Publications

BOOK CHAPTERS

1. Cowan, DA, Ah Tow, L, Smith, JJ, Cary, C, Moodley, K. (2005) Microbial molecular ecology of Antarctic mineral soil biotopes. In Antarctica; Global Laboratory for Scientific and International Collaboration, A. Tan, Z Yasin, M Mansor, eds., Academy of Sciences Malaysia, Kuala Lumpur, pp. 113-118.

2. Sjöling, S. Stafford, W, Cowan, DA (2006) Soil metagenomics: Exploring and exploiting the soil microbial gene pool. Ch. 16 in Modern Soil Microbiology, 2nd Edn. van Elsas, JD, Jansson, J, Trevors, JT, Eds., CRC Press, Taylor & Francis, pp. 241 – 266.

3. Russell, NR and Cowan, DA. (2006) Methods for the handling of psychrophiles microorganisms. Ch. in Methods in Microbiology. Vol. 35, Oren, A, & Rainey, F, eds. 838pp. [ISBN 978-0-12-521537-4].

4. Cowan, DA, Casanueva, A, Stafford, W. (2007) Ecology and biodiversity of cold-adapted organisms. Ch. 9 in Physiology and Biochemistry of Extremophiles. Gerday, C., Glansdorff, N., eds. ASM Press, Washington DC, pp. 119-133.

5. Cowan, DA and Stafford, W. (2007) Metagenomic methods for determining active microorganisms and genes in bioremediation and biotransformation processes. Ch. 58 in ASM Manual of Environmental Microbiology, 3rd Edition. Editors: CJ Hurst, RL. Crawford, JL. Garland, DA Lipson, AL Mills, LD Stetzenbach. Eds., 1310 pp. ISBN: 978-1-55581-379-6

6. Daniel, R.M., Danson, M.J., Hough, D.W., Lee, C.K., Peterson, M.E. and Cowan, D.A. (2007) Enzyme stability and activity at high temperatures. Ch. 17 in Anatomy & Physiology of Extremophilic Proteins, Pub Nova Science, Eds. Thomas, T, Sidiqui, S. In Press

7. Sjoling, S, Cowan, DA. (2008) Metagenomics – microbial community genomes revealed. Ch. 20 in Psychrophiles: from Biodiversity to Biotechnology. Margesin, R.; Schinner, F.; Marx, J.-C.; Gerday, C. (Eds.) 462 pp. ISBN: 978-3-540-74334-7

8. Berjak, P, Cowan, DA, Cowling, R, Pammenter N, Scholes, R. (2009) Biological Sciences. Ch. 5 in Research in South Africa. TWAS Publication.

9. Kirby, BM, Vengadajellum, CJ, Burton, SG, Cowan, DA. (2010) Anthropogenically-created habitats – coal, coal mines and spoil heaps. In: Timmis, Kenneth N. (Ed.) Handbook of Hydrocarbon and Lipid Microbiology, Springer Heidelberg, Vol 3, pp. 2277-2292

10. Cowan, DA, Tuffin, IM, Robb, F. (2010) ‘‘Sequence First, Ask Questions Later’’: The Impact of Next Generation-Omics on the Discovery of Novel Microbial and Lipid Hydrocarbon Metabolism. In: Timmis, Kenneth N. (Ed.) Handbook of Hydrocarbon and Lipid Microbiology, Springer Heidelberg, Vol 4, pp. 3367-3374

11. Cowan, DA, Khan, N*, Heath, C, Mutondo, M. (2010) Microbiology of Antarctic terrestrial soils and rocks. Ch. 1 in Polar Microbiology: The Ecology, Biodiversity and Bioremediation Potential of Microorganisms in Extremely Cold Environments. Atlas, R, Aislabie, J, Bej, A, Eds. CRC Press, pp. 1-30

12. Bauer, R, Mutondo, M, Huddy, RJ, Tuffin, IM, Cowan, DA. (2011) Metagenomic gene discovery. Ch. 15 in Metagenomics and its Applications in Agriculture, Biomedicine and Environmental Studies. RW Li, Ed. Nova Science Publ. pp. 287-320.

13. Meiring, TL, Bauer, R, Scheepers, I, Ohloff, C, Tuffin, IM, Cowan, DA. (2011) Metagenomics and beyond: current approaches and integration with complementary technologies. Ch. 1 in Metagenomics: Current Innovations and Future Trends. Marco, D., Ed., Horizon Press, pp. 1 – 19.

