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SitePainter: a tool for exploring biogeographical patterns

A. Gonzalez, J. Stombaugh, C. L. Lauber, N. Fierer, R. Knight
2011 Bioinformatics  
SitePainter thus increases the visual power and ability to explore spatially explicit studies. Availability: https://sourceforge.net/projects/sitepainter  ...  results in a spatial context.  ...  ACKNOWLEDGEMENTS We thank Dirk Gevers, Curtis Huttenhower, Owen White, Lita Proctor and Jesse Zaneveld for feedback and assistance with the HMP implementation of SitePainter, and Dan Sisco, Clotilde Teiling  ... 
doi:10.1093/bioinformatics/btr685 pmid:22171330 pmcid:PMC3268248 fatcat:kdymr5b3vzhcxfe27ao3md6nuq

Microbial biogeography and ecology of the mouth and implications for periodontal diseases [article]

Diana Proctor, Katie Shelef, Antonio Gonzalez, Clara Long, Les Dethlefsen, Adam Burns, Peter Loomer, Gary Armitage, Mark Ryder, Meredith Millman, Rob Knight, Susan Holmes (+1 others)
2019 bioRxiv   pre-print
The human oral cavity is a critical observatory for exploring microbial biogeography because it is spatially structured, easily accessible, and its microbiota has been linked to the promotion of both health  ...  For this reason, we summarize what is known about the biogeographic variation of dental caries and periodontitis and postulate as to how this may be driven by spatial patterning in oral microbial community  ...  We thank Yvonne Kapila, the current chair at the UCSF School of Dentistry in the Department of Periodontology for departmental support.  ... 
doi:10.1101/541052 fatcat:eri6qlqj4ngtzisfiyxq5smdxu

Examining ecological determinants of community formation and stability in the root microbiota

Kristin Anna Eva Aleklett
2015
The root system of a plant is known to host a wide diversity of microbes that can be beneficial or detrimental to the plant.  ...  One overlooked aspect of microbial community assembly in root systems is the potential for individual variation among plants, and the potential effect of early colonisation events such as microbial exposure  ...  As a comparison, we also included a taxonomic metric(Bray- Curtis distance) to explore whether dissimilarity patterns were the same in terms of presence/absence of taxa.  ... 
doi:10.14288/1.0223809 fatcat:otdp7ayerjgmpfk5dmixbcpugm