Xylose metabolism in the anaerobic fungus Piromyces sp. strain E2 follows the bacterial pathway

Archives of Microbiology

Volumn 180, Issue 2, 2003, Pages 134-141

  Harhangi, Harry R ^a   Akhmanova, Anna S ^a,d   Emmens, Roul ^a   Van Der Drift, Chris ^a   De Laat, Wim T A M ^b   Van Dijken, Johannes P ^c   Jetten, Mike S M ^a   Pronk, Jack T ^c   Op Den Camp, Huub J M ^a  

^a RADBOUD UNIVERSITY NIJMEGEN   (Netherlands)

^b Royal Nedalco BV   (Netherlands)

^c DELFT UNIVERSITY OF TECHNOLOGY   (Netherlands)

^d ERASMUS MEDICAL CENTER   (Netherlands)

Author keywords

Chytrid fungus; D Xylulokinase; Phylogeny; Piromyces; Xylose isomerase

Indexed keywords

BACTERIAL ENZYME; COMPLEMENTARY DNA; DEXTRO XYLULOKINASE; DNA; MESSENGER RNA; PHOSPHOTRANSFERASE; UNCLASSIFIED DRUG; XYLOSE; XYLOSE ISOMERASE;

AMINO ACID SEQUENCE; ANAEROBIC METABOLISM; ARTICLE; CONTROLLED STUDY; CORRELATION ANALYSIS; DNA LIBRARY; ENZYME ACTIVITY; ENZYME ANALYSIS; ENZYME SUBSTRATE; FERMENTATION TECHNIQUE; FUNGAL STRAIN; FUNGUS GROWTH; GEL PERMEATION CHROMATOGRAPHY; GENE ACTIVITY; GENE CLUSTER; GENE EXPRESSION; GENE IDENTIFICATION; GENE SEQUENCE; GENETIC CODE; MOLECULAR CLONING; MOLECULAR WEIGHT; NONHUMAN; NORTHERN BLOTTING; NUCLEOTIDE SEQUENCE; PHYLOGENY; PIROMYCES; PRIORITY JOURNAL; SACCHAROMYCES CEREVISIAE; SEQUENCE ANALYSIS; UNINDEXED SEQUENCE;

ALDOSE-KETOSE ISOMERASES; AMINO ACID SEQUENCE; GENE DOSAGE; GENE LIBRARY; MOLECULAR SEQUENCE DATA; MOLECULAR WEIGHT; PHOSPHOTRANSFERASES (ALCOHOL GROUP ACCEPTOR); PHYLOGENY; PIROMYCES; RECOMBINANT PROTEINS; SACCHAROMYCES CEREVISIAE; SEQUENCE ANALYSIS, DNA; TRANSCRIPTION, GENETIC; TRANSFORMATION, GENETIC; XYLOSE;

BACTERIA (MICROORGANISMS); FUNGI; PIROMYCES; PIROMYCES SP.; SACCHAROMYCES; SACCHAROMYCES CEREVISIAE;

EID: 0043160450     PISSN: 03028933     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00203-003-0565-0     Document Type: Article

References (46)