14. Taylor, MP, Van Zyl, L, Tuffin, M, Cowan, DA. (2011) Extremophiles and biotechnology: How far have we come? Ch. 1. In Extremophiles: Microbiology and Biotechnology. Anitori, RP, ed. Caister Academic Press, Norwich, pp. 1-23

15. Grant, WD, Pagaling, E, Marquez, C, Gutierrez, C, Cowan, DA, Ma, Y, Jones, BE, Ventosa, A, Heaphy, S. (2011) The Hypersaline Lakes of Inner Mongolia. Ch. 4 in Halophiles and Hypersaline Environments, A. Ventosa et al. (eds.), Springer-Verlag Berlin, pp. 65-107.

16. Kirby, BM, Le Roes-Hill, M, Cary, SC, Burton, SG, Tuffin, IM, Cowan, DA. (2011) Actinobacterial diversity associated with Antarctic Dry Valley mineral soils. Ch. 13 in Handbook of Molecular Microbial Ecology II: Metagenomics in Different Habitats, Frans J. de Bruijn, Ed., John Wiley & Sons, New Jersey. ISBN 978-0-470-64719-6

18. Taylor, MT, Ramond, J-B, Tuffin, IM, Burton, SG, Eley, K, Cowan, DA. (2011) Mechanisms and Applications of Microbial Solvent Tolerance. Ch. 6 in Microbial stress tolerance for biofuels: systems biology. L. Liu, Ed., Springer, London. pp. 177-208

19. Kirby, BM, Barnard, D, Tuffin, IM, Cowan, DA. (2011) Ecological distribution of microorganisms in terrestrial, psychrophilic habitats. In: Extremophiles Handbook., Horikoshi, K.; Antranikian, G.; Bull, A.T.; Robb, F.T.; Stetter, K.O. (Eds.) pp. 839-859.

20. Kirby, BM, Easton, S, Tuffin, IM, Cowan, DA. (2012) Bacterial Diversity in Polar Habitats. Ch. in Polar Microbiology: Life in a deep freeze. Miller, RV, Whyte, LG., Eds. ASM Press. ISBN 978-1-55581-604-9. 312pp.

21. Cowan, D., Tuffin, M., Mulako, I., Cass, J. (2012) Life in Terrestrial Hydrothermal Environments. Ch. in Life in Extremes, Bell, E., Ed., CABI Press. 576 pp. ISBN 978 1 84593 814 7

22. Taylor, MP, Bauer, R, Mackay, S, Tuffin, IM, Cowan, DA. (2012) Extremophiles and their application to biofuel research. In: Sustainable Resources and Biotechnological Implications. OV Singh, Ed, Wiley. 

23. Smart M, Huddy RJ, Cowan DA, Trindade M. (2017) Liquid Phase Multiplex High-Throughput Screening of Metagenomic Libraries Using p-Nitrophenyl-Linked Substrates for Accessory Lignocellulosic Enzymes. In: Metagenomics: Methods and Protocols, Methods in Molecular Biology. Wolfgang R. Streit and Rolf Daniel (eds.), doi: 10.1007/978-1-4939-6691-2_13

24. Williams W, Trindade M. 2016. Metagenomics for the discovery of novel biosurfactants. In: Functional Metagenomics: Tools and Applications. T. Charles (Ed.). Springer. Accepted.

 

PAPERS

1. Meyer, QC, Burton, SB, Cowan, DA (2007) Subtractive hybridization magnetic bead capture: A new technique for the recovery of full length ORFs from the metagenome. Biotechnol. J. 2:36-40

2. Makhongela, HS, Glowacka, A, Agarkar, VB, Sewell, BT, Weber, B, Cameron, RA, Cowan, DA and Burton, SG. (2007) A novel thermostable nitrilase superfamily amidase from Geobacillus pallidus showing acyl transfer activity. Appl. Microbiol. Biotechnol. 75:801-811.

3. Márquez, C, Carrasco, IJ, Xue, Y, Ma, Y, Cowan, DA, Jones, BE, Grant WD, Ventosa, A. (2007) Aquisalimonas asiatica gen. nov., sp. nov., a moderately halophilic bacterium isolated from an alkaline, saline lake in Inner Mongolia, China. Int. J. System. Evol. Microbiol. 57:1137-1142.

4. Castillo, AM, Gutierrez, MC, Kamekura, K, Ma, Y, Cowan, DA, Jones, BE, Grant WD, Ventosa, A. (2007) Halovivax ruber sp. nov., a novel extremely halophilic archaeon isolated from Inner Mongolia, China. Int. J. System. Evol. Microbiol. 57:1024-1027.

5. Olaniran, AO, Stafford, WHL, Cowan, DA, Pillay, D, Pillay, B. (2007) Microbial community profiling in cis- and trans-dichloroethene enrichment systems using denaturing gradient gel electrophoresis. J. Microb. Biotechnol. 17:560-570.

