Linked gene networks involved in nitrogen and carbon metabolism and levels of water-soluble carbohydrate accumulation in wheat stems

Functional and Integrative Genomics

Volumn 11, Issue 4, 2011, Pages 585-597

  McIntyre, C Lynne ^a   Casu, Rosanne E ^a   Rattey, Allan ^a   Dreccer, M Fernanda ^b   Kam, Jason W ^a   Van Herwaarden, Anthony F ^a   Shorter, Ray ^a   Xue, Gang Ping ^a  

^a CSIRO   (Australia)

^b UNIVERSITY OF QUEENSLAND   (Australia)

Author keywords

Candidate genes; Drought; Fructan; Gene expression; Gene network; Nitrogen

Indexed keywords

CARBOHYDRATE; CARBON; NITROGEN;

ARTICLE; BIOACCUMULATION; CARBOHYDRATE ANALYSIS; CARBON METABOLISM; CONTROLLED STUDY; DOWN REGULATION; GENE EXPRESSION REGULATION; GENE FUNCTION; GENE IDENTIFICATION; GENE REGULATORY NETWORK; GENETIC ASSOCIATION; GENETIC LINE; GENETIC LINKAGE; GENETIC VARIABILITY; GENOME ANALYSIS; MOLECULAR INTERACTION; NITROGEN METABOLISM; NONHUMAN; PHENOTYPE; PLANT STEM; PRIORITY JOURNAL; UPREGULATION; WHEAT;

CARBOHYDRATE METABOLISM; CARBON; EPISTASIS, GENETIC; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, PLANT; GENE REGULATORY NETWORKS; GENOME-WIDE ASSOCIATION STUDY; NITROGEN; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PHENOTYPE; PLANT STEMS; SOLUBILITY; TRITICUM; WATER;

TRITICUM AESTIVUM;

EID: 84855708971     PISSN: 1438793X     EISSN: 14387948     Source Type: Journal    
DOI: 10.1007/s10142-011-0232-5     Document Type: Article

References (42)

