Abstract
Nitrogen-fixing root nodules on actinorhizal plants have varying internal architectures, implying diversity in how Frankia sp. integrates into plant physiologies. To understand this integration we compared the metabolomes of Alnus glutinosa and Casuarina cunninghamiana root nodules with roots from uninfected plants. High throughput gas chromatography–mass spectrometry (GC-MS) was done on extracts of nodules and roots from uninfected seedlings. Over 118 metabolites in C. cunninghamiana roots and nodules and over 163 in A. glutinosa roots and nodules were identified; between one-third to one-half of the metabolites significantly increased or decreased between roots and nodules. Amino acid patterns varied between the plants with only glutamate and alanine, which may be conducive to the induction of nitrogenase, and citrulline, elevated in nodules of both. Sugar levels were similar between species excepting a striking increase of maltose and cellobiose in C. cunninghamiana nodules indicating starch mobilization and cell wall modification. Stress related compounds increased in both systems. Phenylacetic acid was elevated in A. glutinosa nodules. High ethanolamine content was found in C. cunninghamiana nodules suggesting lipid degradation. We conclude that C. cunninghamiana responds more robustly to the presence of the endophyte than A. glutinosa with metabolite patterns consistent with different strategies used for compartmentalizing the symbiont from uninfected tissues.
Similar content being viewed by others
References
Auguy F, Abdel-Lateif K, Doumas P et al (2011) Activation of the isoflavonoid pathway in actinorhizal symbioses. Funct Plant Biol 38:690. doi:10.1071/FP11014
Baker A, Hill GF, Parsons R (1997) Evidence for N feedback regulation of N2 fixation in Alnus glutinosa L. J Exp Bot 48:67–73. doi:10.1093/jxb/48.1.67
Barclay LRC, Xi F, Norris JQ (2006) Antioxidant properties of phenolic lignin model compounds. J Wood Chem Technol 17:73–90
Bargmann BO, Munnik T (2006) The role of phospholipase D in plant stress responses. Curr Opin Plant Biol 9:515–522. doi:10.1016/j.pbi.2006.07.011
Bassi CA, Benson DR (2007) Growth characteristics of the slow-growing actinobacterium Frankia sp. strain CcI3 on solid media. Physiol Plant 130:391–399. doi:10.1111/j.1399-3054.2007.00866.x
Benson DR, Silvester WB (1993) Biology of Frankia strains, actinomycete symbionts of actinorhizal plants. Microbiol Rev 57:293–319
Berg RH (1990) Cellulose and xylans in the interface capsule in symbiotic cells of actinorhizae. Protoplasma 159:35–43. doi:10.1007/BF01326633
Berg RH, McDowell L (1988) Cytochemistry of the wall of infected cells in Casuarina actinorhizae. Can J Bot 66:2038–2047
Berry AM, Harriott OT, Moreau RA et al (1993) Hopanoid lipids compose the Frankia vesicle envelope, presumptive barrier of oxygen diffusion to nitrogenase. Proc Natl Acad Sci 90:6091–6094. doi:10.1073/pnas.90.13.6091
Blom J, Roelofsen W, Akkermans ADL (1981) Assimilation of nitrogen in root nodules of alder (Alnus glutinosa). New Phytol 89:321–326. doi:10.1111/j.1469-8137.1981.tb07492.x
Bowes B, Callaham D, Torrey JG (1977) Time-lapse photographic observations of morphogenesis in root nodules of Comptonia peregrina (Myricaceae). Am J Bot 64:516–525
Callaham D, Deltredici P, Torrey JG (1978) Isolation and cultivation in vitro of the actinomycete causing root nodulation in Comptonia. Science 199:899–902. doi:10.1126/science.199.4331.899
Canonne J, Froidure-Nicolas S, Rivas S (2011) Phospholipases in action during plant defense signaling. Plant Signal Behav 6:13–18. doi:10.4161/psb.6.1.14037
Carro L, Pujic P, Alloisio N et al (2015) Alnus peptides modify membrane porosity and induce the release of nitrogen-rich metabolites from nitrogen-fixing Frankia. ISME J. doi:10.1038/ismej.2014.257