6. Rashamuse, KJ, Burton, SG, Stafford, W, Cowan, DA. (2007) Molecular characterization of a novel family VIII esterase from Burkholdaria multivorans UWC10. J. Mol. Microbiol. Biotechnol. 13:181-188

7. Gutiérrez, MC, Castillo, AM, Kamekura, M, Xue, Y, Ma, Y, Cowan, DA, Jones, BE, Grant, WD, Ventosa, A. (2007) Halopiger xanaduensis gen. nov., sp. nov., an extremely halophilic archaeon isolated from a saline lake in Inner Mongolia, China. Int. J. System. Evol. Microbiol. 57:1402-1407.

8. Silva-Stenico, E, Vengadajellum, CJ, Janjua, HJ, Harrison, STL, Burton,SG, Cowan, DA. (2007) Degradation of low rank coal by Trichoderma atroviride ES11. J. Indust. Microbiol. Biotechnol. 34:625-631.

9. Pagaling, E., Haigh, R., Grant, WD, Cowan, DA, Jones, B., Ma, Y., Ventosa A., Shaun Heaphy. (2007) Sequence analysis of an archaeal virus isolated from a hypersaline lake in Inner Mongolia, China. BMC Genomics, 8:410-416

10. Carrasco, IJ, Márquez, MC, Xue, Y, Ma, Y, Cowan, DA, Jones, BE, Grant, WD, Ventosa, A. (2007) Bacillus chagannorensis sp. nov., a moderate halophile from a soda lake in Inner Mongolia, China. Int. J. System. Evol. Microbiol. 57:2084-2088.

11. Carrasco, IJ, Márquez, MC, Xue, Y, Ma, Y, Cowan, DA, Jones, BE, Grant, WD, Ventosa, A. (2007) Salsuginibacillus kocurii gen. nov., sp. nov., a moderately halophilic bacterium from soda lake sediment. Int. J. System. Evol. Microbiol. 57: 2381-2386.

12. Rashamuse, KJ, Burton, SG, Cowan, DA. (2007) A novel recombinant ethyl ferulate esterase from Burkholdaria multivorans. J Appl. Microbiol. 103:1610-1620.

13. Carrasco, IJ, Márquez, MC, Xue, Y, Ma, Y, Cowan, DA, Jones, BE, Grant, WD, Ventosa, A. (2007) Halorubrum ejinorense sp. nov., isolated from Lake Ejinor, Inner Mongolia, China. Int. J. System. Evol. Microbiol. 57:2538-2542.

14. Kimani, SW, Agarkar, VB, Cowan, DA, Sayed, MF-R, Sewell, BT. (2007) The crystal structure of an aliphatic amidase from Geobacillus pallidus RAPc8: evidence for a fourth nitrilase catalytic residue. Acta Cryst. D. 63:1048-1058.

15. Cowan, DA, Casanueva, A. (2007) Stability of ATP in Antarctic desert soils. Polar Biology, 30:1599-1603.

16. Porter, D., Roychoudhury, AN, Cowan, DA. (2007) Dissimilatory sulphate reduction in hypersaline coastal pans: Part 1. Activity across a salinity gradient. Geochim Cosmochim. Acta. 71:5102-5116

17. Wood SA, Rueckert A, Cowan DA, Cary SC. (2008) Aquatic cyanobacteria, important contributors to edaphic cyanobacterial diversity in the Dry Valleys of Eastern Antarctica? ISME J. 2:308-320

18. Oboirien, BO, Burton, SG, Cowan, DA, Harrison, STL. (2008) The effect of the particulate phase on coal biosolubilisation mediated by Trichoderma atroviride in a slurry bioreactor. Fuel Processing Technology. 89:123-130.

19. Babalola, OO, Kirby, BM, Le Roes-Hill, M, Cook, AE, Cary, SC, Burton, SG, Cowan, DA. (2009) Phylogenetic analysis of actinobacterial populations associated with Antarctic Dry Valley mineral soils. Envir. Microbiol. 11:566-576

20. le Roes-Hill, M, Rohland, J, Meyers, PR, Cowan, DA, Burton, SG. (2009) Streptomyces hypolithicus sp. nov., a novel streptomycete isolated from a hypolith community, Antarctica. Int. J. System. Evol. Microbiol. 59:2033-2036

21. Taylor, M, Eley, K, Martin, S, Tuffin, IM, Burton, SG, Cowan DA (2009) Thermophilic ethanologenesis. Future prospects for second generation ethanol production. Trends Biotechnol. 27:398-405

22. Ruiz Sebastián, C, Sink, KJ, McClanahan, TR, Cowan, DA (2009) Bleaching response of corals and their Symbiodinium communities in southern Africa. Marine Biology doi: 10.1007/s00227-009-1236-8