1. Bauwe H, Kolukisaoglu U (2003) Genetic manipulation of glycine decarboxylation. J Exp Bot 54:1523-1535 (Pubitemid 36658650)
2. Bhuiyan NH, Liu WP, Liu GS, Selvaraj G, Wei YD, King J (2007) Transcriptional regulation of genes involved in the pathways of biosynthesis and supply of methyl units in response to powdery mildew attack and abiotic stresses in wheat. Plant Mol Biol 64:305-318 (Pubitemid 46663197)
3. Chalmers J, Lidgett A, Cummings N, Yingying C, Forster J, Spangenberg G (2005) Molecular genetics of fructan metabolism in perennial ryegrass. Plant Biotechnol J 3:459-474 (Pubitemid 44944501)
4. De la Torre F, Suarez MF, de Santis L, Canovas FM (2007) The aspartate aminotransferase family in conifers: Biochemical analysis of a prokaryotic-type enzyme from maritime pine. Tree Phys 27:1283-1291 (Pubitemid 47359950)
5. Dreccer MF, van Herwaarden AF, Chapman S (2009) Grain number and grain weight in lines contrasting for stem soluble carbohydrate concentration. Field Crops Research 112:43-54
6. Duggan BL, Richards RA, van Herwaarden AF (2005) Agronomic evaluation of a tiller inhibition gene (tin) in wheat. II. Growth and partitioning of assimilate. Aust J Agric Res 56:179-186 (Pubitemid 40554822)
7. Foulkes MJ, Scott RK, Sylvester-Bradley R (2002) The ability of wheat cultivars to withstand drought in UK conditions: Formation of grain yield. Journal of Agricultural Science 138:153-169 (Pubitemid 41150759)
8. Gao Z, Keeling P, Shibles R, Guan HP (2004) Involvement of lysine- 193 of the conserved "K-T-G-G" motif in the catalysis of maize starch synthase IIa. Archives of Biochem Biophys 427:1-7 (Pubitemid 38725908)
9. Gebbing T, Schnyder H, Kuhbauch W (1999) The utilization of preanthesis reserves in grain filling of wheat. Assessment by steadystate(CO2)-C-13/(CO2)-C- 12 labelling. Plant Cell Environ 22:851-858 (Pubitemid 29350886)
10. Gonzaźlez-Verdejo CI, Die JV, Nadal S, Di Pietro A, Barandiaran X, Cubero JI, Romaźn B (2008) Isolation and expression analysis of a cobalamin-independent methionine synthase gene from the parasitic plant Orobanche ramosa. Scientia Horticulturae 116:337-341
11. Gutierrez RA, Lejay L, Dean A, Chiaromonte F, Shash DE, Coruzzi GM (2007) Qualitative network models and genome-wide expression data define carbon/nitrogen-responsive molecular machines in Arabidopsis. Genome Biol 8:R7
12. John RA (1995) Pyridoxal phosphate-dependent enzymes. Biochem Biophys Acta 1248:81-96
13. Judel GK, Mengel K (1982) Effect of shading on non-structural carbohydrates and their turnover in culms and leaves during the grain filling period of spring wheat. Crop Sci 22:958-962
14. Kuhn M, Szklarczyk D, Franceschini A, Campillos M, von Mering C, Jensen LJ, Beyer A, Bork P (2010) STITCH 2: An interaction network database for small molecules and proteins. Nucleic Acids Res 38(suppl 1):D552-D556
15. Matt P, Krapp A, Haake V, Mock HP, Stitt M (2002) Decreased Rubisco activity leads to dramatic changes of nitrate metabolism, amino acid metabolism and the levels of phenylpropanoids and nicotine in tobacco antisense RBCS transformants. Plant J 30:663-677 (Pubitemid 34696059)
16. McGrath VB, Blakeney AB, Batten GD (1997) Fructan to nitrogen ratio as an indicator of nutrient stress in what crops. New Phytol 136:145-152
17. Nunes-Nesi A, Fernie AR, Stitt M (2010) Metabolic signalling aspects underpinning the regulation of plant carbon nitrogen interactions. Mol Plant 3:973-996
18. Olivares-Villegas JJ, Reynolds MP, McDonald GK (2007) Droughtadaptive attributes in the Seri/Babax hexaploid wheat population. Funct Plant Biol 34:189-203 (Pubitemid 46465966)
19. R Development Core Team (2006) R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna
20. Rattey A, Shorter R (2010) Evaluation of CIMMYT conventional and synthetic spring wheat germplasm in rainfed sub-tropical environments. I. Grain yield. Field Crop Research 118:273-281
21. Rattey A, Shorter R, Chapman S, Dreccer F, van Herwaarden A(2009) Variation for and relationships among biomass and grain yield component traits conferring improved yield and grain weight in an elite wheat population grown in variable yield environments. Crop & Pasture Science 60:717-729
22. Rebetzke GJ, van Herwaarden AF, Jenkins C, Weiss M, Lewis D, Ruuska S, Tabe L, Fettell NA, Richards RA (2008) Quantitative trait loci for water-soluble carbohydrates and associations with agronomic traits in wheat. Aust J Agric Res 59:891-905
23. Ruuska SA, Rebetzke GJ, van Herwaarden AF, Richards RA, Fettell NA, Tabe L, Jenkins CLD (2006) Genotypic variation in watersoluble carbohydrate accumulation in wheat. Funct Plant Biol 33:799-809 (Pubitemid 44350575)
