Team:Caltech/References

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Ellis, T., Adie, T. & Baldwin, G.S. DNA assembly for synthetic biology: from parts to pathways and beyond. Integrative Biology 3, 109-118 (2011).

Kang J, K. F. (2002). Bisphenol A Degradation by Bacteria Isolated from River Water. Archives of Environmental Contamination and Toxicology, 265-269. [http://www.springerlink.com/content/ge1mec9289r4cw3w/ http://www.springerlink.com/content/ge1mec9289r4cw3w/]
- Isolation of EDC-degrading bacteria from environmental samples.

Kiyohara, H., Nagao, K., Yana, K. (1982). Rapid screen for bacteria degrading water-insoluble, solid hydrocarbons on agar plates. Applied and Environmental Microbiology, 454-457. [http://aem.asm.org/cgi/content/abstract/43/2/454 http://aem.asm.org/cgi/content/abstract/43/2/454]
- Plating water-insoluble chemicals by dissolving in ether.

Kuiper, George G. J. M. et al. “Interactions of Estrogenic Chemicals and Phytoestrogens with Estrogen Receptor β.” Endocrinology 139.10 (1998): 4252-4263. [http://endo.endojournals.org/cgi/content/full/139/10/4252 http://endo.endojournals.org/cgi/content/full/139/10/4252]
- Background on estrogenic compounds and estrogen receptor beta

Lewis, J., Mantovani, Simone M., Fu, Y. (2010). Combinatorial Alanine Substitution Enables Rapid Optimization ofCytochrome P450BM3for Selective Hydroxylation of Large Substrates. ChemBioChem Volume 11, Issue 18, 2502–2505. [http://onlinelibrary.wiley.com/doi/10.1002/cbic.201000565/abstract http://onlinelibrary.wiley.com/doi/10.1002/cbic.201000565/abstract]
- p450 BM3 enzymes' ability to degrade organic compounds.

Liney K, J. S. (2005). Assessing the Sensitivity of Different Life Stages for Sexual Disruption in Roach (Rutilus rutilus) Exposed to Effluents from Wastewater Treatment Works. Environmental Health Perspectives, 1299-1307. [http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1281270/ http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1281270/]
- Endocrine disruptors' effects on wildlife

Lipke, H. & Kearns, C.W. DDT Dehydrochlorinase. Journal of Biological Chemistry 234, 2123-2128 (1959).
- Information about DDT Dehydrochlorinase [http://partsregistry.org/Part:BBa_K620000 (BBa_K620000).]

Prapanthadara, L., Koottathep, S., Promtet, N., Hemingway, J., Ketterman, A. (1995) Purification and characterization of a major glutathione S-transferase from the mosquito Anopheles dirus (Species B). Insect Biochemistry and Molecular Biology Volume 26, Issue 3, 277-285. [http://www.sciencedirect.com/science/article/pii/0965174895000909 http://www.sciencedirect.com/science/article/pii/0965174895000909]
- DDT-degrading enzyme.

Prapanthadara, L.-a., H. Ranson, et al. (1998). "Cloning, expression and characterization of an insect class I glutathione S-transferase from Anopheles dirus species B." Insect Biochemistry and Molecular Biology 28(5-6): 321-329. [http://www.sciencedirect.com/science/article/pii/S096517489800006X]
- Kinetics of DDT-degrading enzyme.

Routledge, Edwin J. and John P. Sumpter. “Estrogenic Activity of Surfactant and Some of their Degradation Products Assessed Using a Recombinant Yeast Screen.” Environmental Toxicology and Chemistry 15.3 (1996): 241-248. [http://www.oekomorph-zoologie.uni- hd.de/Alternativmethoden/routledge%20and%20sumpter%201996.pdf http://www.oekomorph-zoologie.uni- hd.de/Alternativmethoden/routledge%20and%20sumpter%201996.pdf]
- Background on estrogenic compounds and a yeast screen for them

Sasaki, M., Tsuchido, T., & Matsumura, Y. (2008). Molecular cloning and characterization of cytochrome P450 and ferredoxin genes involved in bisphenol A degradation in Sphingomonas bisphenolicum strain AO1. Journal of applied microbiology, 105(4), 1158-69. doi: 10.1111/j.1365-2672.2008.03843.x. [http://onlinelibrary.wiley.com/doi/10.1111/j.1365-2672.2008.03843.x/full http://onlinelibrary.wiley.com/doi/10.1111/j.1365-2672.2008.03843.x/full]
- BisdA and BisdB

Sasaki, M., Ayako Akahira, Ko-‐ichi Oshiman, Tetsuaki Tsuchido, and Yoshinobu Matsumura Purification of Cytochrome P450 and Ferredoxin, Involved in Bisphenol A Degradation, from Sphingomonas sp. Strain AO1 Appl Environ Microbiol. 2005 December; 71(12): 8024–8030. doi:10.1128/AEM.71.12.8024-‐8030.2005
- Information on BisdA (BBa_K123000) and BisdB (BBa_K123001)

Sommer, M.O.A., Church, G.M. & Dantas, G. A functional metagenomic approach for expanding the synthetic biology toolbox for biomass conversion. Mol Syst Biol 6 (2010).
- Information on sequencing environmental samples

Um, Y., Chang, M. W., & Holoman, T. P. (2010). A simple and effective plating method to screen polycyclic aromatic hydrocarbon-degrading bacteria under various redox conditions. Applied Microbiology, 291-297. doi: 10.1007/s00253-010-2761-6. [http://www.springerlink.com/content/vk5ln5p745827082/ http://www.springerlink.com/content/vk5ln5p745827082/]
- Alternative method for plating water-insoluble chemicals.

