Pathways Knowlegdes

Biological pathway database

Pathway DOIs Note
Amino acid biosynthesis

Accession ID: Plant Reactome:R-DRO-5655122		 -
Asparagine biosynthesis I

Accession ID: Plant Reactome:R-DRO-1119553
  • 10.1093/jxb/eru240
  • 10.1111/j.1365-3040.2012.02576.x
  • 10.1111/tpj.12476
 de la Torre F, Canas RA, Pascual MB, Avila C, Canovas FM. Plastidic aspartate aminotransferases and the biosynthesis of essential amino acids in plants. Journal of Experimental Botany. 2014 Jun 05;65(19):5527–34. doi: 10.1093/jxb/eru240.; Xia J, Yamaji N, Che J, Shen RF, Ma JF. Normal root elongation requires arginine produced by argininosuccinate lyase in rice. Plant J. 2014 Apr;78(2):215–26. doi: 10.1111/tpj.12476. PMID: 24528386.; Gaufichon L, Masclaux-Daubresse C, Tcherkez G, Reisdorf-Cren M, Sakakibara Y, Hase T, Clément G, Avice JC, Grandjean O, Marmagne A, Boutet-Mercey S, Azzopardi M, Soulay F, Suzuki A. Arabidopsis thaliana ASN2 encoding asparagine synthetase is involved in the control of nitrogen assimilation and export during vegetative growth. Plant Cell Environ. 2013 Feb;36(2):328–42. doi: 10.1111/j.1365-3040.2012.02576.x. PMID: 22789031.
NAD biosynthesis I (from aspartate)

Accession ID: Plant Reactome:R-DRO-1119384		 -
Jasmonic acid signaling

Accession ID: Plant Reactome:R-DRO-6787011
  • 10.1016/j.plantsci.2014.12.010
  • 10.1016/j.tplants.2015.02.001
  • 10.1093/aob/mct067
  • 10.1186/s12870-014-0341-0
  • 10.3389/fpls.2015.00170
 Kazan K. Diverse roles of jasmonates and ethylene in abiotic stress tolerance. Trends Plant Sci. 2015 Apr;20(4):219–29. doi: 10.1016/j.tplants.2015.02.001. PMID: 25731753.; Caarls L, Pieterse CMJ, Van Wees SCM. How salicylic acid takes transcriptional control over jasmonic acid signaling. Front. Plant Sci. 2015 Mar 25;6(). doi: 10.3389/fpls.2015.00170.; Wu H, Ye H, Yao R, Zhang T, Xiong L. OsJAZ9 acts as a transcriptional regulator in jasmonate signaling and modulates salt stress tolerance in rice. Plant Sci. 2015 Mar;232():1–12. doi: 10.1016/j.plantsci.2014.12.010. PMID: 25617318.; Pirrello J, Leclercq J, Dessailly F, Rio M, Piyatrakul P, Kuswanhadi K, Tang C, Montoro P. Transcriptional and post-transcriptional regulation of the jasmonate signalling pathway in response to abiotic and harvesting stress in Hevea brasiliensis. BMC Plant Biology. 2014 Dec 02;14(1):341. doi: 10.1186/s12870-014-0341-0.; Wasternack C, Hause B. Jasmonates: biosynthesis, perception, signal transduction and action in plant stress response, growth and development. An update to the 2007 review in Annals of Botany. Ann Bot. 2013 Jun;111(6):1021–58. PMID: 23558912; PMCID: PMC3662512.
Canavanine biosynthesis

Accession ID: Plant Reactome:R-OGU-1119444		 -
NAD biosynthesis I (from aspartate)

Accession ID: Plant Reactome:R-OGU-1119384		 -
Folate biosynthesis

Accession ID: Plant Reactome:R-OGU-1119265		 -
Hormone signaling, transport, and metabolism

Accession ID: Plant Reactome:R-OGU-2744341		 -
Suberin biosynthesis

Accession ID: Plant Reactome:R-OGU-1119418		 -
Fatty acid and lipid metabolism

Accession ID: Plant Reactome:R-OGU-3906998		 -
Nucleotide metabolism

Accession ID: Plant Reactome:R-OGU-5655149		 -
Citrulline-nitric oxide cycle

Accession ID: Plant Reactome:R-OMI-5633340
  • 10.1016/j.tplants.2010.11.007
  • 10.1105/tpc.109.073510
 Gupta KJ, Fernie AR, Kaiser WM, van Dongen JT. On the origins of nitric oxide. Trends Plant Sci. 2011 Mar;16(3):160–8. doi: 10.1016/j.tplants.2010.11.007. PMID: 21185769.; Foresi N, Correa-Aragunde N, Parisi G, Caló G, Salerno G, Lamattina L. Characterization of a nitric oxide synthase from the plant kingdom: NO generation from the green alga Ostreococcus tauri is light irradiance and growth phase dependent. Plant Cell. 2010 Nov;22(11):3816–30. PMID: 21119059; PMCID: PMC3015112.
Amino acid biosynthesis