Chen JH, Ho C-T (1997) Antioxidant activities of caffeic acid and its related hydroxycinnamic acid compounds. J Agric Food Chem 45:2374–2378. doi:10.1021/jf970055t
Clawson ML, Bourret A, Benson DR (2004) Assessing the phylogeny of Frankia-actinorhizal plant nitrogen-fixing root nodule symbioses with Frankia 16S rRNA and glutamine synthetase gene sequences. Mol Phylogenet Evol 31:131–138. doi:10.1016/j.ympev.2003.08.001
Desbrosses GG, Kopka J, Udvardi MK (2005) Lotus japonicus metabolic profiling. Development of gas chromatography–mass spectrometry resources for the study of plant-microbe interactions. Plant Physiol 137:1302–1318. doi:10.1104/pp.104.054957
Fiehn O, Wohlgemuth G, Scholz M et al (2008) Quality control for plant metabolomics: reporting MSI-compliant studies. Plant J 53:691–704. doi:10.1111/j.1365-313X.2007.03387.x
Forrest SI, Verma DPS, Dhindsa RS (1991) Starch content and activities of starch-metabolizing enzymes in effective and ineffective root nodules of soybean. Can J Bot 69:697–701. doi:10.1139/b91-094
Fred EB, Baldwin IL, McCoy E (1932) Root nodule bacteria and leguminous plants. UW-Madison Libraries Parallel Press
Guan C, Ribeiro A, Akkermans ADL et al (1996) Nitrogen metabolism in actinorhizal nodules of Alnus glutinosa: expression of glutamine synthetase and acetylornithine transaminase. Plant Mol Biol 32:1177–1184
Hafeez F, Chaudhary AH, Akkermans ADL (1984) Physiological studies on N2-fixing root nodules of Datisca cannabina L. and Alnus nitida Endl. from Himalaya region in Pakistan. Plant Soil 78:129–146
Hammad Y, Nalin R, Marechal J et al (2003) A possible role for phenyl acetic acid (PAA) on Alnus glutinosa nodulation by Frankia. Plant Soil 254:193–205. doi:10.1023/a:1024971417777
Harriott OT, Khairallah L, Benson DR (1991) Isolation and structure of the lipid envelopes from the nitrogen-fixing vesicles of Frankia sp. strain CpI1. J Bacteriol 173:2061–2067
Jacobsen-Lyon K, Jensen EO, Jorgensen JE et al (1995) Symbiotic and nonsymbiotic hemoglobin genes of Casuarina glauca. Plant Cell 7:213–223
Kint G, Fierro C, Marchal K et al (2010) Integration of “omics” data: does it lead to new insights into host-microbe interactions? Future Microbiol 5:313–328. doi:10.2217/fmb.10.1
Laplaze L, Gherbi H, Frutz T et al (1999) Flavan-containing cells delimit Frankia-infected compartments in Casuarina glauca nodules. Plant Physiol 121:113–122
Laplaze L, Svistoonoff S, Santi C et al (2008) Molecular biology of actinorhizal symbioses. In: Newton WE, Pawlowski K (eds) Nitrogen-fixing actinorhizal symbioses. Springer, Netherlands, pp 235–259
Leaf G, Gardner IC, Bond G (1958) Observations on the composition and metabolism of the nitrogen-fixing root nodules of Alnus. J Exp Bot 9:320–331. doi:10.1093/jxb/9.3.320
Lee YJ, Perdian DC, Song Z et al (2012) Use of mass spectrometry for imaging metabolites in plants. Plant J 70:81–95. doi:10.1111/j.1365-313X.2012.04899.x
Lundberg P, Lundquist PO (2004) Primary metabolism in N2-fixing Alnus incana-Frankia symbiotic root nodules studied with 15N and 31P nuclear magnetic resonance spectroscopy. Planta 219:661–672. doi:10.1007/s00425-004-1271-0
Lundquist PO, Huss-Danell K (1991) Nitrogenase activity and amounts of nitrogenase proteins in a Frankia-Alnus incana symbiosis subjected to darkness. Plant Physiol 95:808–813
Nappi AJ, Vass E (1998) Hydroxyl radical formation via iron-mediated Fenton chemistry is inhibited by methylated catechols. Biochim Biophys Acta Gen Subj 1425:159–167. doi:10.1016/S0304-4165(98)00062-2
Nicholson RL, Hammerschmidt R (1992) Phenolic compounds and their role in disease resistance. Annu Rev Phytopathol 30:369–389. doi:10.1146/annurev.py.30.090192.002101
Normand P, Lapierre P, Tisa LS et al (2007) Genome characteristics of facultatively symbiotic Frankia sp. strains reflect host range and host plant biogeography. Genome Res 17:7–15. doi:10.1101/gr.5798407