Wise, Amber, Kacie O’Brien and Tracey Woodruff. “Are Oral Contraceptives a Significant Contributor to the Estrogenicity of Drinking Water?” Environmental Science & Technology 45.1 (2011): 51-60 [http://pubs.acs.org/doi/pdf/10.1021/es1014482 http://pubs.acs.org/doi/pdf/10.1021/es1014482].
- Background on contraceptives as endocrine disruptors

@@ Line 4: / Line 4: @@
 *Ellis, T., Adie, T. & Baldwin, G.S. DNA assembly for synthetic biology: from parts to pathways and beyond. Integrative Biology 3, 109-118 (2011).<br/><br/>
-*Lewis, J., Mantovani, Simone M., Fu, Y. (2010). Combinatorial Alanine Substitution Enables Rapid Optimization ofCytochrome P450BM3for Selective Hydroxylation of Large Substrates. ChemBioChem Volume 11, Issue 18, 2502–2505.  [http://onlinelibrary.wiley.com/doi/10.1002/cbic.201000565/abstract http://onlinelibrary.wiley.com/doi/10.1002/cbic.201000565/abstract]
-**p450 BM3 enzymes' ability to degrade organic compounds.<br/><br/>
-*Liney, K.E., Jobling, S., Shears, J.A., Simpson, P. & Tyler, C.R. Assessing the Sensitivity of Different Life Stages for Sexual Disruption in Roach (''Rutilus rutilus'') Exposed to Effluents from Wastewater Treatment Works. Environ Health Perspect 113 (2005).
-**Endocrine disruptors' effects on wildlife<br/><br/>
-*Lipke, H. & Kearns, C.W. DDT Dehydrochlorinase. Journal of Biological Chemistry 234, 2123-2128 (1959).
-**Information about DDT Dehydrochlorinase [http://partsregistry.org/Part:BBa_K620000 (BBa_K620000).]<br/><br/>
 *Kang J, K. F. (2002). Bisphenol A Degradation by Bacteria Isolated from River Water. Archives of Environmental Contamination and Toxicology, 265-269.  [http://www.springerlink.com/content/ge1mec9289r4cw3w/ http://www.springerlink.com/content/ge1mec9289r4cw3w/]
@@ Line 20: / Line 11: @@
 **Plating water-insoluble chemicals by dissolving in ether.<br/><br/>
-* Kuiper, George G. J. M. et al. “Interactions of Estrogenic Chemicals and Phytoestrogens with Estrogen Receptor β.” Endocrinology 139.10 (1998): 4252-4263. [http://endo.endojournals.org/cgi/content/full/139/10/4252 http://endo.endojournals.org/cgi/content/full/139/10/4252]
+*Kuiper, George G. J. M. et al. “Interactions of Estrogenic Chemicals and Phytoestrogens with Estrogen Receptor β.” Endocrinology 139.10 (1998): 4252-4263. [http://endo.endojournals.org/cgi/content/full/139/10/4252 http://endo.endojournals.org/cgi/content/full/139/10/4252]
 **Background on estrogenic compounds and estrogen receptor beta<br/><br/>
+*Lewis, J., Mantovani, Simone M., Fu, Y. (2010). Combinatorial Alanine Substitution Enables Rapid Optimization ofCytochrome P450BM3for Selective Hydroxylation of Large Substrates. ChemBioChem Volume 11, Issue 18, 2502–2505.  [http://onlinelibrary.wiley.com/doi/10.1002/cbic.201000565/abstract http://onlinelibrary.wiley.com/doi/10.1002/cbic.201000565/abstract]
+**p450 BM3 enzymes' ability to degrade organic compounds.<br/><br/>
 *Liney K, J. S. (2005). Assessing the Sensitivity of Different Life Stages for Sexual Disruption in Roach (Rutilus rutilus) Exposed to Effluents from Wastewater Treatment Works. Environmental Health Perspectives, 1299-1307.  [http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1281270/ http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1281270/]
-**Effects of EDCs on fish.<br/><br/>
+**Endocrine disruptors' effects on wildlife<br/><br/>
+*Lipke, H. & Kearns, C.W. DDT Dehydrochlorinase. Journal of Biological Chemistry 234, 2123-2128 (1959).
+**Information about DDT Dehydrochlorinase [http://partsregistry.org/Part:BBa_K620000 (BBa_K620000).]<br/><br/>
 *Prapanthadara, L., Koottathep, S., Promtet, N., Hemingway, J., Ketterman, A.  (1995) Purification and characterization of a major glutathione S-transferase from the mosquito Anopheles dirus (Species B).  Insect Biochemistry and Molecular Biology Volume 26, Issue 3, 277-285.  [http://www.sciencedirect.com/science/article/pii/0965174895000909 http://www.sciencedirect.com/science/article/pii/0965174895000909]