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Items: 1 to 50 of 134

1.

Computational analysis of the productivity potential of CAM.

Shameer S, Baghalian K, Cheung CYM, Ratcliffe RG, Sweetlove LJ.

Nat Plants. 2018 Mar;4(3):165-171. doi: 10.1038/s41477-018-0112-2. Epub 2018 Feb 26.

PMID:
29483685
2.

Cell-Type Specific Metabolic Flux Analysis: A Challenge for Metabolic Phenotyping and a Potential Solution in Plants.

Rossi MT, Kalde M, Srisakvarakul C, Kruger NJ, Ratcliffe RG.

Metabolites. 2017 Nov 13;7(4). pii: E59. doi: 10.3390/metabo7040059.

3.

Limited Efficacy of Caffeine and Recovery Costs During and Following 5 Days of Chronic Sleep Restriction.

Doty TJ, So CJ, Bergman EM, Trach SK, Ratcliffe RH, Yarnell AM, Capaldi VF 2nd, Moon JE, Balkin TJ, Quartana PJ.

Sleep. 2017 Dec 1;40(12). doi: 10.1093/sleep/zsx171.

PMID:
29029309
4.

Assessing Metabolic Flux in Plants with Radiorespirometry.

Kruger NJ, Masakapalli SK, Ratcliffe RG.

Methods Mol Biol. 2017;1670:1-16. doi: 10.1007/978-1-4939-7292-0_1.

PMID:
28871529
5.

Protein-protein interactions and metabolite channelling in the plant tricarboxylic acid cycle.

Zhang Y, Beard KFM, Swart C, Bergmann S, Krahnert I, Nikoloski Z, Graf A, Ratcliffe RG, Sweetlove LJ, Fernie AR, Obata T.

Nat Commun. 2017 May 16;8:15212. doi: 10.1038/ncomms15212.

6.

Nitrite Protects Mitochondrial Structure and Function under Hypoxia.

Gupta KJ, Lee CP, Ratcliffe RG.

Plant Cell Physiol. 2017 Jan 1;58(1):175-183. doi: 10.1093/pcp/pcw174.

PMID:
28007968
7.

GABA (γ-Aminobutyric Acid) Uptake Via the GABA Permease GabP Represses Virulence Gene Expression in Pseudomonas syringae pv. tomato DC3000.

McCraw SL, Park DH, Jones R, Bentley MA, Rico A, Ratcliffe RG, Kruger NJ, Collmer A, Preston GM.

Mol Plant Microbe Interact. 2016 Dec;29(12):938-949. doi: 10.1094/MPMI-08-16-0172-R. Epub 2016 Dec 21.

8.

Lipogenesis and Redox Balance in Nitrogen-Fixing Pea Bacteroids.

Terpolilli JJ, Masakapalli SK, Karunakaran R, Webb IU, Green R, Watmough NJ, Kruger NJ, Ratcliffe RG, Poole PS.

J Bacteriol. 2016 Sep 22;198(20):2864-75. doi: 10.1128/JB.00451-16. Print 2016 Oct 15.

9.

A Method of Accounting for Enzyme Costs in Flux Balance Analysis Reveals Alternative Pathways and Metabolite Stores in an Illuminated Arabidopsis Leaf.

Cheung CY, Ratcliffe RG, Sweetlove LJ.

Plant Physiol. 2015 Nov;169(3):1671-82. doi: 10.1104/pp.15.00880. Epub 2015 Aug 11.

10.

Nitric oxide induces the alternative oxidase pathway in Arabidopsis seedlings deprived of inorganic phosphate.

Royo B, Moran JF, Ratcliffe RG, Gupta KJ.

J Exp Bot. 2015 Oct;66(20):6273-80. doi: 10.1093/jxb/erv338. Epub 2015 Jul 10.

11.

Fluxes through plant metabolic networks: measurements, predictions, insights and challenges.

Kruger NJ, Ratcliffe RG.

Biochem J. 2015 Jan 1;465(1):27-38. doi: 10.1042/BJ20140984. Review.

PMID:
25631681
12.

Discovery of non-oxime reactivators using an in silico pharmacophore model of reactivators for DFP-inhibited acetylcholinesterase.