Ogata S, Takeuchi M, Teradaira S et al (2014) Radical scavenging activities of niacin-related compounds. Biosci Biotechnol Biochem 66:641–645. doi:10.1271/bbb.66.641
Parker D, Beckmann M, Zubair H et al (2009) Metabolomic analysis reveals a common pattern of metabolic re-programming during invasion of three host plant species by Magnaporthe grisea. Plant J 59:723–737. doi:10.1111/j.1365-313X.2009.03912.x
Perrine-Walker F, Doumas P, Lucas M et al (2010) Auxin carriers localization drives auxin accumulation in plant cells infected by Frankia in Casuarina glauca actinorhizal nodules. Plant Physiol 154:1372–1380. doi:10.1104/pp.110.163394
Rasmussen S, Parsons AJ, Jones CS (2012) Metabolomics of forage plants: a review. Ann Bot 110:1281–1290. doi:10.1093/aob/mcs023
Reggiani R, Nebuloni M, Mattana M, Brambilla I (2000) Anaerobic accumulation of amino acids in rice roots: role of the glutamine synthetase/glutamate synthase cycle. Amino Acids 18:207–217. doi:10.1007/s007260050018
Ricoult C, Echeverria LO, Cliquet J-B, Limami AM (2006) Characterization of alanine aminotransferase (AlaAT) multigene family and hypoxic response in young seedlings of the model legume Medicago truncatula. J Exp Bot 57:3079–3089. doi:10.1093/jxb/erl069
Sachs JL, Skophammer RG, Regus JU (2011) Evolutionary transitions in bacterial symbiosis. Proc Natl Acad Sci U S A 108(Suppl):10800–10807. doi:10.1073/pnas.1100304108
Schubert KR, Coker GT, Firestone RB (1981) Ammonia assimilation in Alnus glutinosa and glycine max: short-term studies using [13N]ammonium. Plant Physiol 67:662–665. doi:10.1104/pp.67.4.662
Schubert M, Koteyeva NK, Zdyb A et al (2013) Lignification of cell walls of infected cells in Casuarina glauca nodules that depend on symplastic sugar supply is accompanied by reduction of plasmodesmata number and narrowing of plasmodesmata. Physiol Plant 147:524–540. doi:10.1111/j.1399-3054.2012.01685.x
Sellstedt A, Atkins CA (1991) Composition of amino compounds transported in xylem of Casuarina sp. J Exp Bot 42:1493–1498. doi:10.1093/jxb/42.12.1493
Silvester WB, Harris SL (1989) Nodule structure and nitrogenase activity of Coriaria arborea in response to varying pO2. Plant Soil 118:97–109. doi:10.1007/BF02232794
Silvester WB, Berg RH, Schwintzer CR, Tjepkema JD (2008) Oxygen responses, hemoglobin, and the structure and function of vesicles. In: Pawlowski K, Newton WE (eds) Nitrogen-fixing actinorhizal symbioses. Springer Netherlands, Dordrecht, pp 105–146
Stacey G, Libault M, Brechenmacher L et al (2006) Genetics and functional genomics of legume nodulation. Curr Opin Plant Biol 9:110–121. doi:10.1016/j.pbi.2006.01.005
Swensen S, Benson DR (2008) Evolution of actinorhizal host plants and Frankia endosymbionts. In: Pawlowski K, Newton WE (eds) Nitrogen-fixing actinorhizal symbioses. Springer, Dordrecht
Tai A, Sawano T, Ito H (2014) Antioxidative properties of vanillic acid esters in multiple antioxidant assays. Biosci Biotechnol Biochem 76:314–318. doi:10.1271/bbb.110700
Tani C, Sasakawa H (2006) Proline accumulates in Casuarina equisetifolia seedlings under salt stress. Soil Sci Plant Nutr 52:21–25. doi:10.1111/j.1747-0765.2006.00005.x
Tjepkema JD (1979) Oxygen relations in leguminous and actinorhizal nodules. In: Gordon JC, Wheeler CT, Perry DA (eds) Symbiotic nitrogen fixation in the management of temperate forests. Oregon State University Press, Corvallis, pp 175–186
Tjepkema JD, Murry MA (1989) Respiration and nitrogenase activity in nodules of Casuarina cunninghamiana and cultures of Frankia sp. HFP020203: Effects of temperature and partial pressure of O2. Plant Soil 118:111–118. doi:10.1007/BF02232795
