Cell fusion and hybrids in Archaea: Prospects for genome shuffling and accelerated strain development for biotechnology

Bioengineered

Volumn 4, Issue 3, 2013, Pages

  Naor, Adit ^a   Gophna, Uri ^a  

^a TEL AVIV UNIVERSITY   (Israel)

Author keywords

Archaea; Cell fusion; Haloferax mediterranei; Haloferax volcanii; Sulfolobus

Indexed keywords

RIBOSOME RNA;

ARCHAEON; ARTICLE; CELL FUSION; DNA DAMAGE; DNA TRANSFER; ENZYME ENGINEERING; GENE TRANSFER; GENETIC RECOMBINATION; HALOFERAX MEDITERRANEI; HALOFERAX VOLCANII; HORIZONTAL GENE TRANSFER; HYBRID; MATING; NONHUMAN; SULFOLOBALES; ULTRAVIOLET IRRADIATION; ARCHAEAL GENOME; BIOTECHNOLOGY; CYTOLOGY; DNA SHUFFLING; GENETICS;

ARCHAEA; BIOTECHNOLOGY; CELL FUSION; DNA SHUFFLING; GENE TRANSFER, HORIZONTAL; GENOME, ARCHAEAL;

EID: 84877699917     PISSN: 19491018     EISSN: 19491026     Source Type: Journal    
DOI: 10.4161/bioe.22649     Document Type: Article

References (39)