23. Heath, C, Hu*, XP, Cary, SC, Cowan, DA. (2009) Isolation and characterisation of a novel, low-temperature-active alkaliphilic esterase from an Antarctic desert soil metagenome. Appl. Environ. Microbiol. 75:4657-4659

24. Pagaling, E, Wang, H, Venables, M, Wallace, A, Grant, WD, Cowan, DA, Jones, BE, Ma, Y, Ventosa, A, Heaphy, S. (2009) Microbial biogeography of six salt lakes in Inner Mongolia and one salt lake in Argentina. Appl. Environ. Microbiol. 75:5750-5760

25. Tuffin, IM, Anderson*, D, Heath, C, Cowan, DA (2009) Metagenomic gene discovery: How far have we moved in sequence space? Biotechnol. J. 4:1671-1683.

26. Cowan, DA (2009) Cryptic microbial communities in Antarctic deserts. Proc. Natl. Acad. Sci, USA. 106:19749-19750

27. Cowan, DA, Tuffin, IM (2009) Capturing global metabolism. Nature Biotechnol. 27:1132-1133

28. Wong FK, Lau MC, Lacap DC, Aitchison JC, Cowan DA, Pointing SB (2009) Endolithic Microbial Colonization of Limestone in a High-altitude Arid Environment. Microb. Ecol. 59: 689-99. doi: 10.1007/s00248-009-9607-8

29. Cary, SC, McDonald, I, Barrett, JE and Cowan, DA. (2010) On the rocks: Microbial ecology of Antarctic cold desert soils. Nature Rev. Microbiol. 8:129-138.

30. Wong FK, Lau MC, Lacap DC, Aitchison JC, Cowan DA, Pointing SB (2010) Endolithic microbial colonization of limestone in a high-altitude arid environment. Microb. Ecol. 59:689-699

31. Wong, FKY, Lacap, DC, Lau, MCY, Aitchison, JC, Cowan, DA, Pointing, SB. (2010) Hypolithic microbial community of quartz pavement in the high-altitude tundra of central Tibet. Microb. Ecol. 60:730-739

32. Musingarimi, W., Tuffin, M., Cowan, D. (2010) Characterisation of the Arsenic Resistance Genes in Bacillus sp. UWC Isolated from Maturing Fly Ash-Acid Mine Drainage Neutralized Solids. S.A. J. Sci. 106:59-63.

33. Staniland, S., Coppock, M., Tuffin, M., van Zyl, L., Roychoudhury, A. N., Cowan, D. (2010) Cobalt uptake and resistance to trace metals in Comamonas testosteroni isolated from a heavy-metal contaminated site in the Zambian Copperbelt. Geomicrobiol. J. 27:656-662

34. Bauer, R, Cowan, DA, Crouch, A. (2010) Acrolein in wine: Importance of 3-hydroxypropionaldehyde and derivatives in production and detection. J. Agric. Food Chem. 58:3243-3250.

35. Barnard, D, Casanueva, A, Tuffin, IM, Cowan DA. (2010) Extremophiles in biofuels production. Environ. Technol. 31:871-888.

36. Cowan, DA, Khan, N, Pointing, S, Cary, SC. (2010) Diverse hypolithic refuge communities in Antarctic Dry Valleys, Antarct. Sci. 22:714-720

37. Casanueva, A., Tuffin, IM, Cary, SC and Cowan, DA. (2010) Molecular adaptations to psychrophily: The impact of ‘omic’ technologies. Trends Microbiol. 18:374-381.

38. Williamson, DS, Dent, KC, Weber, BW, Varsani, A, Frederick, J, Thuku, RN, Cameron, RA, van Heerden, JH, Cowan, DA, Sewell, BT. (2010) Structural and biochemical characterization of a nitrilase from the thermophilic bacterium, Geobacillus pallidus RAPc8. Appl. Microbiol. Biotechnol. 88:143-153.

39. Velankar H, Clarke KG, du Preez R, Cowan DA, Burton SG. (2010) Developments in nitrile and amide biotransformation processes. Trends Biotechnol. 28:561-569

40. Meiring, T, Mulako, I, Tuffin, MI, Meyer, Q, Cowan, DA. (2010) Retrieval of full-length functional genes using subtractive hybridization magnetic bead capture. Methods Mol. Biol. 668:287-297.

41. Olaofe, OA, Burton, SG, Cowan, DA, Harrison, STL (2010) Improving the production of a thermostable amidase through optimising IPTG induction in a highly dense culture of recombinant Escherichia coli. Biochem. Engineer. J. 52:19-24

42. Chiyanzu, I, Cowan, DA, Burton, SG (2010) Immobilization of a nitrile hydratase (NHase) from Geobacillus pallidus RAPc8 overcomes substrate inhibition and enhances stability. J. Mol. Catal. B, Enzymatic. 63:109-115.