Accession ID: Plant Reactome:R-OMI-5655122		 -
Arginine biosynthesis I

Accession ID: Plant Reactome:R-OMI-1119263
  • 10.1016/j.plaphy.2005.06.007
  • 10.1111/tpj.12476
  • 10.4161/psb.28717
 Xia J, Yamaji N, Ma JF. An appropriate concentration of arginine is required for normal root growth in rice. Plant Signaling & Behavior. 2014 Apr;9(4):e28717. doi: 10.4161/psb.28717.; Xia J, Yamaji N, Che J, Shen RF, Ma JF. Normal root elongation requires arginine produced by argininosuccinate lyase in rice. Plant J. 2014 Apr;78(2):215–26. doi: 10.1111/tpj.12476. PMID: 24528386.; Slocum RD. Genes, enzymes and regulation of arginine biosynthesis in plants. Plant Physiol Biochem. 2005 Aug;43(8):729–45. doi: 10.1016/j.plaphy.2005.06.007. PMID: 16122935.
Asparagine biosynthesis III

Accession ID: Plant Reactome:R-OMI-1119354		 -
Pantothenate biosynthesis II

Accession ID: Plant Reactome:R-OMI-1119544		 -
Jasmonic acid signaling

Accession ID: Plant Reactome:R-OMI-6787011
  • 10.1016/j.plantsci.2014.12.010
  • 10.1016/j.tplants.2015.02.001
  • 10.1093/aob/mct067
  • 10.1186/s12870-014-0341-0
  • 10.3389/fpls.2015.00170
 Kazan K. Diverse roles of jasmonates and ethylene in abiotic stress tolerance. Trends Plant Sci. 2015 Apr;20(4):219–29. doi: 10.1016/j.tplants.2015.02.001. PMID: 25731753.; Caarls L, Pieterse CMJ, Van Wees SCM. How salicylic acid takes transcriptional control over jasmonic acid signaling. Front. Plant Sci. 2015 Mar 25;6(). doi: 10.3389/fpls.2015.00170.; Wu H, Ye H, Yao R, Zhang T, Xiong L. OsJAZ9 acts as a transcriptional regulator in jasmonate signaling and modulates salt stress tolerance in rice. Plant Sci. 2015 Mar;232():1–12. doi: 10.1016/j.plantsci.2014.12.010. PMID: 25617318.; Pirrello J, Leclercq J, Dessailly F, Rio M, Piyatrakul P, Kuswanhadi K, Tang C, Montoro P. Transcriptional and post-transcriptional regulation of the jasmonate signalling pathway in response to abiotic and harvesting stress in Hevea brasiliensis. BMC Plant Biology. 2014 Dec 02;14(1):341. doi: 10.1186/s12870-014-0341-0.; Wasternack C, Hause B. Jasmonates: biosynthesis, perception, signal transduction and action in plant stress response, growth and development. An update to the 2007 review in Annals of Botany. Ann Bot. 2013 Jun;111(6):1021–58. PMID: 23558912; PMCID: PMC3662512.
Arginine biosynthesis I

Accession ID: Plant Reactome:R-GSU-1119263
  • 10.1016/j.plaphy.2005.06.007
  • 10.1111/tpj.12476
  • 10.4161/psb.28717
 Xia J, Yamaji N, Ma JF. An appropriate concentration of arginine is required for normal root growth in rice. Plant Signaling & Behavior. 2014 Apr;9(4):e28717. doi: 10.4161/psb.28717.; Xia J, Yamaji N, Che J, Shen RF, Ma JF. Normal root elongation requires arginine produced by argininosuccinate lyase in rice. Plant J. 2014 Apr;78(2):215–26. doi: 10.1111/tpj.12476. PMID: 24528386.; Slocum RD. Genes, enzymes and regulation of arginine biosynthesis in plants. Plant Physiol Biochem. 2005 Aug;43(8):729–45. doi: 10.1016/j.plaphy.2005.06.007. PMID: 16122935.
Asparagine biosynthesis III

Accession ID: Plant Reactome:R-GSU-1119354		 -
Nucleotide metabolism

Accession ID: Plant Reactome:R-GSU-5655149		 -