1. Boucher Y, Huber H, L'Haridon S, Stetter KO, Doolittle WF. Bacterial origin for the isoprenoid biosynthesis enzyme HMG-CoA reductase of the archaeal orders Thermoplasmatales and Archaeoglobales. Mol Biol Evol 2001; 18:1378-88; PMID:11420376; http://dx.doi.org/10.1093/oxfordjournals. molbev.a003922.
2. Bolhuis H, Severin I, Confurius-Guns V, Wollenzien UI, Stal LJ. Horizontal transfer of the nitrogen fixation gene cluster in the cyanobacterium Microcoleus chthonoplastes. ISME J 2010; 4:121-30; PMID:19741736; http://dx.doi.org/10.1038/ ismej.2009.99.
3. Gophna U, Bapteste E, Doolittle WF, Biran D, Ron EZ. Evolutionary plasticity of methionine biosynthesis. Gene 2005; 355:48-57; PMID:16046084; http:// dx.doi.org/10.1016/j.gene.2005.05.028.
4. Gophna U, Thompson JR, Boucher Y, Doolittle WF. Complex histories of genes encoding 3-hydroxy-3-methylglutaryl-CoenzymeA reductase. Mol Biol Evol 2006; 23:168-78; PMID:16162862; http:// dx.doi.org/10.1093/molbev/msj019.
5. Hacker J, Carniel E. Ecological fitness, genomic islands and bacterial pathogenicity. A Darwinian view of the evolution of microbes. EMBO Rep 2001; 2:376-81; PMID:11375927.
6. Hacker J, Kaper JB. Pathogenicity islands and the evolution of microbes. Annu Rev Microbiol 2000; 54:641-79; PMID:11018140; http://dx.doi. org/10.1146/annurev.micro.54.1.641.
7. Gophna U, Ron EZ, Graur D. Bacterial type III secretion systems are ancient and evolved by multiple horizontal-transfer events. Gene 2003; 312:151-63; PMID:12909351; http://dx.doi.org/10.1016/S0378-1119(03)00612-7.
8. Schleper C, Holz I, Janekovic D, Murphy J, Zillig W. A multicopy plasmid of the extremely thermophilic archaeon Sulfolobus effects its transfer to recipients by mating. J Bacteriol 1995; 177:4417-26; PMID:7635827.
9. Rosenshine I, Tchelet R, Mevarech M. The mechanism of DNA transfer in the mating system of an archaebacterium. Science 1989; 245:1387-9; PMID:2818746; http://dx.doi.org/10.1126/science. 2818746.
10. Naor A, Lapierre P, Mevarech M, Papke RT, Gophna U. Low species barriers in halophilic archaea and the formation of recombinant hybrids. Curr Biol 2012; 22:1444-8; PMID:22748314; http://dx.doi. org/10.1016/j.cub.2012.05.056.
11. Bertani G. Transduction-like gene transfer in the methanogen Methanococcus voltae. J Bacteriol 1999; 181:2992-3002; PMID:10321998.
12. Meile L, Abendschein P, Leisinger T. Transduction in the archaebacterium Methanobacterium thermoautotrophicum Marburg. J Bacteriol 1990; 172:3507-8; PMID:2345156.
13. Mevarech M, Werczberger R. Genetic transfer in Halobacterium volcanii. J Bacteriol 1985; 162:461-2; PMID:3980444.
14. Allers T, Mevarech M. Archaeal genetics-the third way. Nat Rev Genet 2005; 6:58-73; PMID:15630422; http://dx.doi.org/10.1038/nrg1504.
15. Allers T, Ngo HP, Mevarech M, Lloyd RG. Development of additional selectable markers for the halophilic archaeon Haloferax volcanii based on the leuB and trpA genes. Appl Environ Microbiol 2004; 70:943-53; PMID:14766575; http://dx.doi. org/10.1128/AEM.70.2.943-953.2004.
16. Breuert S, Allers T, Spohn G, Soppa J. Regulated polyploidy in halophilic archaea. PLoS One 2006; 1:e92; PMID:17183724; http://dx.doi.org/10.1371/ journal.pone.0000092.
17. Torreblanca M, Rodriguezvalera F, Juez G, Ventosa A, Kamekura M, Kates M. Classification of Non-Alkaliphilic Halobacteria Based on Numerical Taxonomy and Polar Lipid-Composition, and Description of Haloarcula Gen-Nov and Haloferax Gen-Nov. Syst Appl Microbiol 1986; 8:89-99; http:// dx.doi.org/10.1016/S0723-2020(86)80155-2.
18. Han J, Zhang F, Hou J, Liu X, Li M, Liu H, et al. Complete genome sequence of the metabolically versatile halophilic archaeon Haloferax mediterranei, a poly(3-hydroxybutyrate-co-3-hydroxyvalerate) producer. J Bacteriol 2012; 194:4463-4; PMID:22843593; http://dx.doi.org/10.1128/ JB.00880-12.
19. Tchelet R, Mevarech M. Interspecies Genetic Transfer in Halophilic Archaebacteria. Syst Appl Microbiol 1994; 16:578-81; http://dx.doi.org/10.1016/S0723-2020(11)80328-0.
20. Stedman KM, She Q, Phan H, Holz I, Singh H, Prangishvili D, et al. pING family of conjugative plasmids from the extremely thermophilic archaeon Sulfolobus islandicus: insights into recombination and conjugation in Crenarchaeota. J Bacteriol 2000; 182:7014-20; PMID:11092863; http://dx.doi. org/10.1128/JB.182.24.7014-7020.2000.
