Team:Utah State/References

From 2009.igem.org

(Difference between revisions)
(New page: <!--- BANNER---> <html> <a href="https://2009.igem.org/Team:Utah_State"> <img alt="USU iGem" src="https://static.igem.org/mediawiki/2009/7/71/USUlogo.jpg"/> </a> <!--- Table---> <!DOCTYPE html ...)
Line 131: Line 131:
     </font></b></i> <hr>
     </font></b></i> <hr>
<ul class=circle>
<ul class=circle>
-
<li>This is where references go</li>
+
<li>Akita M, Sasaki S, Matsuyama S, Mizushima S (1990) J Biol Chem 265:8164-8169</li>
 +
<li>Anderson AJ, Dawes EA (1990) Occurrence, metabolism, metabolic role, and industrial uses of bacterial polyhydroxyalkanoates. Microbiol Rev 54:450-472</li>
 +
<li>Barrett CML, Ray N, Thomas JD, Robinson C, Bolhuis A (2003) Quantitative export of a reporter protein, GFP, by the twin-arginine translocation pathway in Escherichia coli. Biochem BIophys Res Comm 304:279-284</li>
 +
<li>Berks BC (1996) Mol Microbiol 22:393-404</li>
 +
<li>Berks BC, Sargent F, Palmer T (2000) The Tat protein export pathway. Mol Microbiol 35:260-274</li>
 +
<li>Binet,R, Letoffe S, Ghigo JM, Delepelaire P, Wandersman C. Protein secretion by Gram-negative bacterial ABC exporters-a review. Gene 1997;192:7-11</li>
 +
<li>Blight MA, Holland IB (1994) Heterologous protein secretion and the versatile <i>Escherichia coli</i> haemolysin translocator. Trends Biotechnol 12:450-455</li>
 +
<li>Cao TB, Saier MH (2003) The general protein secretory pathway:phlyogenetic analyses leading to evolutionary conclusions. Biochimica et Biophysica Acta 1609:115-125</li>
 +
<li>Chalfie M, Tu Y, Euskirchen G, Ward W, and Prasher D. (1994) Green fluorescent protein as a marker for gene expression. Science 263:802-805 </li>
 +
<li>Choi J (1999) Factors affecting the economics of polyhydroxyalkanoate production by bacterial fermentation. Appl Microbiol Biot 51:13-21</li>
 +
<li>Choi J, Lee SY (1997) Process analysis and economic evaluation for poly-β-hydroxybutyrate production by fermentation. Bioprocess Eng 17:335-342</li>
 +
<li>Choi JH, Lee SY (2004) Secretory and extracellular production of recombinant proteins using <i>Escherichia coli</i> Appl Microbiol Biotechnol 64:625-635</li>
 +
<li>Cianciotto NP (2005) Type II Secretion: A Protein Secretion System for all Seasons. Trends in Microbiology 13:581-588</li>
 +
<li>Crameri A, Whitehorn E, Tate E, Stemmer W. (1996) Improved green fluorescent protein by molecular evolution using DNA shuffling. Nature Biotech 14:315-19. </li>
 +
<li>Cristobal S, de Gier JW, Nielsen H, von Heijne G (1999) Competition between Sec- and Tat-dependent protein translocation in <i>Escherichia coli</i> EMBO J 18:2982-2990 </li>
 +
<li>Desveaux M, Parham N, Scott-Tucker A, Henderson IR (2004) The general secretory pathway: a general misnomer. Trends Micro 12:306-309</li>
 +
<li>Doi Y (1990) Microbial Polyester. VCH, New York
 +
Fernandez LA, de Lorenzo V (2001) Fomration of disulphide bonds during secretion of proteins through the periplasmic-independent type I pathway. Mol Microbiol 40:332-346</li>
