A markerless gene deletion and integration system for Thermoanaerobacter ethanolicus

Biotechnology for Biofuels

Volumn 9, Issue 1, 2016, Pages

  Shao, Xiongjun ^a,b   Zhou, Jilai ^a,b   Olson, Daniel G ^a,b   Lynd, Lee R ^a,b  

^a DARTMOUTH COLLEGE   (United States)

^b OAK RIDGE NATIONAL LABORATORY   (United States)

Author keywords

Clean knockout; FUDR; Gene deletion; Gene integration; Marker removal; Natural competence; tdk; Thermoanaerobacter ethanolicus

Indexed keywords

BIOETHANOL; INTEGRATION; LACTIC ACID; POLYMERASE CHAIN REACTION;

BIOCONVERSION PROCESS; FUDR; GENE DELETION; GENETIC MODIFICATIONS; LACTATE DEHYDROGENASE; LACTIC ACID PRODUCTION; NATURAL COMPETENCE; THERMOANAEROBACTER;

GENES;

BACTERIUM; DNA; ENZYME; GENE;

THERMOANAEROBACTER ETHANOLICUS;

EID: 84969504536     PISSN: 17546834     EISSN: None     Source Type: Journal    
DOI: 10.1186/s13068-016-0514-1     Document Type: Article

References (21)

1. Lynd LR, Wyman CE, Gerngross TU. Biocommodity Engineering. Biotechnol Prog. 1999;15:777-93.
2. Lynd LR, Jin H, Michaels JD, Wyman CE, Dale B. Bioenergy: background, potential, and policy. Washington: Center for Strategic and International Studies; 2003.
3. Wiegel J, Ljungdahl L. Thermoanaerobacter ethanolicus gen. nov., spec. nov., a new, extreme thermophilic, anaerobic bacterium. Arch Microbiol. 1981;128:343-8.
4. Hild HM, Stuckey DC, Leak DJ. Effect of nutrient limitation on product formation during continuous fermentation of xylose with Thermoanaerobacter ethanolicus JW200 Fe(7). Appl Microbiol Biotechnol. 2003;60:679-86.
5. Lynd LR, Weimer PJ, van Zyl WH, Pretorius IS. Microbial cellulose utilization: fundamentals and biotechnology. Microbiol Mol Biol Rev. 2002;66:506-677.
6. Lynd LR, van Zyl WH, McBride JE, Laser M. Consolidated bioprocessing of cellulosic biomass: an update. Curr Opin Biotechnol. 2005;16:577-83.
7. Taylor MP, Eley KL, Martin S, Tuffin MI, Burton SG, Cowan DA. Thermophilic ethanologenesis: future prospects for second-generation bioethanol production. Trends Biotechnol. 2009;27:398-405.
8. Peng H, Fu B, Mao Z, Shao W. Electrotransformation of Thermoanaerobacter ethanolicus JW200. Biotechnol Lett. 2006;28:1913-7.
9. Shaw AJ, Hogsett DA, Lynd LR. Natural competence in Thermoanaerobacter and Thermoanaerobacterium species. Appl Environ Microbiol. 2010;76:4713-9.
10. Shaw AJ, Covalla SF, Hogsett DA, Herring CD. Marker removal system for Thermoanaerobacterium saccharolyticum and development of a markerless ethanologen. Appl Environ Microbiol. 2011;77:2534-6.
11. Argyros D, Tripathi S, Barrett T, Rogers S, Feinberg L, Olson D, Foden J, Miller B, Lynd L, Hogsett D, Caiazza N. High ethanol titers from cellulose by using metabolically engineered thermophilic, anaerobic microbes. Appl Environ Microbiol. 2011;77:8288-94.
12. Pritchett M, Zhang J, Metcalf W. Development of a markerless genetic exchange method for Methanosarcina acetivorans C2A and its use in construction of new genetic tools for methanogenic archaea. Appl Environ Microbiol. 2004;70:1425-33.
13. Sivakumar S, Porter-Goff M, Patel PK, Benoit K, Rhind N. In vivo labeling of fission yeast DNA with thymidine and thymidine analogs. Methods. 2004;33:213-9.
14. Nucleotide metabolism [http://themedicalbiochemistrypage.org/nucleotide-metabolism.php].
15. Czakó M, Márton L. The herpes simplex virus thymidine kinase gene as a conditional negative-selection marker gene in Arabidopsis thaliana. Plant Physiol. 1994;104:1067-71.
16. Gardiner D, Howlett B. Negative selection using thymidine kinase increases the efficiency of recovery of transformants with targeted genes in the filamentous fungus Leptosphaeria maculans. Curr Genet. 2004;45:249-55.
17. Khang C, Park S, Lee Y, Kang S. A dual selection based, targeted gene replacement tool for Magnaporthe grisea and Fusarium oxysporum. Fungal Genet Biol. 2005;42:483-92.
18. Hashimoto Y, Yano T, Kuramitsu S, Kagamiyama H. Disruption of Thermus thermophilus genes by homologous recombination using a thermostable kanamycin-resistant marker. FEBS Lett. 2001;506:231-4.
19. Olson DG, Lynd LR. Transformation of Clostridium thermocellum by electroporation. In: Gilbert HJ, editor. Methods in enzymology, vol. 510. Amsterdam: Elsevier Inc; 2012. p. 317-30.
20. Zhou J, Olson DG, Lanahan AA, Tian L, Murphy SJL, Lo J. Physiological roles of pyruvate ferredoxin oxidoreductase and pyruvate formate-lyase in Thermoanaerobacterium saccharolyticum JW/SL-YS485. Biotechnol Biofuels. 2015;8:138.
21. Hoseki J, Yano T, Koyama Y, Kuramitsu S, Kagamiyama H. Directed evolution of thermostable kanamycin-resistance gene: a convenient selection marker for Thermus thermophilus. J Biochem. 1999;126:951-6.