NODULE INCEPTION antagonistically regulates gene expression with nitrate in Lotus japonicus

Plant and Cell Physiology

Volumn 56, Issue 2, 2015, Pages 368-376

  Soyano, Takashi ^a,b   Shimoda, Yoshikazu ^a   Hayashi, Makoto ^a,c  

^a NATIONAL INSTITUTE OF AGROBIOLOGICAL SCIENCES   (Japan)

^b NATIONAL INSTITUTE FOR BASIC BIOLOGY   (Japan)

^c RIKEN Center for Sustainable Resource Science   (Japan)

Author keywords

Lotus japonicus; NIN binding nucleotide sequence; NIN like protein; Nitrate; Nitrate responsive element; NODULE INCEPTION; Root nodule symbiosis

Indexed keywords

ARABIDOPSIS; LOTUS CORNICULATUS VAR. JAPONICUS;

NITRIC ACID DERIVATIVE; PROTEIN BINDING; VEGETABLE PROTEIN;

CONSENSUS SEQUENCE; DRUG EFFECTS; GENE EXPRESSION REGULATION; GENETIC TRANSCRIPTION; GENETICS; LOTUS; METABOLISM; MICROBIOLOGY; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYSIOLOGY; PLANT GENE; PROMOTER REGION; RHIZOBIUM;

BASE SEQUENCE; CONSENSUS SEQUENCE; GENE EXPRESSION REGULATION, PLANT; GENES, PLANT; LOTUS; MOLECULAR SEQUENCE DATA; NITRATES; PLANT PROTEINS; PROMOTER REGIONS, GENETIC; PROTEIN BINDING; RHIZOBIUM; TRANSCRIPTION, GENETIC;

EID: 84928721547     PISSN: 00320781     EISSN: 14719053     Source Type: Journal    
DOI: 10.1093/pcp/pcu168     Document Type: Article

References (28)