43. Cowan DA, Pointing SB, Stevens MI, Cary SC, Stomeo F, Tuffin IM. (2011) Distribution and abiotic influences on hypolithic microbial communities in an Antarctic Dry Valley. Polar Biol. 34:307–311.

44. Taylor, MP, van Zyl, L, Tuffin, IM, Leak, DJ, Cowan, DA. (2011) Genetic tool development underpins recent advances in thermophilic whole-cell biocatalysts. Microb. Biotechnol. 4:438-448.

45. Welz, PJ, Ramond, J-B, Cowan, DA, Prins, A, Burton SG. (2011) Ethanol degradation and the benefits of incremental priming in pilot-scale constructed wetlands. Ecol. Engineer. 37:1453-1459.

46. Nel, AJM, Tuffin, IM, Sewell, BT, Cowan, DA. (2011) A unique aliphatic amidase from a psychrotrophic and haloalkaliphilic Nesterenkonia isolate. Appl. Environ. Microbiol. 77:3696-3702.

47. Rohr, LM, Mashaphu, N, Sheridan, C, Burton, SG, and Cowan, DA. (2011) Seasonal shifts of the microbial community structure in a winery waste-impacted wetland soil. Trans. Roy. Soc. S.A. 66:41-53.

48. Cowan, DA, Sohm, JA, Makhalanyane, T, Capone, DG, Green, TGA and Cary, SC. (2011) Hypolithic communities: important nitrogen sources in Antarctic desert soils. Envir. Microbiol. Rep. 3:581-586

49. Cowan, DA, Fernendez-Lafuente, R (2011) Enhancement of thermophilic enzymes by chemical modification and immobilization. A review. Enz. Microb. Technol. 49: 326-346

50. Cowan, DA, Chown, SL, Convey, P, Tuffin, IM, Hughes, K, Pointing, SB, Vincent, WF. (2011) Non-indigenous microorganisms in the Antarctic – assessing the risks. Trends Microbiol. 19:540-548

51. Ramond J-B, Welz P.J., Cowan D.A., Burton S.G. (2012) Microbial community structure stability, a key parameter in monitoring the development of constructed wetland mesocosms during start-up. Res. Microbiol. 163:28-35

52. Hu, XP, Heath, C, Taylor, MP, Tuffin, IM, Cowan, DA (2012). A novel, extremely alkaliphilic and cold active esterase from Antarctic desert soil. Extremophiles. 16: 79-86

53. Basson, CE, J.-H. Groenewald, J. Kossmann, C. Cronje, R. Bauer. (2011) Upregulation of pyrophosphate:D-fructose-6-phosphate 1-phosphotransferase activity in strawberry. Transgenic Research. 20:925-931.

54. Cronje, C, GM George, AR Fernie, J Kossmann, R Bauer. (2011) Manipulation of L-Ascorbic acid biosynthesis pathways in Solanum lycopersicum: Elevated GDP-mannose pyrophosphorylase activity enhances L-ascorbate levels in red fruit. PLANTA, doi: 10.1007/s00425-011-1525-6.

55. Tiao, G, Lee, CK, McDonald, IR, Cowan, DA, Cary, SC. (2012) Rapid microbial response to removal of the presence of an ancient relic in the Antarctic Dry Valleys. Nature Comms. 3: 360

56. Taylor, MP, Mulako, I, Tuffin, IM, Cowan, DA (2012). Understanding physiological responses to pre-treatment inhibitors in ethanologenic fermentations. Biotechnol. J. 7: 1169-81

57. George, GM, R Bauer, A Blennow, J Kossmann, JR Lloyd. (2012) Virus induced multiple gene silencing to study metabolic pathways. Biotechnol. J. doi: 10.1002/biot.201100469.

58. Sanyika, WT, Stafford, W, Tuffin, IM, Cowan, DA. (2012) Phylogenetic analysis of actinobacterial diversity associated with three Marion Island terrestrial habitats (Sub-Antarctica) and the culturability of actinomycetes from eleven habitats: a comparative study. Polar Biol. 35: 1129-1141

59. Szekera, K, Zhou, X, Schwab, T, Casanueva, A, Cowan, D, Mikhailopulo, IA, Neubauer, P. (2012) Comparative investigations on thermostable pyrimidine nucleoside phosphorylases from Geobacillus thermoglucosidasius and Thermus thermophilus. J. Mol. Cat. B: Enzymatic. 84:27-34