1. Akhmanova A, Voncken FGJ, Harhangi H, Hosea KM, Vogels GD Hackstein JHP (1998) Cytosolic enzymes with a mitochondrial ancestry from the anaerobic chytrid Piromyces sp. E2. Mol Microbiol 30:1017-1027
2. Akhmanova A, Voncken FGJ, Hosea KM, Harhangi H, Keltjens JT, Op den Camp HJM, Vogels GD, Hackstein JHP (1999) A hydrogenosome with pyruvate formate-lyase: anaerobic chytrid fungi use an alternative route for pyruvate catabolism. Mol Microbiol 32:1103-1114
3. Amore R, Wilhelm M, Hollenberg CP (1989) The fermentation of xylose - an analysis of the expression of Bacillus and Actino-planes xylose isomerase genes in yeast. Appl Microbiol Biotechnol 30:351-357
4. Banerjee S, Archana A, Satyanarayana T (1994) Xylose metabolism in a thermophilic mould Malbranchea pulchella var. sulfurea TMD-8. Curr Microbiol 29:349-352
5. Borneman WS, Akin DE, Ljungdahl LG (1989) Fermentation products and plant cell wall degrading enzymes produced by monocentric and polycentric anaerobic ruminal fungi. Appl Environ Microbiol 55:1066-1073
6. Brownlee AG (1994) The nucleic acids of anaerobic fungi. In: Mountfort DO, Orpin CG (eds) Anaerobic fungi. Biology, ecology, and function. Marcel Dekker, New York, pp 241-256
7. Bruinenberg PM, de Bot PHM, Van Dijken JP, Scheffers WA (1983) The role of the redox balance in the anaerobic fermentation of xylose by yeasts. Eur J Appl Microbiol Biotechnol 18:287-292
8. Bruinenberg PM, de Bot PHM, Van Dijken JP, Scheffers WA (1984) NADH-linked aldose reductase: the key to alcoholic fermentation of xylose by yeasts. Appl Microbiol Biotechnol 19:256-269
9. Chirgwin JM, Przybyla AE, MacDonald RJ, Rutter WJ (1979) Isolation of biologically active ribonucleic acid from sources enriched in ribonuclease. Biochemistry 18:5294-5299
10. Da Silva ACR, Ferro JA, Reinach FC, Farah CS, Furlan LR, Quaggio RB, Monteiro-Vitorello CB, Van Sluys MA, Almeida Jr NF, Alves LMC, do Amaral AM, Bertolini MC, Camargo LEA, Camarotte G, Cannavan F, Cardozo J, Chambergo F, Ciapina LP, Cicarelli RMB, Coutinho LL, Cursino-Santos JR, El-Dorry H, Faria JB, Ferreira AJS, Ferreira RCC, Ferro MIT, Formighieri EF, Franco MC, Greggio CC, Gruber A, Katsuyama AM, Kishi LT, Leite Jr RP, Lemos EGM, Lemos MVF, Locali EC, Machado MA, Madeira AMBN, Martinez-Rossi NM, Martins EC, Meidanis J, Menck CFM, Miyaki CY, Moon DH, Moreira LM, Novo MTM, Okura VK, Oliveira MC, Oliveira VR, Pereira Jr HA, Rossi A, Sena JAD, Silva C, de Souza RF, Spinola LAF, Takita MA, Tamura RE, Teixeira EC, Tezza RID, Trindade dos Santos M, Truffi D, Tsai SM, White FF, Setubal JC, Kitajima JP (2002) Comparison of the genomes of two Xanthomonas pathogens with differing host specificities. Nature 417:459-463
11. Devereux J, Haeberli P, Smithies O (1984) A comprehensive set of sequence analysis programs for the VAX. Nucleic Acids Res 12:387-395
12. Dische Z, Borenfreund E (1951) A new spectrophotometric method for the detection and determination of keto sugars and trioses. J Biol Chem 192:583-587
13. Felsenstein J (1989) PHYLIP - Phylogeny Interference Package (Version 3.2). Cladistics 5:164-166
14. Fraenkel DG (1987) Glycolysis, pentose phosphate pathway, and Entner-Doudoroff pathway. In: Neidhardt FC (ed) Escherichia coli and Salmonella typhimurium - cellular and molecular biology. ASM, Washington DC, pp 142-150
