Difference between revisions of "User:Scmohr/Antibiotic-res cat page"

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=Antibiotic Resistance Parts=
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This page contains a list of the contents for an antibiotic-resistance "catalog" page.  The actual layout will be developed on [[User:Scmohr/Antibiotic-res_cat_page2 | New Catalog Page for Antibiotic Resistance Parts]].
 +
 
  
 
==Introduction to Antibiotic Resistance==
 
==Introduction to Antibiotic Resistance==
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# '''Proteins that keep antibiotics out''' of the cell (by blocking the outer-membrane pores).
 
# '''Proteins that keep antibiotics out''' of the cell (by blocking the outer-membrane pores).
 
# '''Membrane-embedded channel proteins that actively pump antibiotics out''' of the cell.
 
# '''Membrane-embedded channel proteins that actively pump antibiotics out''' of the cell.
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# Proteins (and RNAs?) with '''altered drug binding sites'''. (Vancomycin resistance comes from a switch in the chemistry of the cell-wall cross-linking peptide). This category also includes mutations in ribosomal RNA -- ribosomes are one of the main targets of both prokaryote- and eukaryote-directed antibiotics.
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# Proteins (and RNAs) with '''altered drug binding sites'''. (Vancomycin resistance comes from a switch in the chemistry of the cell-wall cross-linking peptide). This category also includes mutations in ribosomal RNA -- ribosomes are one of the main targets of both prokaryote- and eukaryote-directed antibiotics.
 
# Proteins that enable '''substitution of an alternative metabolic pathway''' (as in the case of sulfonamide resistance).
 
# Proteins that enable '''substitution of an alternative metabolic pathway''' (as in the case of sulfonamide resistance).
  
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==Parts by Category==
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More details about antibiotic resistance can be found at __________________.
 +
 
 +
==Antibiotic-Resistance Key Basic Parts by Category==
 +
 
 +
''NB'' Parts listed in '''boldface''' are "good" parts ["Available" and (in most cases) "Work"]. Parts in plain type are poorly characterized. Letters in parentheses () refer to the specific antibiotic that relates to the part.  See 
 +
[https://parts.igem.org/Help:Plasmids/Nomenclature Plasmid/Nomenclature] for definitions of the abbreviations.
  
 
====1. Antibiotic-inactivating Enzymes====
 
====1. Antibiotic-inactivating Enzymes====
  
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:[https://parts.igem.org/Part:BBa_J31002 '''BBa_J31002''']
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:[https://parts.igem.org/Part:BBa_J23012 '''BBa_J23012'''](S)
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:[https://parts.igem.org/Part:BBa_J31003 '''BBa_J31003''']
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:[https://parts.igem.org/Part:BBa_J31002 '''BBa_J31002'''](K)
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:[https://parts.igem.org/Part:BBa_J23012 '''BBa_J23012''']
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:[https://parts.igem.org/Part:BBa_J31003 '''BBa_J31003'''](K)
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:[https://parts.igem.org/Part:BBa_J31004 '''BBa_J31004''']
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:[https://parts.igem.org/Part:BBa_J31004 '''BBa_J31004'''](C)
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:[https://parts.igem.org/Part:BBa_J31005 '''BBa_J31005''']
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:[https://parts.igem.org/Part:BBa_J31005 '''BBa_J31005'''](C)
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:[https://parts.igem.org/Part:BBa_J42020 BBa_J42020](S/ST)
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:[https://parts.igem.org/Part:BBa_J42021 BBa_J42021](S/ST)
  
 
====2. Membrane-blocking Proteins====
 
====2. Membrane-blocking Proteins====
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====3. Membrane-embedded Efflux Pumps====
 
====3. Membrane-embedded Efflux Pumps====
  
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:[https://parts.igem.org/wiki/index.php?title=Part:BBa_J31006 '''BBa_J31006''']
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:[https://parts.igem.org/wiki/index.php?title=Part:BBa_J31006 '''BBa_J31006'''](T)
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:[https://parts.igem.org/wiki/index.php?title=Part:BBa_J31007 '''BBa_J31007''']
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:[https://parts.igem.org/wiki/index.php?title=Part:BBa_J31007 '''BBa_J31007'''](T)
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:[https://parts.igem.org/wiki/index.php?title=Part:BBa_R0040 '''BBa_R0040'''](T)
  
 
====4. Altered Target Molecules====
 
====4. Altered Target Molecules====
  
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:[https://parts.igem.org/wiki/index.php?title=Part:BBa_J42010 BBa_J42010](St)
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BBa_J42010
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====5. Components of Alternative Metabolic Pathways====
 
====5. Components of Alternative Metabolic Pathways====
  
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==Useful Information about Antibiotic Resistance==
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====Parts Supplementary to Key Antibiotic Resistance Parts====
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 +
Tet repressor; Tet promoter....
 +
 
 +
==Devices Using Antibiotic-Resistance Parts by Category==
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 +
 
 +
These are BioBrick composite parts that contain (one or more?) antibiotic resistance components.
 +
 
 +
====1. With Antibiotic-inactivating Enzymes====
 +
 
 +
====2. With Membrane-blocking Proteins====
 +
 
 +
====3. With Membrane-embedded Efflux Pumps====
 +
 
 +
====4. With Altered Target Molecules====
 +
 
 +
====5. Containing Components of Alternative Metabolic Pathways====
 +
 
 +
 
 +
 
 +
<SPAN style= 'color:red'>'''Note: Antibiotic resistance genes are present in ''most'' of the plasmids supplied by the Registry (see [https://parts.igem.org/cgi/partsdb/pgroup.cgi?pgroup=Plasmid Plasmid]).'''</span>
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 +
WHAT ABOUT THE VARIOUS CELL LINES OFFERED AS CHASSIS?
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 +
==Miscellaneous Information about Antibiotic Resistance in the Registry==
 +
 