 +
<li>Gentschev I, Goebel W (2003) Type I protein secretion systems in gram-negative bacteria: <i>Escherichia coli</i> alpha-hemolysin secretion. In: Oudega B, editor. Kluwer Academic Publishers, pp.121-139</li>
 +
<li>Hearn MT, Acosta D (2001) Applications of novel affinity cassette methods: Use of peptide fusion handles for the purification of recombinant proteins. J Mol Recognit 14:323-369</li>
 +
<li>Haller C.A., & Dichristina, T.J. (2002). Genetic approaches in bacteria with no natural genetic systems. New York, NY: Wiley-Liss, Inc. </li>
 +
<li>Hess J, Gentschev I, Goebel W, Jarchau T (1990) Analysis of the haemolysin secretion system by PhoA-HlyA fusion proteins. Mol Gen Genet 224:201-208</li>
 +
<li>Invitrogen Corporation (2009) Cloning of A-tailed PCR fragments using conventional ligase method. Retrieved October 2009. https://commerce.invitrogen.com</li>
 +
<lI>Jung IL, Phyo KH, Kim KC, Park HK, Kim IG (2005) Spontaneous liberation of intracellular polyhydroxybutyrate granules in <i>Escherichia coli</i>. Res Microbiol 156:865-873</li>
 +
<li>Kaderbhai MA, Davey HM, Kaderbhai NN (1997) A directed evolution strategy for optimized export of recombinant proteins reveals critical determinants for preprotein discharge. Protein Science 13:2458-2469</li>
 +
<Li>Koster M, Bitter W, Tommassen J (2000) Protein secretion mechanisms in Gram-negative bacteria. Int J Med Microbiol 290:325-331</li>
 +
<li>Lavallie ER, McCoy JM (1995) Gene fusion expression systems in <i>Escherichia coli</i>.Current Biology Ltd 501-506</li>
 +
<li>Lee SY (1996) Bacterial Polyhydroxyalkanoates. Biotechnol Bioeng. 49:1-14
 +
<li>Luirink J, Oudega B Protein targeting to the inner membrane. In: Oudega B, editor. Kluwer Academic Publishers, pp 1-21</li>
 +
<Li>Madison LL, Huisman GW (1999) Metabolic engineering of poly (3-hydroxyalkanoates): from DNA to plastic. Microbiol Mol Biol R 63:21-53</li>
 +
<li>Maehara A, Ueda S, Nakano H, Yamane T (1999) Analyses of a polyhydroxyalkanoic acid granule-associated 16-kilodalton protein and its putative regulator in the pha locus of <i>Paracoccus denitrificans</i>. J Bacteriol 191:2914-2921</li>
 +
<li>Mergulhão, FJM, Summers DK, Monteiro (2005) Recombinant protein secretion in <i>Escherichia coli</i> Biotechnol Adv 23:177-202</li>
 +
<li>Molhoj M (2004) Leader sequences are not signal peptides. Nat Biotech 22:1502</li>
 +
<li>Palmer T, Berks BC (2004) The Tat protein export pathway In: Oudega B, editor. Kluwer Academic Publishers, pp 51-64</li>
 +
<li>Phillips I, Silver P (2006) A new biobrick assembly strategy designed for facile protein engineering. </li>
 +
<li>Porter RD (2002) Modern microbial genetics, 2nd ed. New York, NY: Wiley-Liss Inc. </li>
 +
<lI>Prieto MA (2007) From Oil to Bioplastics, a Dream Come True? J Bacteriol 189(2):289-290</li>
 +
<li>Pugsley AP (1993) The complete general secretory pathway in gram-negative bacteria. Microbiol Rev 57:50-108</li>
 +
