Organism Strain Reference(s) Comment(s)
Candida tropicalis HP15 Krug, M., Ziegler, H., & Straube, G. (1985). Degradation of phenolic compounds by the yeast Candida tropicalis HP 15 I. Physiology of growth and substrate utilization. Journal of Basic Microbiology, 25(2), 103–110. https://doi.org/10.1002/jobm.3620250206 -
Cupriavidus necator JMP134 Pérez-Pantoja, D., De la Iglesia, R., Pieper, D. H., & González, B. (2008). Metabolic reconstruction of aromatic compounds degradation from the genome of the amazing pollutant-degrading bacteriumCupriavidus necatorJMP134. FEMS Microbiology Reviews, 32(5), 736–794. https://doi.org/10.1111/j.1574-6976.2008.00122.x -
Pseudomonas putida KT2440 Jiménez, J. I., Miñambres, B., García, J. L., & Díaz, E. (2002). Genomic analysis of the aromatic catabolic pathways from Pseudomonas putida KT2440. Environmental Microbiology, 4(12), 824–841. https://doi.org/10.1046/j.1462-2920.2002.00370.x -
Corynebacterium glutamicum ATCC13032 Qi, S., Chaudhry, M. T., Zhang, Y., Meng, B., Huang, Y., Zhao, K., Poetsch, A., Jiang, C., Liu, S., & Liu, S. (2007). Comparative proteomes of Corynebacterium glutamicum grown on aromatic compounds revealed novel proteins involved in aromatic degradation and a clear link between aromatic catabolism and gluconeogenesis via fructose‐1,6‐bisphosphatase. PROTEOMICS, 7(20), 3775–3787. https://doi.org/10.1002/pmic.200700481 -
Rhodotorula graminis WP1 Durham, D. R., McNamee, C. G., & Stewart, D. B. (1984). Dissimilation of aromatic compounds in Rhodotorula graminis: biochemical characterization of pleiotropically negative mutants. Journal of Bacteriology, 160(2), 771–777. https://doi.org/10.1128/jb.160.2.771-777.1984 -
Trichosporon cutaneum CBS2466 Middelhoven, W. J. (1993). Catabolism of benzene compounds by ascomycetous and basidiomycetous yeasts and yeastlike fungi: A literature review and an experimental approach. Antonie van Leeuwenhoek, 63(2), 125–144. https://doi.org/10.1007/bf00872388 -
Rhodococcus erythropolis 1CP Eulberg, D., Golovleva, L. A., & Schlömann, M. (1997). Characterization of catechol catabolic genes from Rhodococcus erythropolis 1CP. Journal of Bacteriology, 179(2), 370–381. https://doi.org/10.1128/jb.179.2.370-381.1997 -
Treponema primitia ZAS-1 Lucey, K. S., & Leadbetter, J. R. (2013). Catechol 2,3‐dioxygenase and other meta‐cleavage catabolic pathway genes in the ‘anaerobic’ termite gut spirochete Treponema primitia. Molecular Ecology, 23(6), 1531–1543. https://doi.org/10.1111/mec.12598 -
Rhodococcus fascians AY730713 Song, Y. J. (2009). Characterization of aromatic hydrocarbon degrading bacteria isolated from pine litter.. Korean Journal of Microbiology and Biotechnology, 37, 333-339. -
Fusarium oxysporum 4287 Michielse, C. B., Reijnen, L., Olivain, C., Alabouvette, C., & Rep, M. (2012). Degradation of aromatic compounds through the β‐ketoadipate pathway is required for pathogenicity of the tomato wilt pathogen F usarium oxysporum f. sp. lycopersici. Molecular Plant Pathology, 13(9), 1089–1100. https://doi.org/10.1111/j.1364-3703.2012.00818.x -
Amycolatopsis sp. 75iv2 (ATCC 39116) Davis, J. R., Goodwin, L. A., Woyke, T., Teshima, H., Bruce, D., Detter, C., Tapia, R., Han, S., Han, J., Pitluck, S., Nolan, M., Mikhailova, N., Land, M. L., & Sello, J. K. (2012). Genome Sequence of Amycolatopsis sp. Strain ATCC 39116, a Plant Biomass-Degrading Actinomycete. Journal of Bacteriology, 194(9), 2396–2397. https://doi.org/10.1128/jb.00186-12; Pometto III, A. L., Sutherland, J. B., & Crawford, D. L. (1981). Streptomyces setonii: catabolism of vanillic acid via guaiacol and catechol. Canadian Journal of Microbiology, 27(6), 636–638. https://doi.org/10.1139/m81-097; Antai, S. P., & Crawford, D. L. (1983). Degradation of phenol by Streptomyces setonii. Canadian Journal of Microbiology, 29(1), 142–143. https://doi.org/10.1139/m83-022; Barton, N., Horbal, L., Starck, S., Kohlstedt, M., Luzhetskyy, A., & Wittmann, C. (2018). Enabling the valorization of guaiacol-based lignin: Integrated chemical and biochemical production of cis,cis-muconic acid using metabolically engineered Amycolatopsis sp ATCC 39116. Metabolic Engineering, 45, 200–210. https://doi.org/10.1016/j.ymben.2017.12.001 -
