<b>Genetic and functional traits limit the success of colonisation by arbuscular mycorrhizal fungi in a tomato wild relative</b>

This folder contains relevant datasets generated in the study:Chialva, M., Stelluti, S., Novero, M., Masson, S., Bonfante, P. &amp; Lanfranco, L. (2024) Genetic and functional traits limit the success of colonisation by arbuscular mycorrhizal fungi in a tomato wild relative. <i>Plant, Cell &amp; </i><i>Environment </i>47 (11), 4275-4292. https://doi.org/10.1111/pce.15007<b><i>RNA-seq dataset and </i></b><b><i>Orthogroups inference</i></b>SLY_raw_counts.tsv &gt; raw mRNA-seq reads counts obtained by pseudo-aligning reads of the 'M82' cultivar roots on the <i>Solanum lycopersicum</i> reference transcriptome (SL3.0, ITAG3.2) using Salmon software and summarised using 'tximport' library in R.SPE_raw_counts.tsv &gt; Raw mRNA-seq reads counts obtained by pseudo-aligning <i>Solanum pennellii</i> LA5240 reads from roots on the reference transcriptome (Spenn_v2.0) using Salmon software and summarised using 'tximport' library in R.SLY_vst_counts.tsv &gt; vst-normalised mRNA-seq counts for <i>S. lycopersicum</i> 'M82' obtained by filtering low-expressed transcripts and by removing unwanted variation using RUV-seq R package (RUVg normalization, k=2).SPE_vst_counts.tsv &gt; vst-normalised mRNA-seq counts obtained by filtering low-expressed transcripts and by removing unwanted variation using RUV-seq R package (RUVg normalization, k=2).SL3.00_pennellii_orthologs_all.tsv &gt; Orthogroups predicted by Orthofinder (v.2.2.7) on <i>S. pennellii</i> (Spenn_v2.0) and <i>S. lycopersicum </i>(SL3.0, ITAG3.2) proteomesSL3.00_pennellii_orthologs_pairs.tsv &gt; Single-copy orthogroup predicted by Orthofinder (v.2.2.7) on <i>S. pennellii</i> and <i>S. lycopersicum</i> proteomes<br><br><br>