1. Bailey, T.L., Bodén, M., Buske, F.A., Frith, M., Grant, C.E., Clementi, L. et al. (2009) MEME SUITE: tools for motif discovery and searching. Nucleic Acids Res. 37: W202-W208.
2. Barbulova, A., Rogato, A., D'Apuzzo, E., Omrane, S. and Chiurazzi, M. (2007) Differential effects of combined N sources on early steps of the Nod Factor-dependent transduction pathway in Lotus japonicus. Mol. Plant Microbe Interact. 20: 994-1003.
3. Boxer, L.D., Barajas, B., Tao, S., Zhang, J. and Khavari, P.A. (2014) ZNF750 interacts with KLF4 and RCOR1, KDM1A, and CTBP1/2 chromatin regulators to repress epidermal progenitor genes and induce differentiation genes. Genes Dev. 28: 2013-2026.
4. Castaings, L., Camargo, A., Pocholle, D., Gaudon, V., Texier, Y., Boutet-Mercey, S. et al. (2009) The nodule inception-like protein 7 modulates nitrate sensing and metabolism in Arabidopsis. Plant J. 57: 426-435.
5. Criscuolo, G., Valkov, V.T., Parati, A., Alves, L.M. and Chiurazzi, M. (2012) Molecular characterization of the Lotus japonicus NRT1(PTR) and NRT2 families. Plant Cell Environ. 35: 1567-1581.
6. Díaz, C.L., Grønlund, M., Schlaman, H.R.M. and Spaink, H.P. (2005) Induction of hairy roots for symbiotic gene expression studies. In Lotus japonicus Handbook. Edited by Marquez, A.J. pp. 261-277. Springer, Dordrecht.
7. Grant, C.E., Bailey, T.L. and Noble, W.S. (2011) FIMO: scanning for occurrences of a given motif. Bioinformatics 27: 1017-1018.
8. Høgslund, N., Radutoiu, S., Krusell, L., Voroshilova, V., Hannah, M.A., Goffard, N. et al. (2009) Dissection of symbiosis and organ development by integrated transcriptome analysis of Lotus japonicus mutant and wild-type plants. PLoS One 4: e6556.
9. Kistner, C. and Parniske, M. (2002) Evolution of signal transduction in intracellular symbiosis. Trends Plant Sci. 7: 511-518.
10. Konishi, M. and Yanagisawa, S. (2010) Identification of a nitrate-responsive cis-element in the Arabidopsis NIR1 promoter defines the presence of multiple cis-regulatory elements for nitrogen response. Plant J. 63: 269-282.
11. Konishi, M. and Yanagisawa, S. (2011) Roles of the transcriptional regulation mediated by the nitrate-responsive cis-element in higher plants. Biochem. Biophys. Res. Commun. 411: 708-713.
12. Konishi, M. and Yanagisawa, S. (2013) Arabidopsis NIN-like transcription factors have a central role in nitrate signalling. Nat. Commun. 4: 1617.
13. Kosuta, S., Held, M., Hossain, M.S., Morieri, G., Macgillivary, A., Johansen, C. et al. (2011) Lotus japonicus symRK-14 uncouples the cortical and epidermal symbiotic program. Plant J. 67: 929-940.
14. Marchive, C., Roudier, F., Castaings, L., Bréhaut, V., Blondet, E., Colot, V. et al. (2013) Nuclear retention of the transcription factor NLP7 orchestrates the early response to nitrate in plants. Nat. Commun. 4: 1713.
15. Marsh, J.F., Rakocevic, A., Mitra, R.M., Brocard, L., Sun, J., Eschstruth, A. et al. (2007) Medicago truncatula NIN is essential for rhizobial-independent nodule organogenesis induced by autoactive calcium/calmodulindependent protein kinase. Plant Physiol. 144: 324-335.
16. Mortier, V., Holsters, M. and Goormachtig, S. (2012) Never too many? How legumes control nodule numbers. Plant Cell Environ. 35: 245-258.
17. Nishimura, R., Hayashi, M., Wu, G.J., Kouchi, H., Imaizumi-Anraku, H., Murakami, Y. et al. (2002) HAR1 mediates systemic regulation of symbiotic organ development. Nature 420: 426-429.
18. Okamoto, M., Vidmar, J. and Glass, A.D.M. (2003) Regulation of NRT1 and NRT2 gene families of Arabidopsis thaliana: responses to nitrate provision. Plant Cell Physiol. 44: 304-317.
19. Orea, A., Pajuelo, P., Pajuelo, E., Márquez, A.J. and Romero, J.M. (2001) Characterisation and expression studies of a root cDNA encoding for ferredoxin-nitrite reductase from Lotus japonicus. Physiol. Plant. 113: 193-202.
20. Schauser, L., Roussis, A., Stiller, J. and Stougaard, J. (1999) A plant regulator controlling development of symbiotic root nodules. Nature 402: 191-195.
21. Schauser, L., Wieloch, W. and Stougaard, J. (2005) Evolution of NIN-like proteins in Arabidopsis, rice, and Lotus japonicus. J. Mol. Evol. 60: 229-327.
22. Soyano, T., Kouchi, H., Hirota, A. and Hayashi, M. (2013) NODULE INCEPTION directly targets NF-Y subunit genes to regulate essential processes of root nodule development in Lotus japonicus. PLoS Genet. 9: e1003352.
23. Soyano, T., Hirakawa, H., Sato, S., Hayashi, M. and Kawaguchi, M. (2014) NODULE INCEPTION creates a long-distance negative feedback loop involved in homeostatic regulation of nodule organ production. Proc. Natl Acad. Sci. USA 111: 14607-14612.
24. Suzuki, A., Hara, H., Kinoue, T., Abe, M., Uchiumi, T., Kucho., K. et al. (2008) Split-root study of autoregulation of nodulation in the model legume Lotus japonicus. J. Plant Res. 121: 245-249.
25. Suzuki, W., Konishi, M. and Yanagisawa, S. (2013) The evolutionary events necessary for the emergence of symbiotic nitrogen fixation in legumes may involve a loss of nitrate responsiveness of the NIN transcription factor. Plant Signal. Behav. 8: e25975.
26. Wasserman, W.W. and Sandelin, A. (2004) Applied bioinformatics for the identification of regulatory elements. Nat. Rev. Genet. 5: 276-287.
27. Yokota, K. and Hayashi, M. (2011) Function and evolution of nodulation genes in legumes. Cell Mol. Life Sci. 68: 1341-1351.
28. Zhuo, D., Okamoto, M., Vidmar, J.J. and Glass, A.D.M. (1999) Regulation of a putative high-affinity nitrate transporter (Nrt2;1At) in roots of Arabidopsis thaliana. Plant J. 17: 563-568.