From Field to Journal (microbiology)

(C) Pixaby CCO


This course will only run subject to demand.  We have not yet set a date. Please register your interest here for future training courses. We will inform you of new events and new locations as they become available.

Potential Location:

  1. CEH Lancaster, Lancaster Environment Centre, Library Avenue, Bailrigg, Lancaster, LA1 4AP Location map & travel directions
  2. CEH Wallingford, Maclean Building, Benson Lane, Crowmarsh Gifford, Wallingford, Oxfordshire, OX10 8BB Location map & travel directions
  3. CEH Edinburgh, Bush Estate, Penicuik, Midlothian, EH26 0QB Location map & travel directions
  4. CEH Bangor, Environment Centre Wales, Deiniol Road, Bangor, Gwynedd, LL57 2UW Location map & travel directions


£ 699 regular

£499 registered students

Refreshments are included in the price. Accommodation is not included in the price.

Short Course Description:

This 3-day course will prepare participants to develop microbial field survey techniques and experiment design skills, to collect high-quality microbial samples in the field and prepare them for analysis, and to understand the bioinformatics and statistic requirements to publish such studies.

Day 1: Theoretical preparation and sampling design requirements.

Day 2 starts with a field component where you will take riverine and soil microbial samples, and a lab work component in the afternoon, when you will prepare the sampled DNA for shotgun sequencing.

Day 3: You will analyse different types of microbial data samples in the morning. In the afternoon, you will convert the data into a publishable format, followed by a session about paper writing.  


Course Objectives:

The course participants will gain a better understanding of

1) what is required to design a scientifically sound sampling strategy

2) what is required to conduct scientifically viable fieldwork

3) what is required to prepare a publication once the data has been collected


Learning outcomes:

Course participants will be able to identify what elements are needed to successfully design a study including microbial field- and lab work and take it through to publication.



Accommodation is not included in the cost. Some venues have low-cost university accommodation on site or nearby. More detail: see FAQ







Course participants should have undergraduate-level knowledge of microbial ecology and fieldwork design.


Course Leader:

Dr Katja Lehmann, Microbial Ecologist and Bioinformatician

Centre for Ecology & Hydrology. Dr Lehmann has more than 8 years experience in conducting fieldwork campaigns and bioinformatics analyses for publication.

Partner organisations and other trainers:

Target Audience:

MSc and PhD students studying microbiology, ecology or any related field. Citizen scientists with sampling experience.

This course will run subject to demand. Please register your interest here for future training courses. We will inform you of new events and new locations as they become available.


Course delivery:

Blended learning, with lectures, discussions, practicals and elements of problem based learning


Relevant links and key publications

Lehmann, K. "Sampling of riverine or marine bacterial communities in remote locations: from field to publication." Marine Genomics: Methods and Protocols (2016): 1-11.