<li>Resch S, Gruber K, Wanner G, Slater S, Dennis D, and W Lubitz (1998) Aqueous release and purification of poly(β-hydroxybutyrate) from Escherichia coli. J Biotechnol 65:173-182. </li>
 +
<li>Sabirova JS, Ferror M, Lunsdorf H, Wray V, Kalscheuer R, Steinbuchel A, Timmis KN, Golyshin PN (2006) Mutation in a “<i>tesB</i>-Like” Hydroxyacyl-coenzyme A-specific thioesterase gene causes hyperproduction of extracellular polyhydroxalkanoates by <i>Alcanivorax borkumensis</i> SK2. J Bacteriol 188:8452-8459</li>
 +
<li>Sandkvist M (2001) Biology of type II secretion. Mol Microbiol 40:271-83</li>
 +
<li>Sandkvist M, Bagdasarian M (1996) Secretion of recombinant proteins by Gram-negative bacteria</li>
 +
<li>Santini C, Bernadac A, Zhang M, Chanal A, Ize B, Blan co C, Wu L (2001) Translocation of jellyfish green fluorescent protein via the Tat system of <i> Escherichia coli</i> and change of its periplasmic localization in response to osmotic up-shock. J Biol Chem 276:8159-8164</li>
 +
<li>Sapriel G, Wandersman C, Delepelaire P (2003) The SecB chaperone is bifnctional in <i>Serratia marcescens</i>: SecB is involved in the Sec pathway and required for HasA secretion by the ABC transporter. J Bacteriol 185:80-88</li>
 +
<li>Schatz PJ, Beckwith J (1990) Genetic analysis of protein export in <i>Escherichia coli</i> Annu Rev Genet 24:215-48</li>
 +
<li>Scholtz (1989) Complete nucleotide sequence and gene organization of the broad-host-range plasmid RSF1010. Gene 75:217-288</li>
 +
<li>Shimomura O, Johnson F, and Saiga Y. (1962) Extraction, purification and properties of aequorin, a bioluminescent protein from the luminous hydromedusan,  <i>Aequorea</i>. J.Cell Comp Physiol 59:223-39 </li>
 +
<li>Shokri A, Saden AM, Larsson G (2003) Cell and process design for targeting of recombinant protein into the culture medium of <i>Escherichia coli</i>. Appl Microbiol Biotechnol 60:654-664</li>
 +
<li>Snyder, Champness (2007) Molecular Genetics of Bacteria, 3rd ed.,  ASM Press</li>
 +
<li>Steinbüchel A, Füchtenbusch B (1998) Bacterial and other biological systems for polyester production. Trend Biotechnol 16:419-27</li>
 +
<li>Suriyanmongkol P, Weselake R, Narine S, Moloney M, Shah S (2007) Biotechnological approaches for the production of polyhydroxyalkanoates in microorganisms and plants – A review. Biotechnol Adv. 25:148-175</li>
 +
<li>Thomas JD, Daniel RA, errington J, Robinson C (2001) Export of Active green fluorescent protein to the periplasm by the twin-arginine translocase (Tat) pathway in <i> Escherichia coli</i>. Mol Microbiol 39:47-53</li>
 +
<li>Valent QA, Kendall DA, High S, Kusters R, Oudega B, Luirink J (1995) EMBO J 14:5494-5505</li>
 +
<li>van der Does C, Noewen N, Driessen AJM (2004) The Sec translocase. In: Oudega B, editor. Kluwer Academic Publishers, pp:23-49</li>
 +
<li>Veenendaal AKL, van der Does C, Driessen AJM (2004) The protein-conducting channel SecYEG. Biochimica et Biophysica Act 1694:81-95</li>
 +
<li>Verlinden RAJ, Hill DJ, Kenward MA, Williams CD, Radecka I (2007) Bacterial synthesis of biodegradable polyhydroxyalkanoates. J Appl Microbiol 102:1437-1449</li>
