Using a systems biology approach we asked to what extent lateral root development and nodulation share regulatory mechanisms to balance their formation. To do this we integrated phenotypic and transcriptomic data from wild-type (A17) and the hypernodulating mutant sunn-1 on deplete or replete nitrogen treatments.
Overall design
There were two sets of experiments. One experiment sampled wild-type Medicago truncatula A17 or the hypernodulating mutant SUPERNUMERARY NODULES (Medtr4g070970, sunn-1) after 6hr of replete nitrogen (5mM NH4NO3) treatment or no treatment (control) after plants had been grown for 14 days after beig either Sinorhizobium meliloti 1021 (rhizobia)-inoculated or mock-inoculated. This experiment was carried out in triplicate with 24 microarrays in total (8 experiments). Th second experiment sampled the wild-type Medicago truncatula A17 ecotype at 0hr, 2hr and 6hr of replete nitrogen (5mM NH4NO3) treatment after plants had been grown for 14 days on deplete nitrogen (0.1mM NH4NO3) after being either Sinorhizobium meliloti 1021 (rhizobia)-inoculated or mock-inoculated. This experiment was carried out in triplicate with 18 microarrays in total (6 experiments). Gene expression for all was analysed using NimbleGen 12 x 135K microarrays, designed for the Medicago truncatula A17 genome. After normalisation one replicate from the second experimental set was removed since it had a low QC values (Rhizobia-6hr-Rep2).
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