IGEM:Paris Bettencourt 2012/Notebooks/MAGE group/Auxotrophic

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Contents

List of Auxotrophic Strains

Alanine

There are multiple pathways for alanine biosynthesis, and no known complete auxotrophs exist.

Arginine

Knockout in argA (Strains JW2786-1 and NK5992)

Asparagine

Requires knockouts in both asnA and asnB (strain ER)

Aspartic acid

Requires knockouts in both aspC and tyrB (strain DL39)

Cysteine

Knockout in cysE (Strains JW3582-2 and JM15)

Glutamic acid

Requires knockouts in both gltB and gdhA (strain PA340)

Glutamine

Knockout in glnA (Strains JW3841-1 and M5004)

Glycine

Knockout in glyA (Strains JW2535-1 and AT2457)

Histidine

Knockout in hisB (Strains JW2004-1 and SB3930)

Isoleucine

Knockout in ilvA (Strain JW3745-2 and AB1255)

Leucine

Knockout in leuB (Strain JW5807-2 and CV514)

Lysine

Knockout in lysA (Strain JW2806-1 and KL334)

Methionine

Knockout in metA (Strain JW3973-1 and DL41)

Phenylalanine

Knockout in pheA (Strain JW2580-1 and KA197)

Map Position: [2,735,767 -> 2,736,927] (58.96 centisomes)

Length: 1161 bp / 386 aa

Proline

Knockout in proA (Strain JW0233-2 and NK5525)

Map Position: [260,727 -> 261,980] (5.62 centisomes)

Length: 1254 bp / 417 a

Serine

Knockout in serA (Strain JW2880-1 and JC158)

Map Position: [3,055,200 <- 3,056,432] (65.85 centisomes)

Length: 1233 bp / 410 aa

Threonine

Knockout in thrC (Strain JW0003-2 and Gif 41)

Map Position: [3,734 -> 5,020] (0.08 centisomes)

Length: 1287 bp / 428 aa

Tryptophan

Knockout in trpC (Strain JW1254-2 and CAG18455)


Map Position: [1,316,451 <- 1,317,809] (28.37 centisomes)

Length: 1359 bp / 452 aa

Organism: Escherichia coli K-12 substr. MG1655 Chromosome: Chromosome Region: 1316421 - 1317839 (reverse complement)


    GTCACCGCAC TGGCGGCACG AGGGTAAATG atgCAAACCG TTTTAGCGAA AATCGTCGCA
    GACAAGGCGA TTTGGGTAGA AGCCCGCAAA CAGCAGCAAC CGCTGGCCAG TTTTCAGAAT
    GAGGTTCAGC CGAGCACGCG ACATTTTTAT GATGCGCTAC AGGGTGCGCG CACGGCGTTT
    ATTCTGGAGT GCAAGAAAGC GTCGCCGTCA AAAGGCGTGA TCCGTGATGA TTTCGATCCA
    GCACGCATTG CCGCCATTTA TAAACATTAC GCTTCGGCAA TTTCGGTGCT GACTGATGAG
    AAATATTTTC AGGGGAGCTT TAATTTCCTC CCCATCGTCA GCCAAATCGC CCCGCAGCCG
    ATTTTATGTA AAGACTTCAT TATCGACCCT TACCAGATCT ATCTGGCGCG CTATTACCAG
    GCCGATGCCT GCTTATTAAT GCTTTCAGTA CTGGATGACG ACCAATATCG CCAGCTTGCC
    GCCGTCGCTC ACAGTCTGGA GATGGGGGTG CTGACCGAAG TCAGTAATGA AGAGGAACAG
    GAGCGCGCCA TTGCATTGGG AGCAAAGGTC GTTGGCATCA ACAACCGCGA TCTGCGTGAT
    TTGTCGATTG ATCTCAACCG TACCCGCGAG CTTGCGCCGA AACTGGGGCA CAACGTGACG
    GTAATCAGCG AATCCGGCAT CAATACTTAC GCTCAGGTGC GCGAGTTAAG CCACTTCGCT
    AACGGTTTTC TGATTGGTTC GGCGTTGATG GCCCATGACG ATTTGCACGC CGCCGTGCGC
    CGGGTGTTGC TGGGTGAGAA TAAAGTATGT GGCCTGACGC GTGGGCAAGA TGCTAAAGCA
    GCTTATGACG CGGGCGCGAT TTACGGTGGG TTGATTTTTG TTGCGACATC ACCGCGTTGC
    GTCAACGTTG AACAGGCGCA GGAAGTGATG GCTGCGGCAC CGTTGCAGTA TGTTGGCGTG
    TTCCGCAATC ACGATATTGC CGATGTGGTG GACAAAGCTA AGGTGTTATC GCTGGCGGCA
    GTGCAACTGC ATGGTAATGA AGAACAGCTG TATATCGATA CGCTGCGTGA AGCTCTGCCA
    GCACATGTTG CCATCTGGAA AGCATTAAGC GTCGGTGAAA CCCTGCCCGC CCGCGAGTTT
    CAGCACGTTG ATAAATATGT TTTAGACAAC GGCCAGGGTG GAAGCGGGCA ACGTTTTGAC
    TGGTCACTAT TAAATGGTCA ATCGCTTGGC AACGTTCTGC TGGCGGGGGG CTTAGGCGCA
    GATAACTGCG TGGAAGCGGC ACAAACCGGC TGCGCCGGAC TTGATTTTAA TTCTGCTGTA
    GAGTCGCAAC CGGGCATCAA AGACGCACGT CTTTTGGCCT CGGTTTTCCA GACGCTGCGC
    GCATATtaaG GAAAGGAACA ATGACAACAT TACTTAACC

