International Fungal Multi Locus Database
This webpage has been developed as a response to the current limitations of the existing MLST database for C. neoformans at the Imperial College London (www.mlst.net) to enable the cryptococcal research community to apply MLST typing as standardized tool for genotyping and to obtain unique allele type (AT) and sequence type (ST) numbers.
Everybody is invited to participate in the ISHAM working group for Genotyping C. neoformans and C. gattii:
The MLST scheme, which consists of the following genetic loci: capsule polysaccharide (CAP59), glycerol 3-phosphate dehydrogenase, (GPD1), laccase (LAC1), phospholipase B1 (PLB1), superoxide dismutase (SOD1), orotidine monophosphate pyrophosphorylase (URA5) genes and the intergenic spacer (IGS1) region, is following the ISHAM consensus MLST scheme for the C. neoformans/ C. gattii species complex as published in:
Meyer W, Aanensen DM, Boekhout T, Cogliati M, Diaz MR, Esposto MC, Fisher M, Gilgado F, Hagen F, Kaocharoen S, Litvintseva AP, Mitchell TG, Simwami SP, Trilles L, Viviani MA, Kwon-Chung J (2009): Consensus multi-locus sequence typing scheme for Cryptococcus neoformans and Cryptococcus gattii. Journal of Medical Mycology 47(6): 561-570. (DOI:10.1080/13693780902953886).
The new database software, which was developed in collaboration with Dr. Vincent Robert (BioAware, Belgium), will assign the AT and ST automatically when a sequence is compared with the database, and will assign a progressive AT and ST type to the new sequences. If a new AT or ST is discovered the user is required to submit the trace files for the specific sequence for quality control and subsequently a set of basic strain information (strain number, date of isolation, place of isolation (City, Country), source (clinical, veterinary or environmental) depositor, additional comments) for the first strain of a new ST to the curators of the database. This process can be done using the online submission form or via e-mail to: Prof. Wieland Meyer [email@example.com]; Dr. Luciana Trilles [firstname.lastname@example.org] or Dr. Carolina Firacative [email@example.com].
All efforts are undertaken to keep the submitted data secure and prevent any unauthorized use of the submitted data before the individual studies have been published in a scientific journal. As a consequence of this security measure the database will only display AT and ST numbers without any associated strain information. The strain information will only be available after the data have been published and the curators of the database have received permission from the original submitted to make them publically available
Users are encouraged to submit their full dataset to the mlst.mycologylab.org, using the online submission form, to enable the build up of a comprehensive global genotype database of the C. neoformans/C. gattii species complex to enable the cryptococcal research community to monitor the spread of this emerging human fungal pathogen.
Prof. Wieland Meyer, Dr. Luciana Trilles, Dr. Felix Gilgado, Dr. Fabian Carriconde, Dr. Popchai Ngamskulrungroj, BSc. Carolina Firacative (Molecular Mycology Research Laboratory, Sydney Medical School - Westmead Hospital, University of Sydney, Sydney, Australia)
Dr. June Kwon-Chung, Dr. Popchai Ngamskulrungroj (Molecular Microbiology Section, Laboratory of Clinical Infectious Diseases, NIAID, NIH, Bethesda, MD, USA)
Dr. Massimo Cogliati (Laboratory Medical Mycology, Dip. Sanità Pubblica-Microbiologia-Virologia, Università degli Studi di Milano, Milano, Italy)
Dr. Françoise Dromer, Dr. Marie Desnos-Ollivier (The Molecular Mycology Unit, French National Reference Center for Mycoses & Antifungals, Institut Pasteur, Paris, France)
Prof. Kirsten Nielsen (Department of Microbiology, University of Minnesota, MN, USA)
A/Prof. Anastasia Litvintseva, Prof. Thomas G. Mitchell (Department of Molecular Genetics and Microbiology, Duke University Medical Center, Durham, NC, USA)
Dr. Popchai Ngamskulrungroj (Mahidol University, Bangkok, Thailand)
A/Prof. Ariya Chindamporn (Chulalongkorn University, Bangkok, Thailand)
Dr. Jane Sykes (University of California, Davis, CA, USA)
Dr. Shawn Lockhard (CDC, Atlanda, GA, USA)
Dr. Volker Rickerts (Robert Koch Institut, Berlin, Germany)
Dr. Yee-Chun (National Taiwan University Hospital, Taipei, Taiwan)
Patricia Escandón (Instituto Nacional de Salud, Bogota, Colombia)
Wieland Meyer Molecular Mycology Research Laboratory, Centre for Infectious Diseases and Microbiology, Sydney Medical School-Westmead Hospital, Marie Bashir Institute for Infectious Diseases and Biosecurity, University of Sydney, Westmead Millennium Institute, Sydney, Australia