. Virol. 63: 3693-3699 Makino,
S., C.-K. Shieh, L. H. Soe, S. C. Baker
and M. M. C. Lai.
1988. Primary
structure and translation of a defective interfering RNA
of murine coronavirus. Virology. 166:
550-560. Chang,
M.-F., S. C. Baker, L. H. Soe, T. Kamahora, J. G.
Keck, S. Makino, S. Govindarajan and M. M. C. Lai.
1988. Human
Hepatitis Delta antigen is a nuclear phosphoprotein with
RNA-binding activity.
J. Virol. 62: 2403-2410. Baker,
S. C. and S. A. Moyer.
1988. Encapsidation
of Sendai virus genome RNAs by purified NP protein
during in vitro replication. J. Virol. 62: 834-838. Soe,
L. H., C.-K. Shieh, S. C. Baker, M.-F. Chang and
M. M. C. Lai. 1987.
Sequence and translation of the murine
coronavirus 5'-end genomic RNA reveals the N-terminal
structure of the putative RNA polymerase.
J. Virol. 61: 3968-3976. Baker,
S. C. and S. A. Moyer.
1987. Tubulin
is a transcription factor for the negative stranded
Sendai and vesicular stomatitis viruses.
In "The Biology of Negative Strand
Viruses," pp.141-149.
Elsevier Science Publishers,
New York. Moyer,
S. A., S. C. Baker and J. L. Lessard.
1986. Tubulin
: A factor
necessary for the synthesis of both Sendai virus and
vesicular stomatitis virus RNAs. Proc. Natl. Acad. Sci. 83:
5405-5409. Carlsen,
S. R.,
R. W. Peluso and S. A. Moyer.
1985. In
vitro replication of Sendai virus wild-type and
defective interfering particle genome RNAs.
J. Virol. 54: 493-500.
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