Pathways Knowlegdes

Biological pathway database

Pathway DOIs Note
Adenine and Adenosine Salvage III

Accession ID: PathBank:SMP0002084		 -
Citrate Lyase Activation

Accession ID: PathBank:SMP0002087		 -
Acetate Metabolism

Accession ID: PathBank:SMP0002102		 -
Adenosine Nucleotides Degradation

Accession ID: PathBank:SMP0002103		 -
Metabolism and regulation

Accession ID: Plant Reactome:R-OAU-2744345		 -
Amino acid metabolism

Accession ID: Plant Reactome:R-OAU-2744343		 -
Canavanine biosynthesis

Accession ID: Plant Reactome:R-OAU-1119444		 -
Pantothenate biosynthesis II

Accession ID: Plant Reactome:R-OAU-1119544		 -
Fatty acid activation

Accession ID: Plant Reactome:R-OAU-1119623		 -
PRPP biosynthesis I

Accession ID: Plant Reactome:R-OAU-1119278		 -
Arginine biosynthesis I

Accession ID: Plant Reactome:R-CME-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-CME-1119354		 -
Tetrahydrofolate biosynthesis II

Accession ID: Plant Reactome:R-CME-1119523		 -
Arginine biosynthesis I

Accession ID: Plant Reactome:R-TAE-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-TAE-1119354		 -
Pantothenate biosynthesis I

Accession ID: Plant Reactome:R-TAE-1119496		 -
Tetrahydrofolate biosynthesis II

Accession ID: Plant Reactome:R-TAE-1119523		 -
Jasmonic acid signaling

Accession ID: Plant Reactome:R-TAE-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.
Secondary metabolism

Accession ID: Plant Reactome:R-TAE-2744344		 -
Citrulline-nitric oxide cycle

Accession ID: Plant Reactome:R-FVE-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.