international online community for dna barcoding professionals
To provide up-to-date information on fungal barcoding and to facilitate communication and the development of collaboration.
Latest Activity: Mar 17
APRIL 6, 2014 PAPER SUBMITTED TO OXFORD JOURNAL, DATABASE
Finding needles in haystacks: linking scientific names, reference specimens and molecular data for Fungi.
DNA phylogenetic comparisons have shown that morphology-based species recognition often underestimates fungal diversity. Therefore, the need for accurate DNA sequence data, tied to both correct taxonomic names and clearly annotated specimen data has never been greater. Furthermore, the growing number of molecular ecology and microbiome projects employing high-throughput sequencing require fast and effective methods for en masse species assignments. In this paper we focus on selecting and re-annotating a set of marker reference sequences that represent each currently accepted order of Fungi. The particular focus is on sequences from the ITS region in the nuclear ribosomal cistron, derived from type specimens and/or ex-type cultures. Re-annotated and verified sequences were deposited in a curated, public database at the National Center for Biotechnology Information (NCBI), the RefSeq Targeted Loci (RTL) database, and will be visible during routine sequence similarity searches searches with NR prefixed accession numbers. A set of standards and protocols is proposed in order to improve the data quality of new sequences and we suggest how type and other reference sequences can be used to improve identification of Fungi.
Unique biorepository acronyms in the link below
2013: Links to recent useful ITS papers
ITS Barcode standards for acceptance by GenBank:
Fungal ITS Barcode Paper is available here:
Letters in reply to the paper:
Please feel free to continue the discussion in the forum
A new open access journal with John Spouge as editor
Talks for plenaries at the Adelaide Barcoding meeting posted here:
Literature group on Mendeley to add barcode papers: http://www.mendeley.com/groups/689651/fungal-barcoding/papers/
Guidelines for non-CO1 selection .pdf
IMC9 Handout on barcoding .pdf
Seifert et al. Barcoding talk at IMC9.ppt
LT-CBOL Memorandum of understanding - 7 July 2010 .pdf
Final material transfer agreement (MTA) with Lifetech .doc
Primers & Protocols
List of samples at LifeTech
Please comment so I can recommend a final set of ITS standards to GenBank for implementation of the BARCODE flag before the end of July.These are also available as an attached word file on the site.…Continue
Started by Conrad Schoch. Last reply by María P. Martín Jul 7, 2012.
Hi all,We need to get some thoughts on details of how we want to deal with ITS barcodes. I post a first draft of conditions we want to consider for submission, started by Keith Seifert below. Please…Continue
Started by Conrad Schoch. Last reply by Keith Seifert Feb 15, 2012.
Hi all,I will try to submit specific info on determining the amino acids for GenBank with Sequin here soon. Feel free to discuss this and ask questions. Firstly get the latest version of Sequin here:…Continue
Started by Conrad Schoch. Last reply by Conrad Schoch Oct 26, 2011.
Hi all I am about to go on an official barcoding trip in South Africa. Besides the small ascomycetes that is more my specialty, I will also collect some larger fungi. THis trip has a public profile,…Continue
Started by Marieka Gryzenhout. Last reply by Bevan Weir Oct 3, 2011.