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(12) Patent Application Publication (10) Pub. No.: US 2013/0122553 A1 Maertens Et Al

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(12) Patent Application Publication (10) Pub. No.: US 2013/0122553 A1 Maertens Et Al US 2013 0122553A1 (19) United States (12) Patent Application Publication (10) Pub. No.: US 2013/0122553 A1 Maertens et al. (43) Pub. Date: May 16, 2013 (54) METABOLICALLY ENGINEERED Publication Classification ORGANISMS FOR THE PRODUCTION OF ADDED VALUE BO-PRODUCTS (51) Int. Cl. CI2N 5/8 (2006.01) CI2N 15/70 (2006.01) (75) Inventors: Jo Maertens, Gent (BE); Joeri (52) U.S. Cl. Beauprez, Bredene (BE); Marjan De CPC ................ CI2N 15/81 (2013.01); C12N 15/70 Mey, Gent (BE) (2013.01) USPC .. 435/97; 435/252.3:435/254.2:435/254.11: (73) Assignee: UNIVERSITEIT GENT, Gent (BE) 435/419,435/325; 435/252.33: 435/254.21 (21) Appl. No.: 13/809,340 (57) ABSTRACT The present invention relates to genetically engineered organ (22) PCT Fled: Jul. 12, 2011 isms, especially microorganisms such as bacteria and yeasts, for the production of added value bio-products such as spe (86) PCT NO.: PCT/EP1 1/61891 cialty saccharide, activated saccharide, nucleoside, glyco S371 (c)(1), side, glycolipid or glycoprotein. More specifically, the (2), (4) Date: Jan. 9, 2013 present invention relates to host cells that are metabolically engineered so that they can produce said valuable specialty (30) Foreign Application Priority Data products in large quantities and at a high rate by bypassing classical technical problems that occur in biocatalytical or Jul. 12, 2010 (EP) .................................. 1O1693O4.2 fermentative production processes. Patent Application Publication May 16, 2013 Sheet 1 of 22 US 2013/O122553 A1 ----uJs||Oqe?auj?o??ds····---···---···---···---······---···---·········Je6ns------------ Je6ns Patent Application Publication May 16, 2013 Sheet 2 of 22 US 2013/O122553 A1 s s s i Patent Application Publication May 16, 2013 Sheet 3 of 22 US 2013/O122553 A1 s \(~~~~_/ -----2 Patent Application Publication May 16, 2013 Sheet 4 of 22 US 2013/O122553 A1 S ZOO|× Patent Application Publication May 16, 2013 Sheet 5 of 22 US 2013/O122553 A1 : 9k- O-BOCEg'98 2 O 3 S Sh 5 : e -N1 St 8 i t i e s 5 s w ox. co ver N st s s i (AAGO /Oulu) dresoon uugueueoutpo Patent Application Publication May 16, 2013 Sheet 6 of 22 US 2013/O122553 A1 (I/3) SSeuog 3. C 3. d 3 (d t M 2 NC m w (I/3) eeeoe pue esoluons