Biological resource centers provide data and characterized living material for industrial biotechnology

Industrial Biotechnology

Volumn 9, Issue 3, 2013, Pages 117-122

  Mccluskey, Kevin ^a  

^a UNIVERSITY OF MISSOURI KANSAS CITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BIOLOGICAL RESOURCE CENTERS; BIOLOGICAL SAMPLES; CULTURE COLLECTION; FORMAL CONTEXTS; FUNGAL ISOLATES; INDUSTRIAL BIOTECHNOLOGY; RESEARCH AND DEVELOPMENT; WHOLE GENOME SEQUENCES;

BIOLOGY; VIRUSES;

BIOLOGICAL MATERIALS;

PROKARYOTA;

EID: 84878323745     PISSN: 15509087     EISSN: None     Source Type: Journal    
DOI: 10.1089/ind.2013.0007     Document Type: Review

References (47)

1. Janssens D, Arahal DR, Bizet C, Garay E. The role of public biological resource centers in providing a basic infrastructure for microbial research. Res Microbiol 1020;161:422-429.
2. Stern S. Biological Resource Centers: Knowledge Hubs for the Life Sciences. Washington, DC: Brookings Institution Press, 2004.
3. Stevenson RE. The American Type Culture Collection: Sixty Years of Quality. Microbiol Sci 1985;2:367-368.
4. Potera C. ATCC Aims to Be More Than a Biorepository. Genetic Eng Biotech News 2012;32:10-11.
5. Convention of Biodiversity. Secretariat of the Convention on Biological Diversity, Article 9: Ex situ conservation. Montreal, Canada, 1992.
6. Wald S (ed). Biological resource centres underpinning the future of life sciences and biotechnology. Organisation for Economic Cooperation and Development (OECD), 2001;68.
7. McCluskey K, Wiest AE. The Fungal Genetics Stock Center in the context of a world wide community of ex situ fungal germplasm repositories. Fungal Biol Rev 2011;25:143-150.
8. Baker DD. In: Kurtbo?ke DI, Swings J, eds. Microbial Genetic Resources and Biodiscovery. Nambour, Australia: WFCC, 2004:261-269.
9. Sigler L. Culture collections in Canada: Perspectives and problems. Can J Plant Pathol 2004;26:39-47.
10. Ma J, Sugawara H. Activities of World Federation for Culture Collections (WFCC) World Data Centre for Microorganisms (WDCM). Microbiol Cult Coll 2011;27:79-81.
11. Schardl CL, Leuchtmann A, Spiering MJ. Symbioses of grasses with seedborne fungal endophytes. Annu Rev Plant Biol 2004;55:315-340.
12. Stamets P. Growing gourmet and medicinal mushrooms. Berkeley, California: Ten Speed Press, 2000.
13. Simione FP, Cypess RH. Managing a Global Biological Resource ofCells and Cellular Derivatives. In: Wigglesworth M, Wood T (eds). Management of Chemical and Biological Samples for Screening Applications. Weinheim, Germany: Wiley-VCH Verlag GmbH & Co. KGaA, 2012: doi: 10.1002/ 9783527645251.ch9.
14. Budapest Treaty on the International Recognition of the Deposit of Microorganisms for the Purposes of Patent Procedure. April 28, 1977; amended September 26, 1980.
15. World Intellectual Policy Organization (WIPO): Microorganisms Deposits and Samples (2001-2011). Available at www.wipo.int/ipstats/en/statistics/micros/ (Last accessed February 2013).
16. Barratt RW. Stocks from the Tatum Neurospora collection. Fungal Genet Newsl 1986;33:49-58.
17. Turner BC, Perkins DD, Fairfield A. Neurospora from natural populations: A global study. Fungal Genet Biol 2001;32:67-92.
18. Jenkins S, Cypess RH. Economics endanger thousands of biologically valuable collections. Microbe 2007;2:427-430.
19. Smith DR, Ryan MJ, Buddie, A. Fungi as a source of natural products. In: Kurtbo?ke DI, Swings J, eds. Microbial Genetic Resources and Biodiscovery. Nambour, Australia: WFCC, 2004:108-132.
20. Vanee N, Fisher AB, Fong SS. Evolutionary engineering for industrial microbiology. In: Wang X, Chen J, Quinn P, eds. Reprogramming Microbial Metabolic Pathways. Heidelberg, Germany: Springer Press, 2012:43-71.
21. McCluskey K. From genetics to genomics: Fungal collections at the Fungal Genetics Stock Center. Mycology 2011;2:161-168.
22. Colot HV, Park G, Turner GE. A high-throughput gene knockout procedure for Neurospora reveals functions for multiple transcription factors. Proc Natl Acad Sci USA 2006;103:10352-10357.
