The basics of using and interpreting molecular data for fungal systematics
– from sequence comparisons to phylogenetic trees: a training workshop for the amateur mycologist.
6th July -8th July 2018
Tutors Tuula Niskanen & Kare Liimatainen
Increasingly the amateur mycologist is having to work with DNA if their taxonomic work and publications are to be taken seriously or be published in recognised journals. To date most individuals in UK have relied on the good will of academics to have the processing and interpretation of Data done. This training workshop is specifically geared to developing those missing skills to enable the amateur to familiarise themselves with the tools needed for this work.
The workshop will be run as a small group of 10 with two tutors using individuals laptops and accessible programmes, and will cover:
- Basic use of blast search (https://blast.ncbi.nlm.nih.gov/Blast.cgi - available to be used online)
- How to use UNITE database (https://unite.ut.ee/, available to be used online)
- Comparing similar sequences (MUSCLE, https://www.ebi.ac.uk/Tools/msa/muscle/ available to be used online)
- Aligning sequences (MAFFT, https://mafft.cbrc.jp/alignment/server/ available to be used online)
- Viewing and editing sequence alignments (Seaview, the programme can be downloaded for free to a computer from http://doua.prabi.fr/software/seaview )
- Performing a preliminary phylogenetic analysis (RaXML, the programme can be downloaded for free to a computer from https://sites.google.com/site/raxmlgui/ )
- Viewing the phylogenetic trees (FigTree, the programme can be downloaded for free to a computer from http://tree.bio.ed.ac.uk/software/figtree/ )
- General editing of the sequence files is easiest to do in NotePad++ (the programme can be downloaded for free to a computer from https://notepad-plus-plus.org/ )
This workshop is therefore suitable for anyone who is already delving into DNA work or likely to do so in the future. Having two tutors will ensure plenty of personal help and I am assured it will not be too difficult, an individual with a positive attitude, despite the scary list of odd names and programmes above, should be able to learn the basics comfortably within 2 days.
We anticipate this will be popular so make sure you book immediately so that you are not disappointed.
Cost is £130.00pp for BMS members (includes 50% subsidy) this includes 2 nights full board in 4* hotel and all tuition.
Cost for non members is £260.00 (no subsidy) this includes 2 nights full board in a 4* hotel and all tuition.
Participants are expected to use their own laptop computers.
The accommodation is in 4 Star Tankersley Manor Hotel, Church Ln, Tankersley, Barnsley, S75 3DQ
This is 20 mins from Sheffield and close to the M1 motorway with easy access from main trunk roads. Their conference accommodation includes free and fast broadband a requirement for this workshop.