60. Stomeo, F, Makhalanyane, T, Valverde, A, Pointing, S, Stevens, M, Cary, SC, Tuffin, Cowan, DA (2012) Abiotic factors influence microbial diversity in permanently cold soil horizons of a maritime-associated Antarctic Dry Valley. FEMS Microb. Ecol. DOI 10.1111/j.1574-6941.2012.01360

61. Pagaling E, Grant WD, Cowan DA, Jones BE, Ma Y, Ventosa A, Heaphy, S. (2012) Bacterial and Archaeal diversity in two hot spring microbial mats from the geothermal region of Tengchong, China. Extremophiles. 16: 607-618

62. Chown,SL, Lee, JE, Hughes, KA, Barnes, J, Barrett, PJ, Bergstrom, DM, Convey, P, Cowan, DA, Crosbie, K, Dyer, G, Frenot,Y, Grant, SM, Herr, D, Kennicutt, MC, Lamers, M, Murray, A, Possingham, HP, Reid, K, Riddle, MJ, Ryan, PG, Sanson, L, Shaw, JD, Sparrow, MD, Summerhayes, C, Terauds, A, Wall, DH. (2012) Challenges to the Future Conservation of the Antarctic. Science. 337: 158-159.

63. Valverde, A, Tuffin, IM, Cowan, DA. (2012) Biogeography of bacterial communities in hot springs: a focus on the actinobacteria. Extremophiles. 16: 669-679

64. Welz, PJ, Ramond, J-B, Cowan, DA, Burton, SG (2012) Phenolic removal processes in biological sand filters, sand columns and microcosms. Biores. Technol. 119: 262-269.

65. Meiring, T, Tuffin, IM, Cowan, DA. (2012) Genome sequence of temperate bacteriophage Psymv2 from Antarctic Dry Valley soil isolate Psychrobacter sp. MV2. Extremophiles. 16: 715-726.

66. Loftie-Eaton, W, Taylor, M, Horne, K, Tuffin, IM, Burton, SG, Cowan, DA. (2012) Balancing redox cofactor generation and ATP synthesis: Key microaerobic responses in thermophilic fermentations. Biotechnol. Bioeng. 110:1057-65

67. Makhalanyane, TP, Valverde, A, Lacap, D, Pointing, SB, Tuffin, IM, Cowan, DA. (2012) Evidence of species recruitment and development of hot desert hypolithic communities. Environ. Microb. Rep. 5: 219-224

68. Chan, Y, Lacap, DC, Lau, MCY, Warren-Rhodes, KA, Cockell, CC, Cowan, DA, McKay, CP, Pointing, SB. 2012. Hypolithic microbial communities: Between a rock and a hard place. Environ. Microbiol. 14: 2272-2282.

69. di Prisco, G, Convey, P, Gutt, J, Cowan, DA, Conlan, K, Verde, C. 2012. Understanding and Protecting the World’s Biodiversity: the Role and Legacy of the SCAR Programme “Evolution and Biodiversity in the Antarctic”. Marine Genomics. 8:3-8

70. Stomeo, F., Valverde, A., Pointing, S., McKay, C., Warren-Rhodes, K., Tuffin, M., Seely, M., Cowan, D. 2013. Hypolithic and soil microbial community assembly along an aridity gradient in the Namib Desert. Extremophiles. 17: 329-337.

71. Gokul, J., Valverde, A., Tuffin, M., Cowan, D. 2013. Micro-eukaryotic diversity in hypolithons from Miers Valley, Antarctica. Biology. 2: 331-340. doi:10.3390/biology2010331.

72. Ramond, JB., Welz, P., Tuffin, M., Burton, S., Cowan, D. 2013. Assessment of temporal and spatial evolution of bacterial communities in a biological sand filter mesocosm treating winery wastewater. Journal of Applied Microbiology. 115:91-101

73. Ramond, J-B., Tshabuse, F., Bopda, C., Cowan, D., Tuffin, M. 2013. Evidence of variability in the structure and recruitment of rhizospheric and endophytic bacteria communities associated with arable sweet sorghum (Sorghum bicolor (L) Moench). Plant and Soil. DOI 10.1007/s11104-013-1737-6.

74. Ramond, JB., Welz, P., Tuffin, M., Burton, S., Cowan, D. 2013. Selection of diazotrophic bacterial communities in biological sand filter mesocosms used for the treatment of phenolic-laden wastewater. Microbial Ecology. DOI 10.1007/s00248-013-0258-4.

