This code is used in the paper entitled "Contrasted host specificity of gut and endosymbiont bacterial communities in alpine grasshoppers and crickets" by Mazel, Florent1,* Pitteloud, Camille2,* Guisan, Antoine1,3,** Pellissier, Loïc4,5, **
1 Department of Ecology and Evolution, University of Lausanne, 1015 Lausanne, Switzerland 2 Département de la mobilité, du territoire et de l‘environnement, Service des forêts, de la nature et du paysage, 1950 Sion, Switzerland 3 Institute of Earth Surface Dynamics, University of Lausanne, 1015 Lausanne, Switzerland 4 Department of Environmental Systems Science, ETH Zürich, Zürich, Switzerland 5 Swiss Federal Research Institute WSL, Birmensdorf, Switzerland
*co-first authors **co-last authors
Summary: In essence, it uses 16S amplicon sequences and metadata as input and provide an analysis of host specificity and phylosymbiosis across endosymbionts and putative gut symbionts
Code It fountains mostly R code, and some bash code to run softwares such as IQTREE, barnapp or mafft
Data Metadata is provided here and will be also available on the website of the published upon publication. All DNA data are available online (microbiome data on ENA: PRJEB62030, host data on figshare: DOI: 10.6084/m9.figshare.23605404).