Tonin GS, Wheeler CT, Crozier A (1990) Effect of nitrogen nutrition on amino acid composition of xylem sap and stem wood in Alnus glutinosa. Physiol Plant 79:506–511. doi:10.1111/j.1399-3054.1990.tb02110.x
Torrey JG (1976) Initiation and development of root nodules of Casuarina (Casuarinaceae). Am J Bot 63:335–344
Torrey JG, Callaham D (1979) Early nodule development in Myrica gale. Bot Gaz 140:S10–S15
Uritani I, Asahi T (1980) Respiration and related metabolic activity in wounded and infected tissues. In: Davies DD (ed) Metabolism and respiration: the biochemistry of plants. Academic, New York, pp 463–485
Valverde C, Huss-Danell K, Dilworth MJ et al (2008) Carbon and nitrogen metabolism In actinorhizal nodules. In: Newton WE, Pawlowski K (eds) Nitrogen-fixing actinorhizal symbioses. Springer, Netherlands, pp 167–198
Virtanen AI, Miettinen JK (1952) Free amino-acids in the leaves, roots and root nodules of the alder (Alnus). Nature 170:283–284
Walsh KB, Ng BH, Chandler GE (1984) Effects of nitrogen nutrition on xylem sap composition of Casuarinaceae. Plant Soil 81:291–293. doi:10.1007/BF02197162
Wang X (2001) Plant phospholipases. Annu Rev Plant Physiol Plant Mol Biol 52:211–231. doi:10.1146/annurev.arplant.52.1.211
Wheeler CT, Bond G (1970) The amino acids of non-legume root nodules. Phytochemistry 9:705–708. doi:10.1016/S0031-9422(00)85168-7
Ye H, Gemperline E, Venkateshwaran M et al (2013) MALDI mass spectrometry-assisted molecular imaging of metabolites during nitrogen fixation in the Medicago truncatula-Sinorhizobium meliloti symbiosis. Plant J 75:130–145. doi:10.1111/tpj.12191
Yen G-C, Kao H-H (2014) Antioxidative effect of biogenic amine on the peroxidation of linoleic acid. Biosci Biotechnol Biochem 57:115–116. doi:10.1271/bbb.57.115
Yilmaz Y, Toledo RT (2004) Major flavonoids in grape seeds and skins: antioxidant capacity of catechin, epicatechin, and gallic acid. J Agric Food Chem 52:255–260. doi:10.1021/jf030117h
Zeng S, Tjepkema JD, Berg RH (1989) Gas diffusion pathway in nodules of Casuarina cunninghamiana. Plant Soil 118:119–123. doi:10.1007/BF02232796
Zhang X, Benson DR (1992) Utilization of amino acids by Frankia sp. strain CpI1. Arch Microbiol 158:256–261. doi:10.1007/BF00245241
Zhang N, Venkateshwaran M, Boersma M et al (2012) Metabolomic profiling reveals suppression of oxylipin biosynthesis during the early stages of legume-rhizobia symbiosis. FEBS Lett 586:3150–3158. doi:10.1016/j.febslet.2012.06.046
Acknowledgments
The authors wish to acknowledge the support of the National Science Foundation Microbial Genome Sequencing Program. We thank the West Coast Metabolomics Center at the University of California, Davis for generating the GC-MS data.
Author information
Authors and Affiliations
Corresponding author
Additional information
Included with papers from the 18th International Meeting on Frankia and Actinorhizal Plants (ACTINO20`5, August 24-27, 2015, Montpellier, France.
An erratum to this article is available at http://dx.doi.org/10.1007/s13199-016-0405-z.
Electronic supplementary material
Below is the link to the electronic supplementary material.
Table S1
List of identified and unidentified compounds from GC-MS analysis of Alnus glutinosa root nodules, roots from uninfected plants and roots from infected plants. (XLSX 544 kb)
Table S2
List of identified and unidentified compounds from GC-MS analysis of Casuarina cunninghamiana root nodules and roots from uninfected plants. (XLSX 287 kb)
Rights and permissions
About this article
Cite this article
Brooks, J.M., Benson, D.R. Comparative metabolomics of root nodules infected with Frankia sp. strains and uninfected roots from Alnus glutinosa and Casuarina cunninghamiana reflects physiological integration. Symbiosis 70, 87–96 (2016). https://doi.org/10.1007/s13199-016-0379-x
Received:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s13199-016-0379-x