 +
<li>Von Heijne G (1986) Net N-C charge imbalance may be important for signal sequence function in bacteria. J Mol Biol 192:287-290</li>
 +
<li>Von Heijne G (1996) Principles of membrane protein assembly and structure. Prog Biophys Mol Bio 66:113-139</li>
 +
<li>Wolk CP, Fan Q, Zhou R, Huang G, Lechno-Yossef S, Kuritz T, Wojciuch E. (2007) Paired cloning vectors for complementation of mutations in the cyanobacterium Anabaena sp. strain PCC 7120. Arch. Microbiol. 188:551-563</li>
 +
<li>York GM, Junker BH, Stubbe J, Sinskey AJ (2001) Accumulation of the PhaP Phasin of Ralstonia eutropha is dependent on production of polyhydroxybutyrate in cells. J Bacteriol 183:4217-4226</li>
 +
<li>York GM, Stubbe J, Sinkskey AJ (2002) New insight into the role of the PhaP phasin of <i>Ralstonia eutropha</i> in promoting synthesis of polyhydroxybutyrate. J Bacteriol 183:2394-2397</li>
 +
 
</ul>
</ul>

Revision as of 03:01, 22 October 2009

USU iGem

Untitled Document

PROJECT Abstract
Introduction
Broad-Host Vectors
Secretion Experiments Future Work References

References
  • Akita M, Sasaki S, Matsuyama S, Mizushima S (1990) J Biol Chem 265:8164-8169
  • Anderson AJ, Dawes EA (1990) Occurrence, metabolism, metabolic role, and industrial uses of bacterial polyhydroxyalkanoates. Microbiol Rev 54:450-472
  • Barrett CML, Ray N, Thomas JD, Robinson C, Bolhuis A (2003) Quantitative export of a reporter protein, GFP, by the twin-arginine translocation pathway in Escherichia coli. Biochem BIophys Res Comm 304:279-284
  • Berks BC (1996) Mol Microbiol 22:393-404
  • Berks BC, Sargent F, Palmer T (2000) The Tat protein export pathway. Mol Microbiol 35:260-274
  • Binet,R, Letoffe S, Ghigo JM, Delepelaire P, Wandersman C. Protein secretion by Gram-negative bacterial ABC exporters-a review. Gene 1997;192:7-11
  • Blight MA, Holland IB (1994) Heterologous protein secretion and the versatile Escherichia coli haemolysin translocator. Trends Biotechnol 12:450-455
  • Cao TB, Saier MH (2003) The general protein secretory pathway:phlyogenetic analyses leading to evolutionary conclusions. Biochimica et Biophysica Acta 1609:115-125
  • Chalfie M, Tu Y, Euskirchen G, Ward W, and Prasher D. (1994) Green fluorescent protein as a marker for gene expression. Science 263:802-805
  • Choi J (1999) Factors affecting the economics of polyhydroxyalkanoate production by bacterial fermentation. Appl Microbiol Biot 51:13-21
  • Choi J, Lee SY (1997) Process analysis and economic evaluation for poly-β-hydroxybutyrate production by fermentation. Bioprocess Eng 17:335-342
  • Choi JH, Lee SY (2004) Secretory and extracellular production of recombinant proteins using Escherichia coli Appl Microbiol Biotechnol 64:625-635
  • Cianciotto NP (2005) Type II Secretion: A Protein Secretion System for all Seasons. Trends in Microbiology 13:581-588
  • Crameri A, Whitehorn E, Tate E, Stemmer W. (1996) Improved green fluorescent protein by molecular evolution using DNA shuffling. Nature Biotech 14:315-19.
