Fig 1.
A longitudinal section of a representative M. truncatula-S. medicae root nodule, with red lines indicate the location of incision when separating each zone. Also included in the analysis are whole nodules and primary root.
Table 1.
Comparison of fraction-specific protein abundances with previously characterized zone-specific protein or transcript localizations.
Fig 2.
(a) Scoreplot results from PCA using protein profiles of all tissues sampled. (b) PLS-DA scoreplot of fraction-specific protein profiles. (c) PLS-DA scoreplot of fraction-specific metabolite profiles. In all cases dashed circles indicate a 95% confidence region. FI, Fraction I; FII, Fraction II; FIII, Fraction III.
Fig 3.
Summary of protein and metabolite profile data.
(a)-(c) Number of proteins or metabolites showing significant intensity differences in pair wise tissue comparisons (p-value < 0.05). Light grey bars indicate the number of features with greater abundance in distal tissues, while dark grey bars indicate the number of proteins with greater abundance in proximal tissues. (d) Total proteins identified by ontology. Light grey and dark grey bars correspond to S. medicae and M. truncatula proteins, respectively. FI, Fraction I; FII, Fraction II; FIII, Fraction III; TCA, Tricarboxylic Acid Cycle; ETC, Electron Transport Chain; EFs, Elongation Factors; TFs, Transcription Factors; NSPs, Nodule specific proteins.
Fig 4.
Relative abundance of TCA cycle enzymes from (a) M. truncatula and (b) S. medicae. Each heat map box corresponds to FI-FIII. The color for each box corresponds to the abundance of a protein expressed as a percentage of the total amount of that protein found in all three fractions.
Fig 5.
Comprehensive model of coordinated metabolism of carbohydrates, central carbon, fatty acids, amino acids, and others.
6PFK, 6 phosphofructokinase; ACC1, Acetyl-CoA carboxylase 1; ACC2, Acetyl-CoA carboxylase 2; AcpP, Acyl carrier protein; AKGDH, Alpha ketoglutarate dehydrogenase; Asn, Asparagine; ASNS, Asparagine synthase; Asp, Aspartate; AST, Aspartate transaminase; Cit, Citrate; ENO, Enolase; F1,6BP, Fructose 1,6-bisphosphate; F6P, Fructose 6-phosphate; FabB, 3-oxoacyl-(acyl carrier protein) synthase I; FbpA, Fructose-bisphosphate aldolase; FI, Fraction I; FII, Fraction II; FIII, Fraction III; G2P, Glyceraldehyde 2-phosphate; G3P, Glyceraldehyde 3-phosphate; GAPDH, Glyceraldehyde phosphate dehydrogenase; Glc, Glucose; Glc1P, Glucose 1-phosphate; Glc6P, Glucose 6-phosphate; Gln, Glutamine; Glu, Glutamate; GS, Glutamine synthetase; GSI, Glutamine synthetase I; ICDH, Isocitrate dehydrogenase; Mal, Malate; MDH, Malate dehydrogenase; NifD, Nitrogenase molybdenum-iron protein alpha chain; NifH, Nitrogenase reductase; NifK, Nitrogenase molybdenum-iron protein beta chain; NifN, Nitrogenase molybdenum-cofactor biosynthetic protein; OAA, Oxaloacetate; OGD, Oxoglutarate dehydrognease; PC, Pyruvate carboxylase; PDH, Pyruvate dehydrogenase; PEP, Phosphoenolpyruvate; PEPC, Phosphoenolpyruvate carboxylase; PFK, Phosphofructokinase; PGM, Phosphoglucomutase; PK, Pyruvate kinase; SDH, Succinate dehydrogenase; Suc, Sucrose; TCA, Tricarboxylic acid cycle; TIM, Triose phosphate isomerase; α-KG, alpha ketoglutarate.