Patent Application Publication May 16, 2013 Sheet 7 of 22 US 2013/O122553 A1 CD 5Ž S 2is w ?t CDE A.is : OO \O V CN O CC VO V CN O i (I/3) UOIle-InueouOO Patent Application Publication May 16, 2013 Sheet 8 of 22 US 2013/O122553 A1 zj ZO n ZOO :X/ -----2 / 3ºun314 Patent Application Publication May 16, 2013 Sheet 9 of 22 US 2013/O122553 A1 CD -- (S Ol C CD El S.3 D CDO O .9 CD O O g cOl O -- Ol C .9) d o co s cN C v O O O O O (eSOJonsuef Jed ueu6) peA eSOICOleO O O O O O O O V cy) CN V i (1/6) uoleueouoo Patent Application Publication May 16, 2013 Sheet 10 of 22 US 2013/O122553 A1 Sucrose Sucrose phosphorylase Glucose-1-P Fructose pgm mak pgi pfkA, pfkB Glucose-6-P c-X- Fructose-6-P Fructose-1,6-bisp mana Pentose phosphate Mannose-6-P pathway cpSG Mannose-1-P GTP Biomass cpSB N gmm P pe OS X- GDP-mannose GDP-4-dehydro-6-deoxy-mannose NADPH NADP D fel Colanic acid e X- GDP-fucose wCaA, wCaB, wcaC, wcal), wcaE, wcaF, wCal, wCal J, wcaK, wcal, wcaM a-1,2-fucosyltransferase a-1,2-fucosyllactose Patent Application Publication May 16, 2013 Sheet 11 of 22 US 2013/O122553 A1 Sucrose Invertase Glucose Fructose glk - pgi pfkA, pfkB Glucose-6-P & Y Fructose-6-P Fructose-1,6-bisp manA Pentose phosphate Mannose-6-P pathway cpsG Mannose-1-P Y GTP Biomass cpSB gmm PP aOSe (- GDP-mannose GDP-4-dehydro-6-deoxy-mannose NADPH NADP" - ?el Colanic acid e-X- GDP-fucose wcaA, wcaB, wcaC, wcaD, wcaE, wcaF, wcal, wca.J., wcaK, wcal, wcalM O-1,2-fucosyltransferase ol-1,2-fucosyllactose Patent Application Publication May 16, 2013 Sheet 12 of 22 US 2013/O122553 A1 Figure 11 AGCATGATCGAACACATCATGCAGTCGATGCAATTCCCGGCGGAATTGATTGAGAAGG TTTGCGGAACTATCTAAAACGTTGCAGACAAAGGACAAAGCAATGGCAATCCACAATC GTGCAGGCCAACCGCACAACAGAGGATTGATTAACGTCGCCCAACTGACGGCGCA ATAAG ACTGAAACCAGAAGCAGGGAATGCGGAGCACGCGGTGAAAITCGGTACT TCCGGCACCGGGCAGGCAGCGCGCCACAGCTAACGAGCCGCACATCGGCGA TCGCTCAGGCAAIGCTGAAGAACGGCGAAAAACGGCATCACGGCCCGCATG GGGAAAGAACTCACGCCCTGICCGAACCGCATCATTTCCGTTCGGAAGIGCTG GCAGCGAACGGCGGATGTCATGGCAGGAAAACAATGGCTTCACCCCGACGCCTG CCGTTTCCAATGCCATCCTGGTTCACAATAAAAAAGGGGCCCGCTGGCAGACGGTA CGIGATTACACCGTCCCAAACCCGCCGGAAGATGGGGAACAAAACAATCCGCCA AAGGGGCCCGGCGAIACCAACGCACAAAGGGGGAAGACAGGGCCAACGCAC GCGGCCGATGGCCTGAAAGGCGIGAAGCGACCCCCGACGAAGCGAGGCAC CGGTCATGGAAAGAGCAGGATCGGGCAGCCGITCGTGGAAGGTCGGCCGATAC GIGAATGGCCGCGATTCAGAAAGCGGGCCTGACGCGGGCGIGATCCGCTGGGCG GTTCCGGTATCGAATACTGGAAGCGTATTGGCGAGTATTACAACCTCAACCTGACTAT CGTAACGATCAGGCGATCAAACCTTCCGCTTAGCACCTTGAAAAGACGGCGCG ATCCGTAGGACGCTCCTCCGAGGGCGATGGCGGGCCGCTGGCACTGCGTGATA