  • Cristobal S, de Gier JW, Nielsen H, von Heijne G (1999) Competition between Sec- and Tat-dependent protein translocation in Escherichia coli EMBO J 18:2982-2990
  • Desveaux M, Parham N, Scott-Tucker A, Henderson IR (2004) The general secretory pathway: a general misnomer. Trends Micro 12:306-309
  • Doi Y (1990) Microbial Polyester. VCH, New York Fernandez LA, de Lorenzo V (2001) Fomration of disulphide bonds during secretion of proteins through the periplasmic-independent type I pathway. Mol Microbiol 40:332-346
  • Gentschev I, Goebel W (2003) Type I protein secretion systems in gram-negative bacteria: Escherichia coli alpha-hemolysin secretion. In: Oudega B, editor. Kluwer Academic Publishers, pp.121-139
  • Hearn MT, Acosta D (2001) Applications of novel affinity cassette methods: Use of peptide fusion handles for the purification of recombinant proteins. J Mol Recognit 14:323-369
  • Haller C.A., & Dichristina, T.J. (2002). Genetic approaches in bacteria with no natural genetic systems. New York, NY: Wiley-Liss, Inc.
  • Hess J, Gentschev I, Goebel W, Jarchau T (1990) Analysis of the haemolysin secretion system by PhoA-HlyA fusion proteins. Mol Gen Genet 224:201-208
  • Invitrogen Corporation (2009) Cloning of A-tailed PCR fragments using conventional ligase method. Retrieved October 2009. https://commerce.invitrogen.com
  • Jung IL, Phyo KH, Kim KC, Park HK, Kim IG (2005) Spontaneous liberation of intracellular polyhydroxybutyrate granules in Escherichia coli. Res Microbiol 156:865-873
  • Kaderbhai MA, Davey HM, Kaderbhai NN (1997) A directed evolution strategy for optimized export of recombinant proteins reveals critical determinants for preprotein discharge. Protein Science 13:2458-2469
  • Koster M, Bitter W, Tommassen J (2000) Protein secretion mechanisms in Gram-negative bacteria. Int J Med Microbiol 290:325-331
  • Lavallie ER, McCoy JM (1995) Gene fusion expression systems in Escherichia coli.Current Biology Ltd 501-506
  • Lee SY (1996) Bacterial Polyhydroxyalkanoates. Biotechnol Bioeng. 49:1-14
  • Luirink J, Oudega B Protein targeting to the inner membrane. In: Oudega B, editor. Kluwer Academic Publishers, pp 1-21
  • Madison LL, Huisman GW (1999) Metabolic engineering of poly (3-hydroxyalkanoates): from DNA to plastic. Microbiol Mol Biol R 63:21-53
  • Maehara A, Ueda S, Nakano H, Yamane T (1999) Analyses of a polyhydroxyalkanoic acid granule-associated 16-kilodalton protein and its putative regulator in the pha locus of Paracoccus denitrificans. J Bacteriol 191:2914-2921
  • Mergulhão, FJM, Summers DK, Monteiro (2005) Recombinant protein secretion in Escherichia coli Biotechnol Adv 23:177-202
  • Molhoj M (2004) Leader sequences are not signal peptides. Nat Biotech 22:1502
  • Palmer T, Berks BC (2004) The Tat protein export pathway In: Oudega B, editor. Kluwer Academic Publishers, pp 51-64
  • Phillips I, Silver P (2006) A new biobrick assembly strategy designed for facile protein engineering.
  • Porter RD (2002) Modern microbial genetics, 2nd ed. New York, NY: Wiley-Liss Inc.
  • Prieto MA (2007) From Oil to Bioplastics, a Dream Come True? J Bacteriol 189(2):289-290
  • Pugsley AP (1993) The complete general secretory pathway in gram-negative bacteria. Microbiol Rev 57:50-108
  • Resch S, Gruber K, Wanner G, Slater S, Dennis D, and W Lubitz (1998) Aqueous release and purification of poly(β-hydroxybutyrate) from Escherichia coli. J Biotechnol 65:173-182.