Pseudomonas fluorescens AN103 Paulsen, I. T., Press, C. M., Ravel, J., Kobayashi, D. Y., Myers, G. S. A., Mavrodi, D. V., DeBoy, R. T., Seshadri, R., Ren, Q., Madupu, R., Dodson, R. J., Durkin, A. S., Brinkac, L. M., Daugherty, S. C., Sullivan, S. A., Rosovitz, M. J., Gwinn, M. L., Zhou, L., Schneider, D. J., ... Loper, J. E. (2005). Complete genome sequence of the plant commensal Pseudomonas fluorescens Pf-5. Nature Biotechnology, 23(7), 873–878. https://doi.org/10.1038/nbt1110 -
Cryptococcus terreus PB4 Bergauer, P., Fonteyne, P. A., Nolard, N., Schinner, F., & Margesin, R. (2005). Biodegradation of phenol and phenol-related compounds by psychrophilic and cold-tolerant alpine yeasts. Chemosphere, 59(7), 909–918. https://doi.org/10.1016/j.chemosphere.2004.11.011 -
Rhodotorula creatinivora PB7 Bergauer, P., Fonteyne, P. A., Nolard, N., Schinner, F., & Margesin, R. (2005). Biodegradation of phenol and phenol-related compounds by psychrophilic and cold-tolerant alpine yeasts. Chemosphere, 59(7), 909–918. https://doi.org/10.1016/j.chemosphere.2004.11.011 -
Rhodosporidium lusitaniae PB14 Bergauer, P., Fonteyne, P. A., Nolard, N., Schinner, F., & Margesin, R. (2005). Biodegradation of phenol and phenol-related compounds by psychrophilic and cold-tolerant alpine yeasts. Chemosphere, 59(7), 909–918. https://doi.org/10.1016/j.chemosphere.2004.11.011 -
Microbotryomycetidae sp. AG15 Bergauer, P., Fonteyne, P. A., Nolard, N., Schinner, F., & Margesin, R. (2005). Biodegradation of phenol and phenol-related compounds by psychrophilic and cold-tolerant alpine yeasts. Chemosphere, 59(7), 909–918. https://doi.org/10.1016/j.chemosphere.2004.11.011 -
Candida maltosa Fialova isolate Fialová, A., Boschke, E., & Bley, T. (2004). Rapid monitoring of the biodegradation of phenol-like compounds by the yeast Candida maltosa using BOD measurements. International Biodeterioration & Biodegradation, 54(1), 69–76. https://doi.org/10.1016/j.ibiod.2004.02.004 -
Rhodotorula vanillica IGC 4506 Sampaio, J. (1995). Utilization of Low Molecular Weight Lignin-Related Aromatic Compounds for the Selective Isolation of Yeasts: Rhodotorula vanillica, a New Basidiomycetous Yeast Species. Systematic and Applied Microbiology, 17(4), 613–619. https://doi.org/10.1016/s0723-2020(11)80083-4 -
Leucosporidium scottii G43 Middelhoven, W. J. (1993). Catabolism of benzene compounds by ascomycetous and basidiomycetous yeasts and yeastlike fungi: A literature review and an experimental approach. Antonie van Leeuwenhoek, 63(2), 125–144. https://doi.org/10.1007/bf00872388 -
Exophiala jeanselmei CBS 658.76 Middelhoven, W. J. (1993). Catabolism of benzene compounds by ascomycetous and basidiomycetous yeasts and yeastlike fungi: A literature review and an experimental approach. Antonie van Leeuwenhoek, 63(2), 125–144. https://doi.org/10.1007/bf00872388 -
Paenibacillus glucanolyticus SLM1 Mathews, S. L., Pawlak, J. J., & Grunden, A. M. (2014). Isolation of Paenibacillus glucanolyticus from pulp mill sources with potential to deconstruct pulping waste. Bioresource Technology, 164, 100–105. https://doi.org/10.1016/j.biortech.2014.04.093 -
Mastigobasidium intermedium PB8 Bergauer, P., Fonteyne, P. A., Nolard, N., Schinner, F., & Margesin, R. (2005). Biodegradation of phenol and phenol-related compounds by psychrophilic and cold-tolerant alpine yeasts. Chemosphere, 59(7), 909–918. https://doi.org/10.1016/j.chemosphere.2004.11.011 -