15. Fraser CM, Casjens S, Huang WM, Sutton GG, Clayton RA, Lathigra R, White O, Ketchum KA, Dodson R, Hickey EK, Gwinn M, Dougherty B, Tomb J-F, Fleischmann RD, Richardson D, Peterson J, Kerlavage AR, Quackenbush J, Salzberg S, Hanson M, van Vugt R, Palmer N, Adams MD, Gocayne JD, Weidman J, Utterback T, Watthey L, McDonald L, Artiach P, Bowman C, Garland S, Fujii C, Cotton, MD, Horst K, Roberts K, Hatch B, Smith HO, Venter JC (1997) Genomic sequence of a Lyme disease spirochaete, Borrelia burgdorferi. Nature 390:580-586
16. Garcia-Vallvé S, Romeu A, Palau J (2000) Horizontal gene transfer of glycosyl hydrolases of the rumen fungi. Mol Biol Evol 17:352-361
17. Gilbert HJ, Hazlewood GP, Laurie JI, Orpin CG, Xue GP (1992) Homologous catalytic domains in a rumen fungal xylanase - Evidence for gene duplication and prokaryotic origin. Mol Microbiol 6:2065-2072
18. Hahn-Hägerdal B, Wahlbom CF, Gárdonyi M, van Zyl WH, Cordero Otero RR, Jönsson LF (2001) Metabolic engineering of Saccharomyces cerevisiae for xylose utilization. Adv Biochem Engin Biotechnol 73:53-84
19. Harhangi HR, Steenbakkers PJM, Akhmanova A, Jetten MSM, van der Drift C, Op den Camp HJM (2002) A highly expressed family 1 β-glucosidase with transglycosylation capacity from the anaerobic fungus Piromyces sp. E2. Biochem Biophys Acta 1574:293-303
20. Harhangi HR, Akhmanova A, Steenbakkers PJM, Jetten MSM, van der Drift C, Op den Camp HJM (2003) Genomic DNA analysis of genes encoding (hemi-)cellulolytic enzymes of the anaerobic fungus Piromyces sp. E2. Gene (in press)
21. Henrick K, Collyer CA, Blow DM (1989) Structures of D-xylose isomerase from Arthrobacter strain B3728 containing the inhibitors xylitol and D-sorbitol at 2.5 Å and 2.3 Å resolution, respectively. J Mol Biol 208:129-157
22. Jeffries TW (1983) Utilization of xylose by bacteria, yeasts, and fungi. Adv Biochem Eng Biotechnol 27:1-32
23. Jeppsson M, Traff K, Johansson B, Hahn-Hägerdal B, Gorwa-Grauslund MF (2003) Effect of enhanced xylose reductase activity on xylose consumption and product distribution in xylose-fermenting recombinant Saccharomyces cerevisiae. FEMS Yeast Res 3:167-175
24. Jin YS, Jeffries T (2003) Changing flux of xylose metabolites by altering expression of xylose reductase and xylitol dehydrogenase in recombinant Saccharomyces cerevisiae. Appl Biochem Biotechnol 106:277-286
25. KanekoT, KotaniH, NakamuraY, Sato S, Asamizu E, Miyajima N, Tabata S (1998) Structural analysis of Arabidopsis thaliana chromosome 5. V. Sequence features of the regions of 1,381,565 bp covered by twenty one physically assigned P1 and TAC clones. J DNA Res 5: 131-145
26. Kristo P, Saarelainen R, Fagerstrom R, Aho S, Korhola M (1996) Protein purification, and cloning and characterization of the cDNA and gene for xylose isomerase of barley. Eur J Biochem 237:240-246
27. Kuyper M, Harhangi HR, Stave AK, Winkler AA, Op den Camp HJM, Jetten MSM, de Laat WTAM, den Ridder JJJ, van Dijken JP, Pronk JT (2003) High-level functional expression of a fungal xylose isomerase: the key to efficient alcoholic fermentation of xylose by Saccharomyces cerevisiae? FEMS Yeast Res (in press)
28. Lowe SE, Theodorou MK, Trinci APJ (1987) Growth and fermentation of an anaerobic fungus on various carbon sources and effect of temperature on development. Appl Environ Microbiol 53:1210-1215
29. Marvin-Sikkema FD, Richardson AJ, Stewart CS, Gottschal JC, Prins RA (1990) Influence of hydrogen-consuming bacteria on cellulose degradation by anaerobic fungi. Appl Environ Microbiol 56:3793-3797