AGITCGATCGGCGITGCTAACGACCCGGATTATGACCGTCACGGACGCACTCC GGCAGGGATGAACCGAACCACACCGGCGGGGCAACAAACCGTCCAG CACGTCCGCAGGGGGCAAAGAGGCCGCGGAAAACGCGGCATCGCGA TGATCGACCGGGGTCAACGACGGGCCGAAACGGAGAAGTCCCGGAGG CAAATGGGCGATGGTCGCGACGGCAGCCGGCGGCGGCGAAGAGAG. GCAGGGGCTTCCTTCCTGCGTTTCGACGGCACGCCGGGTCCACCGACAAAGACGGCA CATCAGGTCGCTGGCGGCGGAAATCACCGCTGICACCGGAAGAACCCGCAGGA ACACACAACGAACGGCAAAACGCTTGGTGCGCCGAGCACAACCGGCAGGCA GCGCGACCCGCACAAAAAGCGGCGCGCTAAGCTGICCCGGAAATGGGAGCG CCAGCACCCGGCAGGGACCCGACACCGCGCGCCGACGCGCTCCGGGCAACGG IGCTCAGGCGGCTGAAAGGATGACTGACAACGGCTGGTTCGCCGCGCGTCCG TCAGGCACGGAAGACGCAATAAGATCTACTGCGAAAGCTTCCTCGGGAAGAACATC GCAAGCAGATTGAGAAAGAAGCGGTTGAGATTGAGCGAAGTTCTGAAAAACGCGTA AACACATTTAATAAAAAAAGGGCGGTCGCAAGATCGCCCTTTTTTACGTATGACAAAC ACAGAATTGCCTGATGCGCTACGCTTATCAGGCCTACGAGGAT Figure 12 CGTACACGCGTTTACTTTGCGGCAGATGAACAAACGCTGCTGAAAAATGGTAA TCAGACCAAGCCGAAACATGTGCCAGGCACGCCGTATTGGGTGATCACCAACA CCAACACCGGCCGTAAATGCAGCATGATCGAACACATCATGCAGTCGATGCAA TTCCCGGCGGAATTGATTGAGAAGGTTTGCGGAACTATCTAAAACGTTGCAGA CAAAGGACAAAGCAGIGAGGCGGAGCGCCGAAGICCATACTCA GAGAAAGGAACTTCGGAAAGGAACAAGGAGGAATCATAGACACATTT AATAAAAAAAGGGCGGTCGCAAGATCGCCCTTTTTTACGTATGACAAACACAG AATTGCCTGATGCGCTACGCTTATCAGGCCTACGAGGATGGTGCAATATATTG AATTTAAGCGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAAAA ACAACGAACACTTTGTCAACAAACTGAGTAGC Patent Application Publication May 16, 2013 Sheet 13 of 22 US 2013/O122553 A1 Figure 13 CGTACACGCGTTTACTTTGCGGCAGATGAACAAACGCTGCTGAAAAATGGTAATCA GACCAAGCCGAAACATGTGCCAGGCACGCCGTATTGGGTGAT CACCA ACACCA ACA CCGGCCGTAAATGCAGCATGATCGAACACATCATGCAGTCGATGCAATTCCCGGCG GAATTGATTGAGAAGGTTTGCGGAACTATCTAAAACGTTGCAGACAAAGGACAAAG CAGTGAGGCTGGAGCGCCGAAGCCAACTTCAGAGAAAGGAACTIC GGAAAGGAACAAGGAGGAATTCATAGGACCGAAICCCGGGCGGCCGCTCA TATAAATCGACAGGAAAGAGGAAAAGGACAATCCAG GCGGCCGCCTAGAAGAAGCTGGGATCCGTCGACCCGAATCGGAGGAAACAAA GATGGGGGGCTCATCATCATCATCATCATGGATGGCAGCATGAGAAAGGAG AAGAACCACGGAGGCCCAACGGAA AGAGGGAGAA GGGCACAAATCGTCAGTGGAGAGGGGAAGGGAGCAACAACGGAAAAC ACCCAAATTTATTGCACTACTGGAAAACTACCTGTTCCATGGCCAACACTTG ICACTACTTTCGGGTATGGGTTCAATGCTTTGCNAGATACCCAGATCATAGAAA CAGCATGACTTTTCAAGAGGCCAGCCCGAAGGTAGACAGGAAAGAACTA ACAAAGATGACGGGAACTACAAGACACGGCGAAGTCAAGTTGAAGGG ATACCCTTGAAAGAATCGAGAAAAGGATTGAAAAGAAGATGGAAAC ATTCTTGGACACAAATGGAAACAACAAACCACACAATGAACACAGGC AGACAAACAAAAGAATGGAATCAAAGAACT CAAAAAGACACAACATTGAAG ATGGAAGCGTCAACTAGCAGACCAATCAACAAAAACTCCAAGGCGATGGC CCTGTCCTTTTACCAGACAACCATTACCTGTCCACACAATCTGCCCTTTCGAAAGA TCCCAACGAAAAGAGAGACCACATGGCCTTCGAGTGAACAGCGCGGGA