Tyrosine

  • Knockout in tyrA (Strain JW2581-1 and N3087)

Map Position: [2,736,970 <- 2,738,091] (58.99 centisomes)

Length: 1122 bp / 373 aa

Organism: Escherichia coli K-12 substr. MG1655 Chromosome: Chromosome Region: 2736940 - 2738121 (reverse complement)

    TGACGGCTCG CGTGGCTTAA GAGGTTTATT atgGTTGCTG AATTGACCGC ATTACGCGAT
    CAAATTGATG AAGTCGATAA AGCGCTGCTG AATTTATTAG CGAAGCGTCT GGAACTGGTT
    GCTGAAGTGG GCGAGGTGAA AAGCCGCTTT GGACTGCCTA TTTATGTTCC GGAGCGCGAG
    GCATCTATGT TGGCCTCGCG TCGTGCAGAG GCGGAAGCTC TGGGTGTACC GCCAGATCTG
    ATTGAGGATG TTTTGCGTCG GGTGATGCGT GAATCTTACT CCAGTGAAAA CGACAAAGGA
    TTTAAAACAC TTTGTCCGTC ACTGCGTCCG GTGGTTATCG TCGGCGGTGG CGGTCAGATG
    GGACGCCTGT TCGAGAAGAT GCTGACCCTC TCGGGTTATC AGGTGCGGAT TCTGGAGCAA
    CATGACTGGG ATCGAGCGGC TGATATTGTT GCCGATGCCG GAATGGTGAT TGTTAGTGTG
    CCAATCCACG TTACTGAGCA AGTTATTGGC AAATTACCGC CTTTACCGAA AGATTGTATT
    CTGGTCGATC TGGCATCAGT GAAAAATGGG CCATTACAGG CCATGCTGGT GGCGCATGAT
    GGTCCGGTGC TGGGGCTACA CCCGATGTTC GGTCCGGACA GCGGTAGCCT GGCAAAGCAA
    GTTGTGGTCT GGTGTGATGG ACGTAAACCG GAAGCATACC AATGGTTTCT GGAGCAAATT
    CAGGTCTGGG GCGCTCGGCT GCATCGTATT AGCGCCGTCG AGCACGATCA GAATATGGCG
    TTTATTCAGG CACTGCGCCA CTTTGCTACT TTTGCTTACG GGCTGCACCT GGCAGAAGAA
    AATGTTCAGC TTGAGCAACT TCTGGCGCTC TCTTCGCCGA TTTACCGCCT TGAGCTGGCG
    ATGGTCGGGC GACTGTTTGC TCAGGATCCG CAGCTTTATG CCGACATCAT TATGTCGTCA
    GAGCGTAATC TGGCGTTAAT CAAACGTTAC TATAAGCGTT TCGGCGAGGC GATTGAGTTG
    CTGGAGCAGG GCGATAAGCA GGCGTTTATT GACAGTTTCC GCAAGGTGGA GCACTGGTTC
    GGCGATTACG CACAGCGTTT TCAGAGTGAA AGCCGCGTGT TATTGCGTCA GGCGAATGAC
    AATCGCCAGt aaTAATCCAG TGCCGGATGA TTCACATCAT CC

Valine/Isoleucine/Leucine

  • Knockout in ilvD (Strain JW5605-1 and CAG18431)

Map Position: [3,951,501 -> 3,953,351] (85.17 centisomes)

Length: 1851 bp / 616 aa

Organism: Escherichia coli K-12 substr. MG1655 Chromosome: Chromosome Region: 3951471 - 3953381

