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Commit 934f209f authored by Viktoria Petrova's avatar Viktoria Petrova
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add correlation b-n microbes and metabolites assay and protocol

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## Correlation between microbes and metabolites
We calculated the correlation between every pair of microbes and metabolites to reveal the potential cross feeding between the microbe species. At each combination of plant lineages (WT / SWEET2 / SWEET4 / SWEET11,22) and root segments (2cm / 4cm / 6cm / whole root), we performed 16s RNA sequencing to quantify the abundance of different microbial classes and also mass spectrometry to measure the abundance of different metabolites.
For each pair of microbe class and metabolite, we calculated their spearman correlation across different plant lineages and root locations to construct the correlation matrix; matrix elements that correspond to p-value >0.05 are deemed insignificant and replaced with 0 (i.e., not connected in a complex network). We used the iGraph package of R to display this bipartite network (Csárdi, G. et al., 2023). Communities within this network are detected using the label propagation algorithm (Raghavan, U.N., 2007).
Reference ID: KRT64abe6afd69ae
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