TACACATGGCATGGATGAACTATACAAATAACGCAGGCGACCAAGGGAGAG CTCCCAACGCGGGAGCAGGCATGCAAGCTIGGCTGTTTGGCGGATGAGAGAA GACAGCCGAACAGAAAACAGAACGCAGAAGCGGTCGATAAAACAGA ATTTGCCTGGCGGCAGAGCGCGGGGTCCCACCGACCCCAGCCGAACTCAGAA GIGAAACGCCGAGCGCCGAGGAGGGGGGCTCCCCAIGCGAGAGTAGGGAA CGCCAGGCACAAAAAAACGAAAGGCCAGCGAAAGACGGGCCCG ACTGTTGTTTGTCGGTGAACGCTCTCCTGAGTAGGACAAATCCGCCGGGAGCGGA TTGAACGGCGAAGCAACGGCCCGGAGGGGGCGGGCAGGACGCCCGCCATAAA CTGCCAGGCATCAAATAAGCAGAAGGCCACCGACGGAGCTACTGCGAAAGCT TCCTCGGTGAAGAACATCGCAAGCAGATTGAGAAAGAAGCGGTTGAGATTGTTAGC GAAGTTCTGAAAAACGCGTAACTACTGCGAAAGCTTCCTCGGTGAAGAACATCGCA AGCAGATTGAGAAAGAAGCGGTTGAGATTGTTAGCGAAGTTCTGAAAAACGCGTAA ACACATTTAATAAAAAAAGGGCGGTCGCAAGATCGCCCTTTTTTACGTATGACAAA CACAGAATTGCCTGATGCGCTACGCTTATCAGGCCTACGAGGATGGTGCAATATAT TGAATTTAAGCGATTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAAAAA CAACGAACACTTTGTCAACAAACTGAGTAGCTCAAGGAAATCCCA Patent Application Publication May 16, 2013 Sheet 14 of 22 US 2013/O122553 A1 Figure 14 CGTACACGCGTTTACTTTGCGGCAGATGAACAAACGCTGCTGAAAAATGGTAATC AGACCAAGCCGAAACATGTGCCAGGCACGCCGTATTGGGTGATCACCAACACCAA CACCGGCCGTAAATGCAGCATGATCGAACACATCATGCAGTCGATGCAATTCCCG GCGGAATTGATTGAGAAGGTTTGCGGAACTATCTAAAACGTTGCAGACAAAGGAC AAAGCAACGAAAGGCTCAGTCGAAAGACTGGGCCCGTACTGGG TCGGTGAACGCCCCGAGTAGGACAAATCCGCCGGGAGCGGATGAACGG CGAAGCAACGGCCCGGAGGGTGGCGGGCAGGACGCCCGCCAAAACTGCCAGGCA TCAAATAAGCAGAAGGCCACCTGACGGAGGCCTTGCGGGCCAGGCCA AGCTTGCATGCAGAGCAGCATTACACGTCTTGAGCGATTGTGTAGGCGGAGC GCTTCGAAGTTCCTATACTTCAGAGAATAGGAACTTCGGAATAGGAACTTCA AGATCCCCTCACGCTGCCGCAAGCACTCAGGGCGCAAGGGCTGCTAAAGGAAGCG GAACACGTAGAAAGCCAGTCCGCAGAAACGGTGCTGACCCCGGATGAATGTCAGC TACTGGGCTACTGGACAAGGGAAAACGCAAGCGCAAAGAGAAAGCAGGTAGCTT GCAGGGGCACAGGCGATAGCTAGACTGGGCGGTTTAGGACAGCAAGCGA ACCGGAATTGCCAGCTGGGGCGCCCTCTGGTAAGGTTGGGAAGCCCTGCAAAGTA AACGGAGGCT(TCGCCGCCAAGGACTGATGGCGCAGGGGATCAAGATCG ATCAAGAGACAGGATGAGGATCGTTTCGCAAGATCCCCTCACGCTGCCGCAAGCA CTCAGGGCGCAAGGGCGCTAAAGGAAGCGGAACACGTAGAAAGCCAGCCGCAG AAACGGTGCTGACCCCGGATGAATGTCAGCTACTGGGCTATCTGGACAAGGGAAA ACGCAAGCGCAAAGAGAAAGCAGGTAGCTGCAGGGGCTTACAGGCGATAGCT AGACTGGGCGGTTTAGGACAGCAAGCGAACCGGAATTGCCAGCTGGGGCGCCC TCTGGAAGGTTGGGAAGCCCTGCAAAGAAACGGATGGCCTTGCCGCCAA GGATCGATGGCGCAGGGGACAAGATCGATCAAGAGACAGGATGAGGATCGT CGCGCGGGACTCGGGGCGAAAGACCGACCAAGCGACGCCCAACCTGCCAT CACGAGATTCGATTCCACCGCCGCCTTCTATGAAAGGTTGGGCTTCGGAATCGT TTTCCGGGACGCCGGCTGGAGATCCTCCAGCGCGGGGATCTCATGCTGGAGTTC TCTACTGCGAAAGCTTCCTCGGTGAAGAACATCGCAAGCAGATTGAGAAAGAAGC GGTTGAGATTGTTAGCGAAGTTCTGAAAAACGCGTAAACACATTTAATAAAAAAA
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