RNA-seq transcriptome profiling reveals that Medicago truncatula nodules acclimate N₂ fixation before emerging P deficiency reaches the nodules

J Exp Bot. 2014 Nov;65(20):6035-48. doi: 10.1093/jxb/eru341. Epub 2014 Aug 23.

Abstract

Legume nodules are plant tissues with an exceptionally high concentration of phosphorus (P), which, when there is scarcity of P, is preferentially maintained there rather than being allocated to other plant organs. The hypothesis of this study was that nodules are affected before the P concentration in the organ declines during whole-plant P depletion. Nitrogen (N₂) fixation and P concentration in various organs were monitored during a whole-plant P-depletion process in Medicago truncatula. Nodule gene expression was profiled through RNA-seq at day 5 of P depletion. Until that point in time P concentration in leaves reached a lower threshold but was maintained in nodules. N₂-fixation activity per plant diverged from that of fully nourished plants beginning at day 5 of the P-depletion process, primarily because fewer nodules were being formed, while the activity of the existing nodules was maintained for as long as two weeks into P depletion. RNA-seq revealed nodule acclimation on a molecular level with a total of 1140 differentially expressed genes. Numerous genes for P remobilization from organic structures were increasingly expressed. Various genes involved in nodule malate formation were upregulated, while genes involved in fermentation were downregulated. The fact that nodule formation was strongly repressed with the onset of P deficiency is reflected in the differential expression of various genes involved in nodulation. It is concluded that plants follow a strategy to maintain N₂ fixation and viable leaf tissue as long as possible during whole-plant P depletion to maintain their ability to react to emerging new P sources (e.g. through active P acquisition by roots).

Keywords: Legumes; Medicago truncatula; N2 fixation; P stress; RNA-seq; Sinorhizobium meliloti.; nitrogen fixation; nodulation.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Acclimatization
  • Gene Expression Regulation, Plant*
  • Medicago truncatula / genetics*
  • Medicago truncatula / microbiology
  • Medicago truncatula / physiology
  • Nitrogen / metabolism
  • Nitrogen Fixation
  • Phenotype
  • Phosphorus / deficiency*
  • Phosphorus / metabolism
  • Plant Leaves / genetics
  • Plant Leaves / microbiology
  • Plant Leaves / physiology
  • Plant Proteins / genetics
  • Plant Root Nodulation
  • Plant Roots / genetics
  • Plant Roots / microbiology
  • Plant Roots / physiology
  • Root Nodules, Plant / genetics
  • Root Nodules, Plant / microbiology
  • Root Nodules, Plant / physiology
  • Sequence Analysis, RNA
  • Sinorhizobium meliloti / physiology*
  • Symbiosis
  • Transcriptome*

Substances

  • Plant Proteins
  • Phosphorus
  • Nitrogen