Sporobolomyces roseus AG13 Bergauer, P., Fonteyne, P. A., Nolard, N., Schinner, F., & Margesin, R. (2005). Biodegradation of phenol and phenol-related compounds by psychrophilic and cold-tolerant alpine yeasts. Chemosphere, 59(7), 909–918. https://doi.org/10.1016/j.chemosphere.2004.11.011 -
Candida albicans CBS562 Gérecová, G., Neboháčová, M., Zeman, I., Pryszcz, L. P., Tomáška, U., Gabaldón, T., & Nosek, J. (2015). Metabolic gene clusters encoding the enzymes of two branches of the 3-oxoadipate pathway in the pathogenic yeast Candida albicans. FEMS Yeast Research, 15(3). https://doi.org/10.1093/femsyr/fov006 -
Candida tropicalis CBS94 Gérecová, G., Neboháčová, M., Zeman, I., Pryszcz, L. P., Tomáška, U., Gabaldón, T., & Nosek, J. (2015). Metabolic gene clusters encoding the enzymes of two branches of the 3-oxoadipate pathway in the pathogenic yeast Candida albicans. FEMS Yeast Research, 15(3). https://doi.org/10.1093/femsyr/fov006 -
Candida dubliniensis CBS7987 Gérecová, G., Neboháčová, M., Zeman, I., Pryszcz, L. P., Tomáška, U., Gabaldón, T., & Nosek, J. (2015). Metabolic gene clusters encoding the enzymes of two branches of the 3-oxoadipate pathway in the pathogenic yeast Candida albicans. FEMS Yeast Research, 15(3). https://doi.org/10.1093/femsyr/fov006 -
Pseudomonas putida Perestelo isolate 3 Perestelo, F., Rodríguez, A., Pérez, R., Carnicero, A., de la Fuente, G., & Falcón, M. A. (1996). Short communication: Isolation of a bacterium capable of limited degradation of industrial and labelled, natural and synthetic lignins. World Journal of Microbiology and Biotechnology, 12(1), 111–112. https://doi.org/10.1007/bf00327817 -
Pseudomonas sp. MT1 Pelz, O., Tesar, M., Wittich, R., Moore, E. R. B., Timmis, K. N., & Abraham, W. (1999). Towards elucidation of microbial community metabolic pathways: unravelling the network of carbon sharing in a pollutant‐degrading bacterial consortium by immunocapture and isotopic ratio mass spectrometry. Environmental Microbiology, 1(2), 167–174. https://doi.org/10.1046/j.1462-2920.1999.00023.x -
Acinetobacter baylyi ADP1 Collier, L. S., Nichols, N. N., & Neidle, E. L. (1997). benK encodes a hydrophobic permease-like protein involved in benzoate degradation by Acinetobacter sp. strain ADP1. Journal of Bacteriology, 179(18), 5943–5946. https://doi.org/10.1128/jb.179.18.5943-5946.1997 -
Burkholderia cepacia KK01 Kato, K., Kozaki, S., & Sakuranaga, M. (1998). Degradation of Lignin Compounds by Bacteria from Termite Guts. Biotechnology Letters, 20(5), 459–462. https://doi.org/10.1023/a:1005432027603 -
Rhodococcus erythropolis TA421 Chung, S. Y., Maeda, M., Song, E., Horikoshij, K., & Kudo, T. (1994). A Gram-positive Polychlorinated Biphenyl-degrading Bacterium,Rhodococcus erythropolisStrain TA421, Isolated from a Termite Ecosystem. Bioscience, Biotechnology, and Biochemistry, 58(11), 2111–2113. https://doi.org/10.1271/bbb.58.2111 -
Azotobacter vinelandii ATCC 12837 Groseclose, E. E., & Ribbons, D. W. (1981). Metabolism of resorcinylic compounds by bacteria: new pathway for resorcinol catabolism in Azotobacter vinelandii. Journal of Bacteriology, 146(2), 460–466. https://doi.org/10.1128/jb.146.2.460-466.1981 -
Acinetobacter junii 5ga González, B., Acevedo, C., Brezny, R., & Joyce, T. (1993). Metabolism of chlorinated guaiacols by a guaiacol-degrading Acinetobacter junii strain. Applied and Environmental Microbiology, 59(10), 3424–3429. https://doi.org/10.1128/aem.59.10.3424-3429.1993 -
Desulfobacterium catecholicum NZva20 Szewzyk, R., & Pfennig, N. (1987). Complete oxidation of catechol by the strictly anaerobic sulfate-reducing Desulfobacterium catecholicum sp. nov.. Archives of Microbiology, 147(2), 163–168. https://doi.org/10.1007/bf00415278 (anaerobically)
