TY - JOUR AU - Zhang, N. N. AU - Qu, J. H. AU - Yuan, H. L. AU - Sun, Y. M. AU - Yang, J. S. PY - 2010 DA - 2010// TI - Flavihumibacter petaseus gen. nov., sp. nov., isolated from soil of a subtropical rainforest JO - Int J Syst Evol Microbiol VL - 60 UR - https://doi.org/10.1099/ijs.0.011957-0 DO - 10.1099/ijs.0.011957-0 ID - Zhang2010 ER - TY - JOUR AU - Kim, W. H. AU - Lee, S. AU - Ahn, T. Y. PY - 2014 DA - 2014// TI - Flavihumibacter cheonanensis sp. nov., isolated from sediment of a shallow stream JO - Int J Syst Evol Microbiol VL - 64 UR - https://doi.org/10.1099/ijs.0.063370-0 DO - 10.1099/ijs.0.063370-0 ID - Kim2014 ER - TY - JOUR AU - Lee, H. J. AU - Jeong, S. E. AU - Cho, M. S. AU - Kim, S. H. AU - Lee, S. S. AU - Lee, B. H. PY - 2014 DA - 2014// TI - Flavihumibacter solisilvae sp. nov., isolated from forest soil JO - Int J Syst Evol Microbiol VL - 64 UR - https://doi.org/10.1099/ijs.0.063669-0 DO - 10.1099/ijs.0.063669-0 ID - Lee2014 ER - TY - JOUR AU - Martin, M. AU - Cibello, A. AU - Fernandez, J. AU - Ferrer, E. AU - Garrido-Pertierra, A. PY - 1991 DA - 1991// TI - Catabolism of 3- and 4-hydroxyphenylacetic acid by Kelbsiella pneumoniae JO - J Gen Microbiol VL - 137 UR - https://doi.org/10.1099/00221287-137-3-621 DO - 10.1099/00221287-137-3-621 ID - Martin1991 ER - TY - JOUR AU - Méndez, V. AU - Agulló, L. AU - González, M. AU - Seeger, M. PY - 2011 DA - 2011// TI - The homogentisate and homoprotocatechuate central pathways are involved in 3- and 4-hydroxyphenylacetate degradation by Burkholderia xenovorans LB400 JO - PLoS One VL - 6 UR - https://doi.org/10.1371/journal.pone.0017583 DO - 10.1371/journal.pone.0017583 ID - Méndez2011 ER - TY - JOUR AU - Koma, D. AU - Yamanaka, H. AU - Moriyoshi, K. AU - Ohmoto, T. AU - Sakai, K. PY - 2012 DA - 2012// TI - Production of aromatic compounds by metabolically engineered Escherichia coli with an expanded shikimate pathway JO - Appl Environ Microbiol VL - 78 UR - https://doi.org/10.1128/AEM.01148-12 DO - 10.1128/AEM.01148-12 ID - Koma2012 ER - TY - JOUR AU - Guo, J. AU - Carrington, Y. AU - Alber, A. AU - Ehlting, J. PY - 2014 DA - 2014// TI - Molecular characterization of quinate and shikimate metabolism in Populus trichocarpa JO - J Biol Chem VL - 289 UR - https://doi.org/10.1074/jbc.M114.558536 DO - 10.1074/jbc.M114.558536 ID - Guo2014 ER - TY - JOUR AU - Tamura, K. AU - Peterson, D. AU - Peterson, N. AU - Stecher, G. AU - Nei, M. AU - Kumar, S. PY - 2011 DA - 2011// TI - MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods JO - Mol Biol Evol VL - 28 UR - https://doi.org/10.1093/molbev/msr121 DO - 10.1093/molbev/msr121 ID - Tamura2011 ER - TY - JOUR AU - Kimura, M. PY - 1980 DA - 1980// TI - A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences JO - J Mol Evol VL - 16 UR - https://doi.org/10.1007/BF01731581 DO - 10.1007/BF01731581 ID - Kimura1980 