Legumes have evolved a symbiotic relationship with rhizobial bacteria and their roots form unique nitrogen-fixing organs called nodules.Studies have shown that abiotic and biotic stresses alter the profile ofgene expression and transcript mobility in plants.However,little is known about the systemic transport of RNA between roots and shoots in response to rhizobial infection on a genome-wide scale during the formation of legume-rhizobia symbiosis.In our study,we found that two soybean (Glycine max) cultivars,Peking and Williams,show a high frequency of single nucleotide polymorphisms;this allowed us to characterize the origin and mobility of transcripts in hetero-grafts of these two cultivars.We identified 4,552 genes that produce mobile RNAs in soybean,and found that rhizobial infection triggers mass transport of mRNAs between shoots and roots at the early stage of nodulation.The majority of these mRNAs are of relatively low abundance and their transport occurs in a selective manner in soybean plants.Notably,the mRNAs that moved from shoots to roots at the early stage of nodulation were enriched in many nodule-related responsive processes.Moreover,the transcripts of many known symbiosis-related genes that are induced by rhizobial infection can move between shoots and roots.Our findings provide a deeper understanding of endogenous RNA transport in legume-rhizobia symbiotic processes.