Bhattacharjee AK, Marek E, Le HT, Ratcliffe R, DeMar JC, Pervitsky D, Gordon RK.

Eur J Med Chem. 2015 Jan 27;90:209-20. doi: 10.1016/j.ejmech.2014.11.013. Epub 2014 Nov 6.

PMID:
25461321
13.

Guarding the guard cells?

Gupta KJ, Mur LA, Ratcliffe RG.

New Phytol. 2014 Jul;203(2):349-51. doi: 10.1111/nph.12882. No abstract available.

14.
15.

Editorial overview: Synthetic plant biology: the roots of a bio-based society.

Møller BL, Ratcliffe RG.

Curr Opin Biotechnol. 2014 Apr;26:ix-xvi. doi: 10.1016/j.copbio.2014.02.016. Epub 2014 Mar 16. No abstract available.

PMID:
24641960
16.

A Diel Flux Balance Model Captures Interactions between Light and Dark Metabolism during Day-Night Cycles in C3 and Crassulacean Acid Metabolism Leaves.

Cheung CY, Poolman MG, Fell DA, Ratcliffe RG, Sweetlove LJ.

Plant Physiol. 2014 Jun;165(2):917-929. Epub 2014 Mar 4.

17.

Plant mitochondria: source and target for nitric oxide.

Igamberdiev AU, Ratcliffe RG, Gupta KJ.

Mitochondrion. 2014 Nov;19 Pt B:329-33. doi: 10.1016/j.mito.2014.02.003. Epub 2014 Feb 19. Review.

PMID:
24561220
18.

Metabolic flux phenotype of tobacco hairy roots engineered for increased geraniol production.

Masakapalli SK, Ritala A, Dong L, van der Krol AR, Oksman-Caldentey KM, Ratcliffe RG, Sweetlove LJ.

Phytochemistry. 2014 Mar;99:73-85. doi: 10.1016/j.phytochem.2013.12.007. Epub 2014 Jan 25.

PMID:
24472392
19.

Quantification of ¹³C enrichments and isotopomer abundances for metabolic flux analysis using 1D NMR spectroscopy.

Masakapalli SK, Ratcliffe RG, Williams TC.

Methods Mol Biol. 2014;1090:73-86. doi: 10.1007/978-1-62703-688-7_5.

PMID:
24222410
20.

Optimization of steady-state ¹³C-labeling experiments for metabolic flux analysis.

Kruger NJ, Masakapalli SK, Ratcliffe RG.

Methods Mol Biol. 2014;1090:53-72. doi: 10.1007/978-1-62703-688-7_4.

PMID:
24222409
21.

A method for accounting for maintenance costs in flux balance analysis improves the prediction of plant cell metabolic phenotypes under stress conditions.

Cheung CY, Williams TC, Poolman MG, Fell DA, Ratcliffe RG, Sweetlove LJ.

Plant J. 2013 Sep;75(6):1050-61. doi: 10.1111/tpj.12252. Epub 2013 Aug 6.

22.

Modelling metabolic CO₂ evolution--a fresh perspective on respiration.

Sweetlove LJ, Williams TC, Cheung CY, Ratcliffe RG.

Plant Cell Environ. 2013 Sep;36(9):1631-40. doi: 10.1111/pce.12105. Epub 2013 May 6.

23.

The metabolic flux phenotype of heterotrophic Arabidopsis cells reveals a complex response to changes in nitrogen supply.

Masakapalli SK, Kruger NJ, Ratcliffe RG.

Plant J. 2013 May;74(4):569-82. doi: 10.1111/tpj.12142. Epub 2013 Feb 28.

24.

Metabolic engineering of tomato fruit organic acid content guided by biochemical analysis of an introgression line.

Morgan MJ, Osorio S, Gehl B, Baxter CJ, Kruger NJ, Ratcliffe RG, Fernie AR, Sweetlove LJ.

Plant Physiol. 2013 Jan;161(1):397-407. doi: 10.1104/pp.112.209619. Epub 2012 Nov 19.

25.

Mitochondrial cysteine synthase complex regulates O-acetylserine biosynthesis in plants.