21. Prangishvili D, Albers SV, Holz I, Arnold HP, Stedman K, Klein T, et al. Conjugation in archaea: frequent occurrence of conjugative plasmids in Sulfolobus. Plasmid 1998; 40:190-202; PMID:9806856; http:// dx.doi.org/10.1006/plas.1998.1363.
22. She Q, Phan H, Garrett RA, Albers SV, Stedman KM, Zillig W. Genetic profile of pNOB8 from Sulfolobus: the first conjugative plasmid from an archaeon. Extremophiles 1998; 2:417-25; PMID:9827331; http://dx.doi.org/10.1007/s007920050087.
23. Grogan DW. Exchange of genetic markers at extremely high temperatures in the archaeon Sulfolobus acidocaldarius. J Bacteriol 1996; 178:3207-11; PMID:8655500.
24. Ajon M, Fröls S, van Wolferen M, Stoecker K, Teichmann D, Driessen AJ, et al. UV-inducible DNA exchange in hyperthermophilic archaea mediated by type IV pili. Mol Microbiol 2011; 82:807-17; PMID:21999488; http://dx.doi.org/10.1111/j.1365-2958.2011.07861.x.
25. Schmidt KJ, Beck KE, Grogan DW. UV stimulation of chromosomal marker exchange in Sulfolobus acidocaldarius: implications for DNA repair, conjugation and homologous recombination at extremely high temperatures. Genetics 1999; 152:1407-15; PMID:10430571.
26. Allers T. Swapping genes to survive-a new role for archaeal type IV pili. Mol Microbiol 2011; 82:789-91; PMID:21992544; http://dx.doi.org/10.1111/ j.1365-2958.2011.07860.x.
27. de Carvalho CC. Enzymatic and whole cell catalysis: finding new strategies for old processes. Biotechnol Adv 2011; 29:75-83; PMID:20837129; http:// dx.doi.org/10.1016/j.biotechadv.2010.09.001.
28. Sellek GA, Chaudhuri JB. Biocatalysis in organic media using enzymes from extremophiles. Enzyme Microb Technol 1999; 25:471-82; http://dx.doi. org/10.1016/S0141-0229(99)00075-7.
29. Demirjian DC, Morís-Varas F, Cassidy CS. Enzymes from extremophiles. Curr Opin Chem Biol 2001; 5:144-51; PMID:11282340; http://dx.doi. org/10.1016/S1367-5931(00)00183-6.
30. Litchfield CD. Potential for industrial products from the halophilic Archaea. J Ind Microbiol Biotechnol 2011; 38:1635-47; PMID:21853327; http://dx.doi. org/10.1007/s10295-011-1021-9.
31. Fernandez-Castillo R, Rodriguez-Valera F, Gonzalez-Ramos J, Ruiz-Berraquero F. Accumulation of Poly (beta-Hydroxybutyrate) by Halobacteria. Appl Environ Microbiol 1986; 51:214-6; PMID:16346972.
32. Hezayen FF, Rehm BH, Eberhardt R, Steinbüchel A. Polymer production by two newly isolated extremely halophilic archaea: application of a novel corrosion-resistant bioreactor. Appl Microbiol Biotechnol 2000; 54:319-25; PMID:11030566; http://dx.doi. org/10.1007/s002530000394.
33. Zhao D, Cai L, Wu J, Li M, Liu H, Han J, et al. Improving polyhydroxyalkanoate production by knocking out the genes involved in exopolysaccharide biosynthesis in Haloferax mediterranei. Appl Microbiol Biotechnol 2012; PMID:23015099; http://dx.doi.org/10.1007/s00253-012-4415-3.
34. Koller M, Hesse P, Bona R, Kutschera C, Atlić A, Braunegg G. Potential of various archae-and eubacterial strains as industrial polyhydroxyalkanoate producers from whey. Macromol Biosci 2007; 7:218-26; PMID:17295410; http://dx.doi.org/10.1002/ mabi.200600211.
35. Pérez-Pomares F, Bautista V, Ferrer J, Pire C, Marhuenda-Egea FC, Bonete MJ. Alpha-amylase activity from the halophilic archaeon Haloferax mediterranei. Extremophiles 2003; 7:299-306; PMID:12910390; http://dx.doi.org/10.1007/ s00792-003-0327-6.
36. Unsworth LD, van der Oost J, Koutsopoulos S. Hyperthermophilic enzymes--stability, activity and implementation strategies for high temperature applications. FEBS J 2007; 274:4044-56; PMID:17683334; http://dx.doi.org/10.1111/j.1742-4658.2007.05954.x.
37. Cacciapuoti G, Porcelli M, Bertoldo C, De Rosa M, Zappia V. Purification and characterization of extremely thermophilic and thermostable 5'-methylthioadenosine phosphorylase from the archaeon Sulfolobus solfataricus. Purine nucleoside phosphorylase activity and evidence for intersubunit disulfide bonds. J Biol Chem 1994; 269:24762-9; PMID:7929153.
38. Buchanan CL, Connaris H, Danson MJ, Reeve CD, Hough DW. An extremely thermostable aldolase from Sulfolobus solfataricus with specificity for non-phosphorylated substrates. Biochem J 1999; 343:563-70; PMID:10527934; http://dx.doi. org/10.1042/0264-6021:3430563.
39. Bauer MW, Driskill LE, Kelly RM. Glycosyl hydrolases from hyperthermophilic microorganisms. Curr Opin Biotechnol 1998; 9:141-5; PMID:9588002; http://dx.doi.org/10.1016/S0958-1669(98)80106-7.