Genome sequence of Streptomyces viridosporus strain T7A ATCC 39115, a lignin-degrading actinomycete

Genome Announcements

Volumn 1, Issue 4, 2013, Pages

  Davis, Jennifer R ^a   Goodwin, Lynne ^b   Teshima, Hazuki ^b   Detter, Chris ^b   Tapia, Roxanne ^b   Han, Cliff ^b   Huntemann, Marcel ^c   Wei, Chia Lin ^c   Han, James ^c   Chen, Amy ^c   Kyrpides, Nikos ^c   Mavrommatis, Kostas ^c   Szeto, Ernest ^c   Markowitz, Victor ^c   Ivanova, Natalia ^c   Mikhailova, Natalia ^c   Ovchinnikova, Galina ^c   Pagani, Ioanna ^c   Pati, Amrita ^c   Woyke, Tanja ^c   Pitluck, Sam ^c   Peters, Lin ^c   Nolan, Matt ^c   Land, Miriam ^d   Sello, Jason K ^e   more..

^a BROWN UNIVERSITY   (United States)

^b LOS ALAMOS NATIONAL LABORATORY   (United States)

^c DOE JOINT GENOME INSTITUTE   (United States)

^d OAK RIDGE NATIONAL LABORATORY   (United States)

^e BROWN UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 84997795108     PISSN: None     EISSN: 21698287     Source Type: Journal    
DOI: 10.1128/genomeA.00416-13     Document Type: Article

References (21)

1. Rubin EM. 2008. Genomics of cellulosic biofuels. Nature 454:841-845.
2. Bugg TD, Ahmad M, Hardiman EM, Singh R. 2011. The emerging role for bacteria in lignin degradation and bio-product formation. Curr. Opin. Biotechnol. 22:394-400.
3. Pometto AL, Crawford DL. 1986. Catabolic fate of Streptomyces viridosporus T7A-Produced, acid-precipitable polymeric lignin upon incubation with ligninolytic Streptomyces species and Phanerochaete chrysosporium. Appl. Environ. Microbiol. 51:171-179.
4. Borgmeyer JR, Crawford DL. 1985. Production and characterization of polymeric lignin degradation intermediates from two different Streptomyces spp. Appl. Environ. Microbiol. 49:273-278.
5. Antai SP, Crawford DL. 1981. Degradation of softwood, hardwood, and grass lignocelluloses by two Streptomyces strains. Appl. Environ. Microbiol. 42:378-380.
6. Davis JR, Sello JK. 2010. Regulation of genes in Streptomyces bacteria required for catabolism of lignin-derived aromatic compounds. Appl. Microbiol. Biotechnol. 86:921-929.
7. Crawford DL, Pometto AL, Crawford RL. 1983. Lignin degradation by Streptomyces viridosporus: isolation and characterization of a new polymeric lignin degradation intermediate. Appl. Environ. Microbiol. 45: 898-904.
8. Gottschalk LM, Bon EP, Nobrega R. 2008. Lignin peroxidase from Streptomyces viridosporus T7A: enzyme concentration using ultrafiltration. Appl. Biochem. Biotechnol. 147:23-32.
9. Nascimento HJ, Silva JG, Jr. 2008. Purification of lignin peroxidase isoforms from Streptomyces viridosporus T7A by hydrophobic based chromatographies. World J. Microbiol. Biotechnol. 24:1973-1975.
10. Le Roes-Hill M, Khan N, Burton SG. 2011. Actinobacterial peroxidases: an unexplored resource for biocatalysis. Appl. Biochem. Biotechnol. 164: 681-713.
11. Ramachandra M, Crawford DL, Hertel G. 1988. Characterization of an extracellular lignin peroxidase of the lignocellulolytic actinomycete Streptomyces viridosporus. Appl. Environ. Microbiol. 54:3057-3063.
12. Thomas L, Crawford DL. 1998. Cloning of clustered Streptomyces viridosporus T7A lignocellulose catabolism genes encoding peroxidase and endoglucanase and their extracellular expression in Pichia pastoris. Can. J. Microbiol. 44:364-372.
13. Bennett S. 2004. Solexa Ltd. Pharmacogenomics 5:433-438.
14. Margulies M, Egholm M, Altman WE, Attiya S, Bader JS, Bemben LA, Berka J, Braverman MS, Chen YJ, Chen Z, Dewell SB, Du L, Fierro JM, Gomes XV, Godwin BC, He W, Helgesen S, Ho CH, Ho CH, Irzyk GP, Jando SC, Alenquer ML, Jarvie TP, Jirage KB, Kim JB, Knight JR, Lanza JR, Leamon JH, Lefkowitz SM, Lei M, Li J, Lohman KL, Lu H, Makhijani VB, McDade KE, McKenna MP, Myers EW, Nickerson E, Nobile JR, Plant R, Puc BP, Ronan MT, Roth GT, Sarkis GJ, Simons JF, Simpson JW, Srinivasan M, Tartaro KR, Tomasz A, Vogt KA, Volkmer GA, Wang SH, Wang Y, Weiner MP, Yu P, Begley RF, Rothberg JM. 2005. Genome sequencing in microfabricated high-density picolitre reactors. Nature 437:376-380.
15. Zerbino DR, Birney E. 2008. Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res. 18:821-829.
16. Han C, Chain P. 2006. Finishing repeat regions automatically with Dupfinisher, p 141-146. In Arabnia HR, Valafar H (ed), Proceedings of the 2006 International Conference on Bioinformatics and Computational Biology, Jun 26-29. CSREA Press, Las Vegas, NV.
17. Ewing B, Hillier L, Wendl MC, Green P. 1998. Base-calling of automated sequencer traces using Phred. I. Accuracy. assessment. Genome Res. 8:175-185.
18. Ewing B, Green P. 1998. Base-calling of automated sequencer traces using Phred. II. Error probabilities. Genome Res. 8:186-194.
19. Gordon D, Abajian C, Green P. 1998. Consed: a graphical tool for sequence finishing. Genome Res. 8:195-202.
20. Hyatt D, Chen GL, Locascio PF, Land ML, Larimer FW, Hauser LJ. 2010. Prodigal: prokaryotic gene recognition and translation initiation site identification. BMC Bioinformatics 11:119.
21. Pati A, Ivanova NN, Mikhailova N, Ovchinnikova G, Hooper SD, Lykidis A, Kyrpides NC. 2010. GenePRIMP: a gene prediction improvement pipeline for prokaryotic genomes. Nat. Methods 7:455-457.