75. Makhalanyane, TP., Valverde, A., Birkeland, N-K., Cary, SC., Tuffin, IM., Cowan, DA. 2013. Evidence for successional development in Antarctic hypolithic bacterial communities. ISME J. 7: 2080–2090

76. Cowan, D., Rybicki, E., Tuffin, M., Valverde, A., Wingfield, M. 2013. Biodiversity: So Much More than Legs and Leaves. South African Journal of Science. DOI 10.1590/sajs.2013/a0037

77. Ramond, J-B., Welz, P., Le Roes-Hill, M., Tuffin, M., Burton, S., Cowan, D. 2014. Selection of Clostridium spp. in biological sand filters neutralizing synthetic acid mine drainage. FEMS Microbiol. Ecol. 87:678-90

78. van Zyl, LJ, Taylor, MP, Eley, K, Tuffin, M, Cowan, D. 2014. Engineering pyruvate decarboxylase-mediated ethanol production in the thermophilic host Geobacillus thermoglucosidasiusAppl. Micro. Biotechnol. 98:1247-1259

79. Aliyu, H., De Maayer, P., Rees, J., Tuffin, M., Cowan, DA.  2014. Draft Genome Sequence of the Antarctic Polyextremophile Nesterenkonia sp. Strain AN1. Genome Announce. DOI 10.1128/genomeA.00197-14

80. Adriaenssens, EM., van Zyl, L., De Maayer, P., Rubagotti, E., Rybicki, E., Tuffin, M., Cowan, DA. 2014. Metagenomic analysis of the viral community in Namib Desert hypoliths. Environ. Microbiol. DOI 10.1111/1462-2920.12528

81. Zablocki, O., van Zyl, L., Adriaenssens, EM., Rubagotti, E., Tuffin, M., Cary, Craig., Cowan, D. 2014. High diversity of tailed phages, eukaryotic viruses and virophage-like elements in the metaviromes of Antarctic soil. Appl. Environ. Microbiol. doi: 10.1128/AEM.01525-14

82. van Zyl, LJ., Schubert, W-D., Tuffin, IM., Cowan, D. 2014. Structure and Functional Characterization of Pyruvate decarboxylase from Gluconacetobacter diazotrophicus. BMC Struct. Biol. doi: 10.1186/s12900-014-0021-1

83. Zablocki, O., van Zyl, L., Adriaenssens, EM., Rubagotti, E., Tuffin, M., Craig, C., Cowan, D. 2014. Niche-dependent genetic diversity in Antarctic metaviromes. Bacteriophage. doi: 10.4161/21597081.2014.980125

84. Welz PJ, Palmer Z, Isaacs S, Kirby B, le Roes-Hill M. 2014. Analysis of substrate degradation, metabolite formation and microbial community responses in sand bioreactors treating winery wastewater: A comparative study. J. Environ. Man. 145:147-156

85. Ramond J-B, Makhalanyane TP, Tuffin MI, Cowan DA. 2014. Normalization of environmental metagenomic DNA enhances the discovery of under-represented microbial community members. Lett. Appl. Microbiol. DOI: 10.1111/lam.12380

86. Prins A, Kleinsmidt L, Khan N, Kirby B, Kudanga T, Vollmer J, Pleiss J, Burton S, le Roes-Hill M. 2015. The effect of mutations near the T1 copper site on the biochemical characteristics of the small laccase from Streptomyces coelicolor A3(2). Enzyme Microb. Technol. 68: 23–32

87. Olonade I, van Zyl LJ, Trindade MI. 2015. Draft genome sequence of marine isolates Thalassomonas viridans and Thalassomonas actiniarum. Genome A. doi: 10.1128/genomeA.00297-15

88. Maropola MKA, Ramond J-B, Trindade M. 2015. Impact of metagenomic DNA extraction procedures on the identifiable endophytic bacterial diversity in Sorghum bicolor (L. Moench). J. Microbiol. Met. 112:104-117

89. Ohlhoff CW, Kirby BM, van Zyl LJ, Mutepfa DLR, Casanueva A, Huddy RJ, Bauer R, Cowan DA, Tuffin M. 2015. An unusual feruloyl esterase belonging to family VIII esterases and displaying a broad substrate range. J. Mol. Cat. B: Enzymatic. 118: 79-88

90. van Zyl LJ, Sunda F, Taylor MP, Cowan DA, Trindade MI. 2015. Identification and characterization of a novel Geobacillus thermoglucosidasius bacteriophage, GVE3. Arch. Virol. doi:10.?1007/?s00705-015-2497-9

91. Ramond J-B., Lako J., Stafford W., Tuffin M., Cowan D. 2015. Evidence of novel plant-species specific ammonia oxidizing bacterial clades in acidic South African fynbos soils. Journal of Basic Microbiology. doi: 10.1002/jobm.201400933.

