GUT MICROBIOLOGY: FROM SEQUENCE TO FUNCTION

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ROWETT - INRA 2014 CONFERENCE

ABERDEEN EXHIBITION AND CONFERENCE CENTRE, UK

16-19 JUNE 2014.

The overall aim of the conference is to promote understanding of the role of the complex microbial ecosystems present in the digestive tract of man and animals, in maintaining health of the host. This includes elucidating links between the microbial ecology of the digestive tract and the roles of specific genes in the interplay both between micro-organisms, and between micro-organisms and their hosts. The conference is of interest to those working to improve human and animal health and nutrition through dietary manipulation.

Topics to be addressed will include:
• Microbial diversity in health and disease
• The relationship between (meta)genomic sequences and microbial activity
• Microbial metabolism of dietary components and functional foods
• Microbial interactions with the host 

DATE POSTEDMar 31, 2014

JOINT RUMINOMICS/RMG NETWORK/ECO-FCE WORKSHOP

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MONDAY 16TH JUNE 2014.

The Framework 7 project RuminOmics is coordinated from the Rowett Institute in Aberdeen.  RuminOmics is organising a satellite workshop, together with the RMG Network and the analogous FP7 project on non-ruminant species, ECO-FCE, on the day preceding the main Rowett-INRA2014 conference.  The workshop will run from 10.00-16.00 on Monday 16 June.  Its aim will be to compare and contrast methodologies, results and problems from the different projects, with a theme How does the gut microbiota influence feed efficiency? 

Speakers will be drawn from each of the three projects and also from outside the projects.  Thus far, Graeme Attwood, Chris Creevey, Matthias Hess, Barbara Metzler, Peadar Lawlor and Katarzyna Stadnicka have accepted invitations to present.You are invited to join the workshop and to contribute your thoughts on these and related matters.  A nominal registration fee of £30 will be requested, which will include teas, coffees  and lunch.  Financial support will be available to young delegates, particularly from Eastern Europe and recent accession states.

More details can be obtained from Sharon Huws hnh@aber.ac.uk of the RMGN and John Wallacejohn.wallace@abdn.ac.uk of RuminOmics.  Early registration is advised, as numbers are limited.

DATE POSTEDMar 31, 2014

A ROADMAP FOR RUMEN MICROBIAL GENOMICS RESEARCH

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During the recent workshop jointly organised by RuminOmics and the RMG Network, there was the suggestion that a document be prepared that might provide a convenient and simple ‘roadmap' for those researchers new to rumen microbial genomics by providing a helpful resource with up-to-date methods. The attached report titled ‘A report in support of the Rumen Microbial Genomics (RMG) Network describing standard guidelines and protocols for data acquisition, analysis and storage' is now available for general feedback. It aims to provide a broad summary of useful methods and protocols as an entry point for those who are new to Rumen Microbial Genomics Research and a vehicle to highlight well-established methods that are currently in use by the rumen microbiology research community that bridge the gap between animal scientists and microbiologists. The report covers many of the nine short presentations made in the first morning session of the joint RuminOmics RMG Network workshop meeting and has links to the presentations themselves and other helpful websites and references.

DATE POSTEDDec 10, 2013

PROCEEDINGS OF JOINT RUMINOMICS/RMG NETWORK WORKSHOP: AVAILABLE FOR DOWNLOAD

The joint Ruminomics/RMG Network workshop was held in Dublin, Ireland on 22nd June 2013. The workshop was divided into a morning session with several presentations describing techniques associated with ruminal microbiome and metagenome analysis. The post-lunch session provided updates on the activities of the RMG Network and the underpinning Global Rumen Census and Hungate 1000 projects. The final session provided an opportunity to cover areas of interest such as culturing, taxonomy and the future role for the RMG Network. 
Session 1. Harmonisation of techniques associated with ruminal microbiome and metagenome analysis.
  

