Citation - Nemabiome.ca

Contributors

• The nemabiome concept and development of tools to study the nemabiome is done in the lab of John Gilleard
• Bench protocols written by Elizabeth Redman
• Analysis protocols written by Russell Avramenko
• Previous ITS2 database and taxonomy (for Mothur Workflow) created by Russell Avramenko
• New ITS2 database is generated using markerDB pipeline developed by Matthew Workentine
• Nemabiome logo design by Matilde Tonelli
• Website built by Matthew Workentine

This website is hosted on Netlify, code available on Github

Citation

If you use the new ITS2 database in your work we kindly ask that you credit this website as well as cite the following journal article:

Workentine ML, Chen R, Zhu S, Gavriliuc S, Shaw N, Rijke J de, Redman EM, Avramenko RW, Wit J, Poissant J, Gilleard JS. A database for ITS2 sequences from nematodes. BMC Genetics. 2020 21(1):74. https://doi.org/10.1186/s12863-020-00880-0

If you use any of the sequencing protocols or Mothur workflow in your work we kindly ask that you credit this website as well as cite the following journal article:

Avramenko RW, Redman EM, Lewis R, Yazwinski TA, Wasmuth JD, Gilleard JS. Exploring the Gastrointestinal “Nemabiome”: Deep Amplicon Sequencing to Quantify the Species Composition of Parasitic Nematode Communities. PLoS ONE. 2015;10: e0143559. https://doi.org/10.1371/journal.pone.0143559

Other relevant references

1.

Avramenko RW, Redman EM, Lewis R, Bichuette MA, Palmeira BM, Yazwinski TA, et al. The use of nemabiome metabarcoding to explore gastro-intestinal nematode species diversity and anthelmintic treatment effectiveness in beef calves. International journal for parasitology. 2017;47: 893–902.

2.

Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M, Hollister EB, et al. Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Applied and Environmental Microbiology. 2009;75: 7537–7541.