Rhodococcus jostii RHA1 Kasai, D., Araki, N., Motoi, K., Yoshikawa, S., Iino, T., Imai, S., Masai, E., & Fukuda, M. (2015). γ-Resorcylate Catabolic-Pathway Genes in the Soil Actinomycete Rhodococcus jostii RHA1. Applied and Environmental Microbiology, 81(21), 7656–7665. https://doi.org/10.1128/aem.02422-15 (Gamma-resorcylate)
Burkholderia cepacia Song isolate 1 Song, Y. J. (2009). Characterization of aromatic hydrocarbon degrading bacteria isolated from pine litter.. Korean Journal of Microbiology and Biotechnology, 37, 333-339. -
Pantoea dispersa Song isolate 2 Song, Y. J. (2009). Characterization of aromatic hydrocarbon degrading bacteria isolated from pine litter.. Korean Journal of Microbiology and Biotechnology, 37, 333-339. -
Rhodococcus fascians Song isolate 3 Song, Y. J. (2009). Characterization of aromatic hydrocarbon degrading bacteria isolated from pine litter.. Korean Journal of Microbiology and Biotechnology, 37, 333-339. -
Flavimonas oryzihabitans Song isolate 4 Song, Y. J. (2009). Characterization of aromatic hydrocarbon degrading bacteria isolated from pine litter.. Korean Journal of Microbiology and Biotechnology, 37, 333-339. -
Microbacterium esteraromaticum Song isolate 5 Song, Y. J. (2009). Characterization of aromatic hydrocarbon degrading bacteria isolated from pine litter.. Korean Journal of Microbiology and Biotechnology, 37, 333-339. -
Acetobacterium woodii NZva16 Bache, R., & Pfennig, N. (1981). Selective isolation of Acetobacterium woodii on methoxylated aromatic acids and determination of growth yields. Archives of Microbiology, 130(3), 255–261. https://doi.org/10.1007/bf00459530 (anaerobically)
Papillibacter cinnamivorans CIN1 Defnoun, S., Labat, M., Ambrosio, M., Garcia, J. L., & Patel, B. K. (2000). Papillibacter cinnamivorans gen. nov., sp. nov., a cinnamate-transforming bacterium from a shea cake digester.. International Journal of Systematic and Evolutionary Microbiology, 50(3), 1221–1228. https://doi.org/10.1099/00207713-50-3-1221; Defnoun, S., Labat, M., Ambrosio, M., Garcia, J. L., & Patel, B. K. (2000). Papillibacter cinnamivorans gen. nov., sp. nov., a cinnamate-transforming bacterium from a shea cake digester.. International Journal of Systematic and Evolutionary Microbiology, 50(3), 1221–1228. https://doi.org/10.1099/00207713-50-3-1221 (anaerobically); (anaerobically)
Thauera sp. Cin3,4 Mechichi, T., Patel, B. K., & Sayadi, S. (2005). Anaerobic degradation of methoxylated aromatic compounds by Clostridium methoxybenzovorans and a nitrate-reducing bacterium Thauera sp. strain Cin3,4. International Biodeterioration & Biodegradation, 56(4), 224–230. https://doi.org/10.1016/j.ibiod.2005.09.001 -
Cupriavidus pinatubonensis 1245 Sato, Y., Nishihara, H., Yoshida, M., Watanabe, M., Rondal, J. D., Concepcion, R. N., & Ohta, H. (2006). Cupriavidus pinatubonensis sp. nov. and Cupriavidus laharis sp. nov., novel hydrogen-oxidizing, facultatively chemolithotrophic bacteria isolated from volcanic mudflow deposits from Mt. Pinatubo in the Philippines. International Journal of Systematic and Evolutionary Microbiology, 56(5), 973–978. https://doi.org/10.1099/ijs.0.63922-0 -
Cupriavidus laharis 1263a Sato, Y., Nishihara, H., Yoshida, M., Watanabe, M., Rondal, J. D., Concepcion, R. N., & Ohta, H. (2006). Cupriavidus pinatubonensis sp. nov. and Cupriavidus laharis sp. nov., novel hydrogen-oxidizing, facultatively chemolithotrophic bacteria isolated from volcanic mudflow deposits from Mt. Pinatubo in the Philippines. International Journal of Systematic and Evolutionary Microbiology, 56(5), 973–978. https://doi.org/10.1099/ijs.0.63922-0 -