Introduction to Ruminomics	John Wallace, UK ruminomics_intro_dublin_wallace.pdf (0.55MB)
Sampling and sample storage	Gemma Henderson, NZ and Ilma Tapio, Finland ruminomics_sample storage_dublin_henderson.pdf(1.59MB)
Existing and emerging sequencing technologies	Mick Watson, UK Ruminomics_sequencing_technologies_Dublin_Watso...(0.78MB)
Microbiome analysis	Leluo Guan, Canada and Sinead Waters, Ireland ruminomics_microbiome... (0.51MB)
Metagenome analysis and community structure	Stewart Denman, Australia ruminomics_metagenome_dublin_Denman.pdf (3.89MB)
Genomics	Sinead Leahy, NZ Ruminomics_Genomics_Dublin_Leahy.pdf (1.18MB)
Functional metagenomics	Graeme Attwood, NZ  ruminomics_functional...(1.69MB)
Metatranscriptomics	Chris Creevey, Ireland Ruminomics_Metatranscriptomics_Dublin_Creevey.pdf(2.47MB)
Metaproteomics	Tim Snelling, UK ruminomics_metaproteomics_dublin_snelling.pdf(1.59MB)
Bioinformatics for metagenomic sequence analysis	John Williams, Italy ruminomics_bioinformatics_dublin_williams.pdf (2.91MB)

Session 2. The RMG Network and underpinning network-based projects. 

The origins and objectives of the Rumen Microbial Genomics Network	Adrian Cookson, NZ  ruminomics_network presentation_dublin_cookson.pdf (0.70MB)
Global census of rumen microbial diversity	Gemma Henderson, NZ  ruminomics_global rumen... (0.63MB)
The Hungate 1000: a catalogue of reference genomes from the rumen microbiome	Bill Kelly, NZ ruminomics_hungate1000_dublin_kelly.pdf (0.70MB)

Summary document by John Wallace, UK  ruminomics_WorkshopOverview_dublin_wallace.pdf (0.31MB)

DATE POSTEDOct 9, 2013

RMG NETWORK NEWSLETTER #2

RMG Network Newsletter #02, May 2013.

This second RMG Network newsletter has contributions from Canada, Scotland, Spain, and New Zealand together with recent news on funding and up-coming conferences and workshops.  RMG Network Newsletter May2013.pdf (1.33MB)
 

DATE POSTEDJun 14, 2013

3RD RMG NETWORK WORKSHOP AT GGAA

The next meeting of the RMG Network is scheduled to be held in Dublin, Ireland on 22nd June 2013 immediately prior to the Greenhouse Gases and Animal Agriculture (GGAA) meeting.  It will be a one-day workshop jointly organised with the RuminOmics consortium. In addition to updates from RMG Network projects, including the Hungate1000 and Global Rumen Census, the workshop has been titled Harmonisation of techniques associated with ruminal genome, microbiome and metagenome analysis.

The analysis of how the ruminal microbial community influences methanogenesis depends on a set of techniques that are used to characterize the genome, microbiome and metagenome. The outcome of the analysis often depends on the details of the techniques used. How should samples of ruminal digesta be taken? And when? How should they be stored? How should DNA be extracted? Following extraction, several methods are available for analysing the community, but are they all valid? How best can we use NGS to achieve our objectives in this respect? And how does metagenomic sequence data from massively parallel sequencing help us to analyse the structure and activity of the community? This workshop is sponsored by the EC Framework 7 consortium, RuminOmics, and the Rumen Microbial Genetics Network.  Its aim  is to explore the various techniques that are being used and if possible, to make them consistent, in order to facilitate comparisons between the results of experiments carried out by the many international groups working on rumen microbial ecology as it relates to methane and N emissions from ruminant livestock production. For further information on pre-conference workshops see www.ggaa2013.ie/workshops.html

DATE POSTEDJan 15, 2013

RMG NETWORK NEWSLETTER

RMG NETWORK NEWSLETTER #01 DECEMBER 2012

The first RMG Network newsletter contains articles on recent conference/workshop visits,up-coming conferences, etc.  RMG Network Newsletter Dec2012.pdf (1.25MB) 

Please contact rmg.network@agresearch.co.nz with suggestions for items to include in the next RMG Network newsletter. 

DATE POSTEDJan 9, 2013