Wirtz M, Beard KF, Lee CP, Boltz A, Schwarzländer M, Fuchs C, Meyer AJ, Heeg C, Sweetlove LJ, Ratcliffe RG, Hell R.

J Biol Chem. 2012 Aug 10;287(33):27941-7. doi: 10.1074/jbc.M112.372656. Epub 2012 Jun 22.

26.

Pathways and fluxes: exploring the plant metabolic network.

Kruger NJ, Ratcliffe RG.

J Exp Bot. 2012 Mar;63(6):2243-6. doi: 10.1093/jxb/ers073. Epub 2012 Mar 9.

PMID:
22407647
27.

Strategies for investigating the plant metabolic network with steady-state metabolic flux analysis: lessons from an Arabidopsis cell culture and other systems.

Kruger NJ, Masakapalli SK, Ratcliffe RG.

J Exp Bot. 2012 Mar;63(6):2309-23. doi: 10.1093/jxb/err382. Epub 2011 Dec 3. Review.

PMID:
22140245
28.

Capturing metabolite channeling in metabolic flux phenotypes.

Williams TC, Sweetlove LJ, Ratcliffe RG.

Plant Physiol. 2011 Nov;157(3):981-4. doi: 10.1104/pp.111.184887. Epub 2011 Sep 6. No abstract available.

29.

¹³C metabolic flux analysis identifies an unusual route for pyruvate dissimilation in mycobacteria which requires isocitrate lyase and carbon dioxide fixation.

Beste DJ, Bonde B, Hawkins N, Ward JL, Beale MH, Noack S, Nöh K, Kruger NJ, Ratcliffe RG, McFadden J.

PLoS Pathog. 2011 Jul;7(7):e1002091. doi: 10.1371/journal.ppat.1002091. Epub 2011 Jul 21.

30.

Deamination role of inducible glutamate dehydrogenase isoenzyme 7 in Brassica napus leaf protoplasts.

Watanabe M, Yumi O, Itoh Y, Yasuda K, Kamachi K, Ratcliffe RG.

Phytochemistry. 2011 May;72(7):587-93. doi: 10.1016/j.phytochem.2011.01.031. Epub 2011 Feb 24.

PMID:
21353684
31.

Flux-balance modeling of plant metabolism.

Sweetlove LJ, Ratcliffe RG.

Front Plant Sci. 2011 Aug 11;2:38. doi: 10.3389/fpls.2011.00038. eCollection 2011.

32.

A genome-scale metabolic model accurately predicts fluxes in central carbon metabolism under stress conditions.

Williams TC, Poolman MG, Howden AJ, Schwarzlander M, Fell DA, Ratcliffe RG, Sweetlove LJ.

Plant Physiol. 2010 Sep;154(1):311-23. doi: 10.1104/pp.110.158535. Epub 2010 Jul 6.

33.

Not just a circle: flux modes in the plant TCA cycle.

Sweetlove LJ, Beard KF, Nunes-Nesi A, Fernie AR, Ratcliffe RG.

Trends Plant Sci. 2010 Aug;15(8):462-70. doi: 10.1016/j.tplants.2010.05.006. Epub 2010 Jun 16. Review.

PMID:
20554469
34.

Pro-2-PAM therapy for central and peripheral cholinesterases.

Demar JC, Clarkson ED, Ratcliffe RH, Campbell AJ, Thangavelu SG, Herdman CA, Leader H, Schulz SM, Marek E, Medynets MA, Ku TC, Evans SA, Khan FA, Owens RR, Nambiar MP, Gordon RK.

Chem Biol Interact. 2010 Sep 6;187(1-3):191-8. doi: 10.1016/j.cbi.2010.02.015. Epub 2010 Feb 13.

35.

Subcellular flux analysis of central metabolism in a heterotrophic Arabidopsis cell suspension using steady-state stable isotope labeling.

Masakapalli SK, Le Lay P, Huddleston JE, Pollock NL, Kruger NJ, Ratcliffe RG.

Plant Physiol. 2010 Feb;152(2):602-19. doi: 10.1104/pp.109.151316. Epub 2009 Nov 25.

36.

Insights into plant metabolic networks from steady-state metabolic flux analysis.