  • Sabirova JS, Ferror M, Lunsdorf H, Wray V, Kalscheuer R, Steinbuchel A, Timmis KN, Golyshin PN (2006) Mutation in a “tesB-Like” Hydroxyacyl-coenzyme A-specific thioesterase gene causes hyperproduction of extracellular polyhydroxalkanoates by Alcanivorax borkumensis SK2. J Bacteriol 188:8452-8459
  • Sandkvist M (2001) Biology of type II secretion. Mol Microbiol 40:271-83
  • Sandkvist M, Bagdasarian M (1996) Secretion of recombinant proteins by Gram-negative bacteria
  • Santini C, Bernadac A, Zhang M, Chanal A, Ize B, Blan co C, Wu L (2001) Translocation of jellyfish green fluorescent protein via the Tat system of Escherichia coli and change of its periplasmic localization in response to osmotic up-shock. J Biol Chem 276:8159-8164
  • Sapriel G, Wandersman C, Delepelaire P (2003) The SecB chaperone is bifnctional in Serratia marcescens: SecB is involved in the Sec pathway and required for HasA secretion by the ABC transporter. J Bacteriol 185:80-88
  • Schatz PJ, Beckwith J (1990) Genetic analysis of protein export in Escherichia coli Annu Rev Genet 24:215-48
  • Scholtz (1989) Complete nucleotide sequence and gene organization of the broad-host-range plasmid RSF1010. Gene 75:217-288
  • Shimomura O, Johnson F, and Saiga Y. (1962) Extraction, purification and properties of aequorin, a bioluminescent protein from the luminous hydromedusan, Aequorea. J.Cell Comp Physiol 59:223-39
  • Shokri A, Saden AM, Larsson G (2003) Cell and process design for targeting of recombinant protein into the culture medium of Escherichia coli. Appl Microbiol Biotechnol 60:654-664
  • Snyder, Champness (2007) Molecular Genetics of Bacteria, 3rd ed., ASM Press
  • Steinbüchel A, Füchtenbusch B (1998) Bacterial and other biological systems for polyester production. Trend Biotechnol 16:419-27
  • Suriyanmongkol P, Weselake R, Narine S, Moloney M, Shah S (2007) Biotechnological approaches for the production of polyhydroxyalkanoates in microorganisms and plants – A review. Biotechnol Adv. 25:148-175
  • Thomas JD, Daniel RA, errington J, Robinson C (2001) Export of Active green fluorescent protein to the periplasm by the twin-arginine translocase (Tat) pathway in Escherichia coli. Mol Microbiol 39:47-53
  • Valent QA, Kendall DA, High S, Kusters R, Oudega B, Luirink J (1995) EMBO J 14:5494-5505
  • van der Does C, Noewen N, Driessen AJM (2004) The Sec translocase. In: Oudega B, editor. Kluwer Academic Publishers, pp:23-49
  • Veenendaal AKL, van der Does C, Driessen AJM (2004) The protein-conducting channel SecYEG. Biochimica et Biophysica Act 1694:81-95
  • Verlinden RAJ, Hill DJ, Kenward MA, Williams CD, Radecka I (2007) Bacterial synthesis of biodegradable polyhydroxyalkanoates. J Appl Microbiol 102:1437-1449
  • Von Heijne G (1986) Net N-C charge imbalance may be important for signal sequence function in bacteria. J Mol Biol 192:287-290
  • Von Heijne G (1996) Principles of membrane protein assembly and structure. Prog Biophys Mol Bio 66:113-139
  • Wolk CP, Fan Q, Zhou R, Huang G, Lechno-Yossef S, Kuritz T, Wojciuch E. (2007) Paired cloning vectors for complementation of mutations in the cyanobacterium Anabaena sp. strain PCC 7120. Arch. Microbiol. 188:551-563
  • York GM, Junker BH, Stubbe J, Sinskey AJ (2001) Accumulation of the PhaP Phasin of Ralstonia eutropha is dependent on production of polyhydroxybutyrate in cells. J Bacteriol 183:4217-4226
  • York GM, Stubbe J, Sinkskey AJ (2002) New insight into the role of the PhaP phasin of Ralstonia eutropha in promoting synthesis of polyhydroxybutyrate. J Bacteriol 183:2394-2397