24. Ruuska SA, Lewis DC, Kennedy G, Furbank RT, Jenkins CLD, Tabe LM (2008) Large scale transcriptome analysis of the effects of nitrogen nutrition on accumulation of stem carbohydrate reserves in reproductive stage wheat. Plant Mol Biol 66:15-32 (Pubitemid 350265684)
25. Schnyder H (1993) The role of carbohydrate storage and redistribution in the source-sink relations of wheat and barley during grain filling-a review. New Phytol 123:233-245
26. Scofield GN, Ruuska SA, Aoki N, Lewis DC, Tabe LM, Jenkins CD(2009) Starch storage in the stems of wheat plants: Localisation and temporal changes. Ann Bot 103:859-868
27. Smoot ME, Ono K, Ruscheinski J, Wang P-L, Ideker T (2011) Cytoscape 2.8: New features for data integration and network visualization. Bioinformatics 27:431-432
28. Teixeira AR, Davies DD (1974) The control of plant glutamate dehydrogenase by pyridoxal-5'-phosphate. Phytochemistry 13:2071-2079
29. Thimm O, Blaesing O, Gibon Y, Nagel A, Meyer S, Krüger P, Selbig J, Müller LA, Rhee SY, Stitt M (2004) MAPMAN: A user-driven tool to display genomics data sets onto diagrams of metabolic pathways and other biological processes. Plant J 37(6):914-939 (Pubitemid 38370342)
30. Usadel B, Nagel A, Thimm O, Redestig H, Blaesing OE, Palacios- Rojas N, Selbig J, Hannemann J, Piques MC, Steinhauser D, Scheible WR, Gibon Y, Morcuende R, Weicht D, Meyer S, Stitt M (2005) Extension of the visualization tool MapMan to allow statistical analysis of arrays, display of corresponding genes, and comparison with known responses. Plant Physiol 138(3):1195-1204 (Pubitemid 43142069)
31. Van den Ende W, Clerens S, Vergauwen R, Van Riet L, Van Laere A, Yoshida M, Kawakami A (2003) Fructan 1-exohydrolases. ß-(2,1)-trimmers during graminan biosynthesis in stems of wheat? Purification, characterisation, mass mapping and cloning of two fructan 1-exohydrolase isoforms. Plant Physiol 131:621-631 (Pubitemid 36219524)
32. van Herwaarden AF, Angus JF, Richards RA, Farquhar GD (1998Haying-off', the negative grain yield response of dryland wheat to nitrogen fertiliser II. Carbohydrate and protein dynamics. Aust J Agric Res 49:1083-1093 (Pubitemid 28443695)
33. van Herwaarden AF, Richards RA, Farquhar GD, Angus JF (1998Haying'off', the negative grainyield response of dryland wheat to nitrogen fertiliser III. The influence of water deficit and heat shock. Aust J Agric Res 49:1095-1110 (Pubitemid 28443696)
34. van Herwaarden A, Richards R, Angus J (2003) Water-soluble carbohydrates and yield in wheat. Solutions for a better environment: Proceedings of the 11th Australian Agronomy Conference, Geelong, Victoria, Australia, 2-6 February 2003, 0-4
35. Wang C, van den Ende W, Tillberg JE (2000) Fructan accumulation induced by nitrogen deficiency in barley leaves correlates with the level of sucros:fructan 6-fructosyltransferase mRNA. Planta 211:701-707
36. Welham SJ, Gogel BJ, Smith AB, Thomson R, Cullis B (2006) Evaluation of models for late-stage variety evaluation trials. Australasian GenStat/StatGen Conference, Victor Harbour, Australia, p 44
37. Xue GP, McIntyre CL, Glassop D, Shorter R (2008a) Use of expression analysis to dissect alterations in carbohydrate metabolism in wheat leaves during drought stress. Plant Mol Biol 67:197-214
38. Xue G-P, McIntyre CL, Jenkins CLD, Glassop D, van Herwaarden AF, Shorter R (2008b) Molecular dissection of variation in carbohydrate metabolism related to water-soluble carbohydrate accumulation in stems of wheat. Plant Physiol 146:441-454 (Pubitemid 351230773)
39. Yamada T, Matsuda F, Kasai K, Fukuoka S, Kitamura K, Tozawa Y, Miyagawa H, Wakasa K (2008) Mutation of a rice gene encoding a phenylalanine biosynthetic enzyme results in accumulation of phenylalanine and tryptophan. Plant Cell 20:1316-1329 (Pubitemid 352844185)
40. Yang J, Zhang J, Wang Z, Zhu Q, Liu L (2004) Activities of fructanand sucrose- metabolizing enzymes in wheat stems subjected to water stress during grain filling. Planta 220:331-343 (Pubitemid 40084191)
41. Yang DL, Jing RL, Chang XP, Li W (2007) Identification of quantitative trait loci and environmental interactions for accumulation and remobilization of water-soluble carbohydrates in wheat (Triticum aestivum L.) stems. Genetics 176:571-584 (Pubitemid 350027258)
42. Zhang J, Huang S, Fosu-Nyarko J, Dell B, McNeil M, Waters I, Moolhuijzen P, Conocono E, Appels R (2009) The genome structure of the 1-FEH genes in wheat (Triticum aestivum L.): New markers to track stem carbohydrates and grain filling QTLs in breeding. Mol Breeding 22:339-351