92. Anderson D, Ferreras E, Tuffin M, Cowan D. 2015. A novel bacterial Water Hypersensitivity-like protein shows in vivo protection against cold and freeze damage. FEMS Microbiol. Lett. doi: 10.1093/femsle/fnv110

93. Albakosh M, Naidoo R, Kirby B, Bauer R. 2015. Identification of epiphytic bacterial communities associated with brown alga Splachnidium rugosum. Journal of Applied Phycology. doi:10.1007/s10811-015-0725-z

94. Trindade M, van Zyl L, Navarro-Fernández J, Abd Elrazak A. 2015. Function-guided and targeted metagenomics as a tool to tap into marine natural product diversity for the discovery and production of drug candidates. Frontiers in Microbiology. 6:890. doi: 10.3389/fmicb.2015.00890

95. Missengue M, Musyoka N, Madzivire G, Babajide O, Fatoba O, Tuffin M, Petrik L. 2015. Leaching and antimicrobial properties of silver nanoparticles loaded onto natural zeolite clinoptilolite by ion exchange and wet impregnation. Journal of Environmental Science and Health, Part A. doi:10.1080/10934529.2015.1087731

96. van Zyl LJ, Taylor MP, Trindade M. 2015. Engineering resistance to phage GVE3 in Geobacillus thermoglucosidasius. Appl. Microbiol. Biotechnol. doi: 10.1007/s00253-015-7109-9

97. Le  Roes-Hill  M,  Palmer  Z*,  Rohland  J,  Kirby  B,  Burton  SG.  2015.  Partial purification  and characterisation  of  two  actinomycete  tyrosinases  and  their application  in  cross-linking reactions. J. Mol. Cat. B: Enzymatic 122:353-364

98.Fisher RG, Smith DM, Murrell B, Slabbbert R, Kirby BM, Edson C, Cotton MF, Haubrich RH, Pond  SLK,  Van  Zyl  G. 2015. MiSeq  and  Ion  PGM  sequencing  improves detection  of  drug resistance mutations in infants after HIV PMTCT failure.  J. Clin. Virol. 62: 48-53

99. Adriaenssens EM, van Zyl LJ, Cowan DA, Trindade M. 2016. Metaviromics of Namib Desert Salt Pans: A Novel Lineage of Haloarchaeal Salterproviruses and a Rich Source of ssDNA Viruses. Viruses. doi:10.3390/v8010014

100. van Zyl LJ, Matobole R, Biteghe FAN, Klein T, Kirby B, Trindade M. 2016. Draft Genome Sequences of Three Bacillus Species from South African Marine Sponges. Genome A. doi:10.1128/genomeA.00143-16

101. Wilcox DA, Cowan DA. 2016. Diversity of Frankia in root nodules of six Morella sp. from the Cape flora of South Africa. Plant Soil doi: 10.1007/s11104-016-2881-6

102. van Zyl LJ, Nemavhulani S, Cass J, Cowan DA, Trindade M. 2016. Three novel bacteriophages isolated from the East African Rift Valley soda lakes. Virol. J. doi:  10.1186/s12985-016-0656-6

103. Armstrong A, Valverde ARamond J-B, Makhalanyane TP, Jansson JK, Hopkins DW, Aspray TJ, Seely M, Trindade MI, Cowan DA. 2016. Temporal dynamics of hot desert microbial communities reveal structural and functional responses to water input.  Sci. Rep. 6: doi: 10.1038/srep34434

104. Missengue RNM, Musyoka NM, Madzivire G, Babajide O, Fatoba OO, Tuffin M, Petrik LF. 2016. Leaching and antimicrobial properties of silver nanoparticles loaded onto natural zeolite clinoptilolite by ion exchange and wet impregnation. J. Environ. Sci . Health. 0: 1-8 doi: 10.1080/10934529.2015.1087731

105. Zablocki O, Adriaenssens EM, Frossard A, Seely M, Ramond J-B, Cowan D. 2017. Metaviromes of extracellular soil viruses along a Namib Desert aridity gradient. Genome Announc 5:e01470-16 doi: 10.1128/ genomeA.01470-16

106. Hesse U, van Heusden P, Kirby BM, Olonade I, van Zyl LJ, Trindade M. 2017. Virome assembly and annotation: a surprise in the Namib Desert. Front. Microbiol. doi: 10.3389/fmicb.2017.00013

107. Matobole RM, Van Zyl LJ, Parker-Nance S, Davies-Coleman MT, Trindade M. 2017. Antibacterial activities of bacteria isolated from the marine sponges Isodictya compressa and Higginsia bidentifera collected from Algoa Bay, South Africa. Marine Drugs.  doi: 10.3390/md15020047

108. Mhlongo J, Beukes D, Trindade M. 2017. Endosymbiotic Bacteria Isolated from Algoa and Kalk Bay, South Africa, as Source of Antimicrobial Compounds. Ch 20 In Proceedings of The International Conference on Pure and Applied Chemistry 2016. Ramasami P et al (eds). Springer

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