30. Marvin-Sikkema FD, Pedro Gomes TM, Grivet JP, Gottschal JC, Prins RA (1993) Characterization of hydrogenosomes and their role in glucose metabolism of Neocallimastix sp. L2. Arch Microbiol 160:388-396
31. Meaden PG, Aduse-Opoku J, Reizer J, Reizer A, Lanceman YA, Martin MF, Mitchell WJ (1994) The xylose isomerase-encoding gene (xylA) of Clostridium thermosaccharolyticum: Cloning, sequencing and phylogeny of XylA enzymes. Gene 141:97-101
32. Rawat U, Phadtare S, Deshpande V, Rao M (1996) A novel xylose isomerase from Neurospora crassa. Biotechnol Lett 18:1267-1270
33. Richard P, Londesborough J, Putkonen M, Kalkkinen N, Penttila M (2001) Cloning and expression of a fungal L-arabinitol 4-dehydrogenase gene. J Biol Chem 276:40631-40637
34. Rodriguez-Peña JM, Cid VJ, Arroyo J, Nombela C (1998) The YGR194c (XKS1) gene encodes the xylulokinase from the budding yeast Saccharomyces cerevisiae. FEMS Microbiol Lett 162:155-160
35. Teunissen MJ, Op den Camp HJM (1993) Anaerobic fungi and their cellulolytic and xylanolytic enzymes. Antonie van Leeuwenhoek 63:63-76
36. Teunissen MJ, Op den Camp HJM, Orpin CG, Huis in 't Veld JHJ, Vogels GD (1991) Comparison of growth characteristics of anaerobic fungi from ruminant and non-ruminant herbivores during growth in a defined medium. J Gen Microbiol 137:1401-1408
37. Trinci APJ, Davies DR, Gull K, Lawrence MI, Nielsen BB, Rickers A, Theodorou MK (1994) Anaerobic fungi in herbivorous animals. Mycol Res 98:129-152
38. Vangrysperre W, Van Damme J, Vandekerckhove J, De Bruyne CK, Cornelis R, Kersters-Hilderson H (1989) Localization of the essential histidine and carboxylate group in xylose isomerases. Biochem J 265:699-705
39. Van Kuyk PA, de Groot MJ, Ruijter GJ, de Vries RP, Visser J (2001) The Aspergillus nigerD-xylulose kinase gene is co-expressed with genes encoding arabinan degrading enzymes, and is essential for growth on D-xylose and L-arabinose. Eur J Biochem 268:5414-5423
40. Walfridsson M, Bao X, Anderlund M, Lilius G, Bulow L, Hahn-Hägerdal B (1996) Ethanolic fermentation of xylose with Saccharomyces cerevisiae harboring the Thermus thermophilus xylA gene, which expresses an active xylose (glucose) isomerase. Appl Environ Microbiol 62:4648-4651
41. Wang T, Penttila M, Gao P (1999) Expression of xylose-metabolic key genes of Trichoderma reesei on various carbon sources measured by a series of Northern hybridizations. Wei Sheng Wu Xue Bao 39:503-509
42. Wang T, Penttila M, Gao P, Wang C, Zhong L (1998) Isolation and identification of xylitol dehydrogenase gene from Trichoderma reesei. Chin J Biotechnol 14:179-185
43. Williams AG, Orpin CG (1987) Polysaccharide degrading enzymes formed by anaerobic rumen fungi grown on a range of carbohydrate substrates. Can J Microbiol 33:418-426
44. Witteveen CFB, Busink R, van de Vondervoort P, Dijkema C, Swart K, Visser J (1989) L-Arabinose and D-xylose catabolism in Aspergillus niger. J Gen Microbiol 135:2163-2171
45. Yarlett N, Orpin CG, Munn EA, Yarlett NC, Greenwood CA (1986) Hydrogenosomes in the anaerobic fungus Neocallimastix patriciarum. Biochem J 236:729-739
46. Zhou LQ, Xue GP, Orpin CG, Black GW, Gilbert HJ, Hazlewood GP (1994) Intronless Celb from the anaerobic fungus Neocallimastix patriciarum encodes a modular family A endoglucanase. Biochem. J 297:359-364