 +
===1. Items with Antibiotic-inactivating Enzymes===
  
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===Links===
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====Plasmids====
  
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====Aminoglycoside Resistance====
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The 98 well-characterized, available plasmids in the Registry, have the following resistance characteristics:
  
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This category includes kanamycin, streptomycin, gentamycin, neomycin, tobramycin, amikacin...
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*Ampicillin(A) -- 54
 +
*Chloramphenicol(C) -- 9
 +
*Gentamycin -- 0
 +
*Kanamycin(K)-- 9
 +
*Tetracycline(T)-- 2
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*AK -- 18
 +
*AC -- 2
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*AT -- 2
 +
*AG -- 1
 +
*AGK -- 1
  
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http://www.antibioresistance.be/aminoglycosides.html
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:BBa_K125000
  
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http://openwetware.org/wiki/Kanamycin
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====Cells====
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:BBa_V1016
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:BBa_V1019
  
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====Tetracycline Resistance====
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===2. Items with Membrane-blocking Proteins===
  
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This category includes ''three'' different resistance mechanisms. Related antibiotics are tetracycline, chlortetracycline, doxycycline, minocycline, oxytetracycline, spectinomycin.  Note that the TetR gene encodes a very popular repressor that is frequently used in synthetic biology simply as a single control element ''in cells that do not express tetracycline resistance.'' [Check this.]
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===3. Items with Membrane-embedded Efflux Pumps===
  
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http://www.antibioresistance.be/Tetracycline/Menu_Tet.html
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====Plasmids====
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:[https://parts.igem.org/wiki/index.php?title=Part:BBa_J69602 BBa_J69602]
  
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http://openwetware.org/wiki/Tetracycline
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===4. Items with Altered Target Molecules===
  
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http://cmr.asm.org/cgi/content/abstract/5/4/387
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===5. Containing Components of Alternative Metabolic Pathways===

Latest revision as of 16:11, 31 July 2008

This page contains a list of the contents for an antibiotic-resistance "catalog" page. The actual layout will be developed on New Catalog Page for Antibiotic Resistance Parts.


Introduction to Antibiotic Resistance

The established mechanisms of antibiotic resistance include the following:

  1. Enzymes that inactivate the antibiotic [famously (a). beta-lactamases that destroy penicillins and related compounds and (b) enzymes that acetylate chloramphenicol].
  2. Proteins that keep antibiotics out of the cell (by blocking the outer-membrane pores).
  3. Membrane-embedded channel proteins that actively pump antibiotics out of the cell.
  4. Proteins (and RNAs) with altered drug binding sites. (Vancomycin resistance comes from a switch in the chemistry of the cell-wall cross-linking peptide). This category also includes mutations in ribosomal RNA -- ribosomes are one of the main targets of both prokaryote- and eukaryote-directed antibiotics.
  5. Proteins that enable substitution of an alternative metabolic pathway (as in the case of sulfonamide resistance).

More details about antibiotic resistance can be found at __________________.

Antibiotic-Resistance Key Basic Parts by Category

NB Parts listed in boldface are "good" parts ["Available" and (in most cases) "Work"]. Parts in plain type are poorly characterized. Letters in parentheses () refer to the specific antibiotic that relates to the part. See Plasmid/Nomenclature for definitions of the abbreviations.

1. Antibiotic-inactivating Enzymes

BBa_J23012(S)
BBa_J31002(K)
BBa_J31003(K)
BBa_J31004(C)
BBa_J31005(C)
BBa_J42020(S/ST)
BBa_J42021(S/ST)

2. Membrane-blocking Proteins

3. Membrane-embedded Efflux Pumps

BBa_J31006(T)
BBa_J31007(T)
BBa_R0040(T)

4. Altered Target Molecules

BBa_J42010(St)

5. Components of Alternative Metabolic Pathways

Parts Supplementary to Key Antibiotic Resistance Parts

Tet repressor; Tet promoter....

Devices Using Antibiotic-Resistance Parts by Category

These are BioBrick composite parts that contain (one or more?) antibiotic resistance components.

1. With Antibiotic-inactivating Enzymes

2. With Membrane-blocking Proteins

3. With Membrane-embedded Efflux Pumps

4. With Altered Target Molecules

5. Containing Components of Alternative Metabolic Pathways

Note: Antibiotic resistance genes are present in most of the plasmids supplied by the Registry (see Plasmid).

WHAT ABOUT THE VARIOUS CELL LINES OFFERED AS CHASSIS?

Miscellaneous Information about Antibiotic Resistance in the Registry

1. Items with Antibiotic-inactivating Enzymes

Plasmids

The 98 well-characterized, available plasmids in the Registry, have the following resistance characteristics:

  • Ampicillin(A) -- 54
  • Chloramphenicol(C) -- 9
  • Gentamycin -- 0
  • Kanamycin(K)-- 9
  • Tetracycline(T)-- 2
  • AK -- 18
  • AC -- 2
  • AT -- 2
  • AG -- 1
  • AGK -- 1
BBa_K125000

Cells

BBa_V1016
BBa_V1019

2. Items with Membrane-blocking Proteins

3. Items with Membrane-embedded Efflux Pumps

Plasmids

BBa_J69602

4. Items with Altered Target Molecules

5. Containing Components of Alternative Metabolic Pathways