23. Nobile CJ, Mitchell AP. Large-scale gene disruption using the UAU1 cassette. Methods Mol. Biol 2009;499:175-194.
24. Noble SM, French S, Kohn LA, et al. Systematic screens of a Candida albicans homozygous deletion library decouple morphogenetic switching and pathogenicity. Nat Genetics 2010;42:590-598.
25. Homann OR, Dea J, Noble SM, Johnson AD. A phenotypic profile of the Candida albicans regulatory network. PLOS Genet 2009;5:e1000783.
26. Liu O, Chun C, Chow E, et al. Systematic genetic analysis of virulence in the human fungal pathogen Cryptococcus neoformans. Cell 2008;135:174-188.
27. Bauer S, Vasu P, Persson S, et al. Development and application of a suite of polysaccharide-degrading enzymes for analyzing plant cell walls. Proc Natl Acad Sci 2006;103:11417-11422.
28. Park G, Colot HV, Collopy PD, et al. High-throughput production of gene replacement mutants in Neurospora crassa. Methods Mol Biol 2011;722:179-189.
29. Lapage S. World Federation for Culture Collections Xth International Congress for Microbiology Minutes of the Extraordinary Meeting of the Provisional Board Monday. Int J Syst Bacteriol 2972;22:404-405.
30. World Federation for Culture Collections Statutes. Int J Syst Bacteriol 2972;22:407-409.
31. Uhlir PF. Designing the Microbial Research Commons: Proceedings of an International Workshop. Washington, DC: The National Academies Press, 2011.
32. Verslyppe B, De Smet W, De Baets B, et al. Make Histri: Reconstructing the exchange history of bacterial and archaeal type strains. Syst Appl Microbiol 2011;34:328-336.
33. Martin, S.M., Skerman VBD. World Directory of Collections of Cultures of Microorganisms. New York, NY: Wiley Interscience, 1972.
34. Takishima Y, Shimuira T, Udagawa Y, Sugawara H. Guide to World Data Center on Microorganisms with a List of Culture Collections in the World. Saitama: World Data Center on Microorganisms, 1989.
35. Verslyppe B, Kottmann R, De Smet W, et al. Microbiological Common Language (MCL): A Standard for Electronic Information Exchange in the Microbial Commons. Res Microbiol 2010;161:439-445.
36. Verslyppe B, De Smet W, De Vos P, et al. Semantic integration of isolation habitat and location in StrainInfo. BMC Bioinformatics 2010;11:3.
37. McCluskey K, Wiest A, Grigoriev I, et al. Rediscovery by whole genome sequencing: Classical mutations and genome polymorphisms in Neurospora crassa. G3 2011;1:303-316.
38. Go?ker M, Auch AF, von Jan M, Klenk HP. Methods for the phylogenetic inference from whole genome sequences and their use in Prokaryote taxonomy. Ulmer Informatik-Berichte 2009;10.
39. Wu D, Hugenholtz P, Mavromatis K, et al. A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea. Nature 2009;462:1056-1060.
40. Klenk HP, Go? ker M. En route to a genome-based classification of Archaea and Bacteria? Syst Appl Microbiol 2010;33:175-182.
41. Tettelin H, Riley D, Cattuto C, Medini D. Comparative genomics: The bacterial pan-genome. Curr Opin Microbiol 2008;11:472-477.
42. Lapierre P, Gogarten JP. Estimating the size of the bacterial pan-genome. Trends Genet 2009;25:107-110.
43. Hall BG, Ehrlich GD, Hu FZ. Pan-genome analysis provides much higher strain typing resolution than multi-locus sequence typing. Microbiology 2010;156:1060-1068.
44. Reno ML, Held NL, Fields CJ, et al. Biogeography of the Sulfolobus islandicus pan-genome. Proc Natl Acad Sci USA 2009;106:8605-8610.
45. Dunn B, Richter C, Kvitek DJ, et al. Analysis of the Saccharomyces cerevisiae pan-genome reveals a pool of copy number variants distributed in diverse yeast strains from differing industrial environments. Gen Res 2012;22:908-924.
46. Hess WR. Cyanobacterial genomics for ecology and biotechnology. Curr Opin Microbiol 2011;14:608-614.
47. Welch EW, Shin E, Long J. Potential effects of the Nagoya Protocol on the exchange of non-plant genetic resources for scientific research: Actors, paths, and consequences. Ecol Econ 2013;86:136-147.