ER - TY - JOUR AU - Bernardet, J. F. AU - Nakagawa, Y. AU - Holmes, B. PY - 2002 DA - 2002// TI - Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family JO - Int J Syst Evol Microbiol VL - 52 ID - Bernardet2002 ER - TY - JOUR AU - Bennett, S. PY - 2004 DA - 2004// TI - Solexa Ltd JO - Pharmacogenomics VL - 5 UR - https://doi.org/10.1517/14622416.5.4.433 DO - 10.1517/14622416.5.4.433 ID - Bennett2004 ER - TY - STD TI - Illumina official website. [www.illumina.com.cn] UR - http://www.illumina.com.cn ID - ref12 ER - TY - JOUR AU - Zerbino, D. R. AU - Birney, E. PY - 2008 DA - 2008// TI - Velvet: algorithms for de novo short read assembly using de Bruijn graphs JO - Genome Res VL - 18 UR - https://doi.org/10.1101/gr.074492.107 DO - 10.1101/gr.074492.107 ID - Zerbino2008 ER - TY - JOUR AU - Wu, S. AU - Zhu, Z. W. AU - Fu, L. AU - Niu, B. F. AU - Li, W. Z. PY - 2011 DA - 2011// TI - WebMGA: a customizable web server for fast metagenomic sequence analysis JO - BMC Genomics VL - 12 UR - https://doi.org/10.1186/1471-2164-12-444 DO - 10.1186/1471-2164-12-444 ID - Wu2011 ER - TY - STD TI - The Pfam protein families database. [http://pfam.xfam.org/search] UR - http://pfam.xfam.org/search ID - ref15 ER - TY - JOUR AU - Krogh, A. AU - Larsson, B. AU - Heijne, G. V. AU - Sonnhammer, E. L. L. PY - 2001 DA - 2001// TI - Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes JO - J Mol Biol VL - 305 UR - https://doi.org/10.1006/jmbi.2000.4315 DO - 10.1006/jmbi.2000.4315 ID - Krogh2001 ER - TY - JOUR AU - Petersen, T. N. AU - Brunak, S. AU - Heijine, G. V. AU - Nielsen, H. PY - 2011 DA - 2011// TI - SignalP 4.0: discriminating signal peptides from transmembrane regions JO - Nat Methods VL - 8 UR - https://doi.org/10.1038/nmeth.1701 DO - 10.1038/nmeth.1701 ID - Petersen2011 ER - TY - JOUR AU - Grissa, I. AU - Vergnaud, G. AU - Pourcel, C. PY - 2007 DA - 2007// TI - CRISPRFinder: a web tool to identify clustered regularly interspaced short palindromic repeats JO - Nucleic Acids Res VL - 35 UR - https://doi.org/10.1093/nar/gkm360 DO - 10.1093/nar/gkm360 ID - Grissa2007 ER - TY - JOUR AU - Kanehisa, M. AU - Goto, S. AU - Sato, Y. AU - Kawashima, M. AU - Furumichi, M. AU - Tanabe, M. PY - 2014 DA - 2014// TI - Data, information, knowledge and principle: back to metabolism in KEGG JO - Nucleic Acids Res VL - 42 UR - https://doi.org/10.1093/nar/gkt1076 DO - 10.1093/nar/gkt1076 ID - Kanehisa2014 ER - TY - JOUR AU - Justice, N. B. AU - Norman, A. AU - Brown, C. T. AU - Singh, A. AU - Thomas, B. C. AU - Banfield, J. F. PY - 2014 DA - 2014// TI - Comparison of environmental and isolate Sulfobacillus genomes reveals diverse carbon, sulfur, nitrogen, and hydrogen metabolisms JO - BMC Genomics VL - 15 UR - https://doi.org/10.1186/1471-2164-15-1107 DO - 10.1186/1471-2164-15-1107 ID - Justice2014 ER - TY - JOUR AU - Tweel, W. J. J. AU - Smits, J. P. AU - Bont, J. A. M. PY - 1988 DA - 1988// TI - Catabolism of dl-α-phenylhydracrylic, phenylacetic and 3- and 4-hydroxyphenylacetic acid via homogentisic acid in a Flavobacterium sp JO - Arch Microbiol VL - 149 UR - https://doi.org/10.1007/BF00422006 DO - 10.1007/BF00422006 ID - Tweel1988 ER - TY - JOUR AU - Field, D. AU - Garrity, G. AU - Gray, T. AU - Morrison, N. AU - Selengut, J. AU - Sterk, P. PY - 2008 DA - 2008// TI - The minimum information about a genome sequence (MIGS) specification JO - Nat Biotechnol VL - 26 UR - https://doi.org/10.1038/nbt1360 DO - 10.1038/nbt1360 ID - Field2008 ER - TY - JOUR AU - Woese, C. R. AU - Kandler, O. AU - Weelis, M. L. PY - 1990 DA - 1990// TI - Towards a natural system of organisms. Proposal for the domains Archaea, Bacteria and Eucarya JO - Proc Natl Acad Sci U S A VL - 87 UR - https://doi.org/10.1073/pnas.87.12.4576 DO - 10.1073/pnas.87.12.4576 ID - Woese1990 ER - TY - STD TI - Krieg NR, Ludwig W, Euzéby J, Whitman WB. Phylum XIV. Bacteroidetes phyl. nov. In: Krieg NR, Staley JT, Brown DR, Hedlund BP, Paster BJ, Ward NL, Ludwig W, Whitman WB (eds), Bergey's Manual of Systematic Bacteriology, Volume 4, 2nd ed. Springer, New York, 2011, p. 25. ID - ref24 ER - TY - STD TI - List Editor. Validation List No. 143. Int J Syst Evol Microbiol 2012; 62:1-4. doi:10.1099/ijs.0.039487-0 [PubMed]. ID - ref25 ER - TY - CHAP AU - Kämpfer, P. ED - Krieg, N. R. ED - Stately, J. T. ED - Brown, D. R. ED - Hedlund, B. P. ED - Paster, B. J. ED - Ward, N. L. ED - Ludwing, W. ED - Whitman, W. B. PY - 2011 DA - 2011// TI - Class III. Sphingobacteriia class. nov BT - Bergey’s Manual of Systematic Bacteriology, Volume 4 PB - Springer CY - New York ID - Kämpfer2011 ER - TY - STD TI - Kämpfer P. Order I. Sphingobacteriales ord. nov. In: Krieg NR, Staley JT, Brown DR, Hedlund BP, Paster BJ, Ward NL, Ludwig W, Whitman WB (eds), Bergey's Manual of Systematic Bacteriology, Volume 4, 2nd ed. New York: Springer; 2011. p. 330 ID - ref27 ER - TY - JOUR AU - Kämpfer, P. AU - Lodders, N. AU - Falsen, E. PY - 2011 DA - 2011// TI - Hydrotalea flava gen. nov., sp. nov., a new member of the phylum Bacteroidetes and allocation of the genera Chitinophaga, Sediminibacterium, Lacibacter, Flavihumibacter, Flavisolibacter, Niabella, Niastella, Segetibacter, Parasegetibacter, Terrimonas, Ferruginibacter, Filimonas and Hydrotalea to the family Chitinophagaceae fam. nov. JO - Int J Syst Evol Microbiol VL - 61 UR - https://doi.org/10.1099/ijs.0.023002-0 DO - 10.1099/ijs.0.023002-0 ID - Kämpfer2011 ER - TY - JOUR AU - Ashburner, M. AU - Ball, C. A. AU - Blake, J. A. AU - Botstein, D. AU - Butler, H. AU - Cherry, J. M. PY - 2000 DA - 2000// TI - Gene ontology: tool for the unification of biology. The Gene Ontology Con-sortium JO - Nat Genet VL - 25 UR - https://doi.org/10.1038/75556 DO - 10.1038/75556 ID - Ashburner2000 ER -