    TACGAGACAG ACACTGGGAG TAAATAAAGT atgCCTAAGT ACCGTTCCGC CACCACCACT
    CATGGTCGTA ATATGGCGGG TGCTCGTGCG CTGTGGCGCG CCACCGGAAT GACCGACGCC
    GATTTCGGTA AGCCGATTAT CGCGGTTGTG AACTCGTTCA CCCAATTTGT ACCGGGTCAC
    GTCCATCTGC GCGATCTCGG TAAACTGGTC GCCGAACAAA TTGAAGCGGC TGGCGGCGTT
    GCCAAAGAGT TCAACACCAT TGCGGTGGAT GATGGGATTG CCATGGGCCA CGGGGGGATG
    CTTTATTCAC TGCCATCTCG CGAACTGATC GCTGATTCCG TTGAGTATAT GGTCAACGCC
    CACTGCGCCG ACGCCATGGT CTGCATCTCT AACTGCGACA AAATCACCCC GGGGATGCTG
    ATGGCTTCCC TGCGCCTGAA TATTCCGGTG ATCTTTGTTT CCGGCGGCCC GATGGAGGCC
    GGGAAAACCA AACTTTCCGA TCAGATCATC AAGCTCGATC TGGTTGATGC GATGATCCAG
    GGCGCAGACC CGAAAGTATC TGACTCCCAG AGCGATCAGG TTGAACGTTC CGCGTGTCCG
    ACCTGCGGTT CCTGCTCCGG GATGTTTACC GCTAACTCAA TGAACTGCCT GACCGAAGCG
    CTGGGCCTGT CGCAGCCGGG CAACGGCTCG CTGCTGGCAA CCCACGCCGA CCGTAAGCAG
    CTGTTCCTTA ATGCTGGTAA ACGCATTGTT GAATTGACCA AACGTTATTA CGAGCAAAAC
    GACGAAAGTG CACTGCCGCG TAATATCGCC AGTAAGGCGG CGTTTGAAAA CGCCATGACG
    CTGGATATCG CGATGGGTGG ATCGACTAAC ACCGTACTTC ACCTGCTGGC GGCGGCGCAG
    GAAGCGGAAA TCGACTTCAC CATGAGTGAT ATCGATAAGC TTTCCCGCAA GGTTCCACAG
    CTGTGTAAAG TTGCGCCGAG CACCCAGAAA TACCATATGG AAGATGTTCA CCGTGCTGGT
    GGTGTTATCG GTATTCTCGG CGAACTGGAT CGCGCGGGGT TACTGAACCG TGATGTGAAA
    AACGTACTTG GCCTGACGTT GCCGCAAACG CTGGAACAAT ACGACGTTAT GCTGACCCAG
    GATGACGCGG TAAAAAATAT GTTCCGCGCA GGTCCTGCAG GCATTCGTAC CACACAGGCA
    TTCTCGCAAG ATTGCCGTTG GGATACGCTG GACGACGATC GCGCCAATGG CTGTATCCGC
    TCGCTGGAAC ACGCCTACAG CAAAGACGGC GGCCTGGCGG TGCTCTACGG TAACTTTGCG
    GAAAACGGCT GCATCGTGAA AACGGCAGGC GTCGATGACA GCATCCTCAA ATTCACCGGC
    CCGGCGAAAG TGTACGAAAG CCAGGACGAT GCGGTAGAAG CGATTCTCGG CGGTAAAGTT
    GTCGCCGGAG ATGTGGTAGT AATTCGCTAT GAAGGCCCGA AAGGCGGTCC GGGGATGCAG
    GAAATGCTCT ACCCAACCAG CTTCCTGAAA TCAATGGGTC TCGGCAAAGC CTGTGCGCTG
    ATCACCGACG GTCGTTTCTC TGGTGGCACC TCTGGTCTTT CCATCGGCCA CGTCTCACCG
    GAAGCGGCAA GCGGCGGCAG CATTGGCCTG ATTGAAGATG GTGACCTGAT CGCTATCGAC
    ATCCCGAACC GTGGCATTCA GTTACAGGTA AGCGATGCCG AACTGGCGGC GCGTCGTGAA
    GCGCAGGACG CTCGAGGTGA CAAAGCCTGG ACGCCGAAAA ATCGTGAACG TCAGGTCTCC
    TTTGCCCTGC GTGCTTATGC CAGCCTGGCA ACCAGCGCCG ACAAAGGCGC GGTGCGCGAT
    AAATCGAAAC TGGGGGGTta aTAATGGCTG ACTCGCAACC CCTGTCCGGT G
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