Kruger NJ, Ratcliffe RG.

Biochimie. 2009 Jun;91(6):697-702. doi: 10.1016/j.biochi.2009.01.004. Review.

PMID:
19455743
37.

Response of cytoplasmic pH to anoxia in plant tissues with altered activities of fermentation enzymes: application of methyl phosphonate as an NMR pH probe.

Couldwell DL, Dunford R, Kruger NJ, Lloyd DC, Ratcliffe RG, Smith AM.

Ann Bot. 2009 Jan;103(2):249-58. doi: 10.1093/aob/mcn174. Epub 2008 Sep 29.

38.

Metabolic network fluxes in heterotrophic Arabidopsis cells: stability of the flux distribution under different oxygenation conditions.

Williams TC, Miguet L, Masakapalli SK, Kruger NJ, Sweetlove LJ, Ratcliffe RG.

Plant Physiol. 2008 Oct;148(2):704-18. doi: 10.1104/pp.108.125195. Epub 2008 Jul 30.

39.

[+]-Huperzine A treatment protects against N-methyl-D-aspartate-induced seizure/status epilepticus in rats.

Coleman BR, Ratcliffe RH, Oguntayo SA, Shi X, Doctor BP, Gordon RK, Nambiar MP.

Chem Biol Interact. 2008 Sep 25;175(1-3):387-95. doi: 10.1016/j.cbi.2008.05.023. Epub 2008 May 23.

PMID:
18588864
40.

1H NMR metabolite fingerprinting and metabolomic analysis of perchloric acid extracts from plant tissues.

Kruger NJ, Troncoso-Ponce MA, Ratcliffe RG.

Nat Protoc. 2008;3(6):1001-12. doi: 10.1038/nprot.2008.64.

PMID:
18536647
41.

Decrease in manganese superoxide dismutase leads to reduced root growth and affects tricarboxylic acid cycle flux and mitochondrial redox homeostasis.

Morgan MJ, Lehmann M, Schwarzländer M, Baxter CJ, Sienkiewicz-Porzucek A, Williams TC, Schauer N, Fernie AR, Fricker MD, Ratcliffe RG, Sweetlove LJ, Finkemeier I.

Plant Physiol. 2008 May;147(1):101-14. doi: 10.1104/pp.107.113613. Epub 2008 Mar 12.

42.

Glycolytic enzymes associate dynamically with mitochondria in response to respiratory demand and support substrate channeling.

Graham JW, Williams TC, Morgan M, Fernie AR, Ratcliffe RG, Sweetlove LJ.

Plant Cell. 2007 Nov;19(11):3723-38. Epub 2007 Nov 2.

43.

Dynamic metabolic networks: going with the flow.

Kruger NJ, Ratcliffe RG.

Phytochemistry. 2007 Aug-Sep;68(16-18):2136-8. Epub 2007 Jun 11. No abstract available.

PMID:
17561178
44.

A rapid cation-exchange HPLC method for detection and quantification of pyridinium oximes in plasma and tissue.

Singh H, Moorad-Doctor D, Ratcliffe RH, Wachtel K, Castillo A, Garcia GE.

J Anal Toxicol. 2007 Mar;31(2):69-74.

PMID:
17536740
45.

Vacuolar compartmentation complicates the steady-state analysis of glucose metabolism and forces reappraisal of sucrose cycling in plants.

Kruger NJ, Le Lay P, Ratcliffe RG.

Phytochemistry. 2007 Aug-Sep;68(16-18):2189-96. Epub 2007 May 23.

PMID:
17524437
46.

Network flux analysis: impact of 13C-substrates on metabolism in Arabidopsis thaliana cell suspension cultures.

Kruger NJ, Huddleston JE, Le Lay P, Brown ND, Ratcliffe RG.

Phytochemistry. 2007 Aug-Sep;68(16-18):2176-88. Epub 2007 May 17.

PMID:
17499825
47.

Deficiency of mitochondrial fumarase activity in tomato plants impairs photosynthesis via an effect on stomatal function.

Nunes-Nesi A, Carrari F, Gibon Y, Sulpice R, Lytovchenko A, Fisahn J, Graham J, Ratcliffe RG, Sweetlove LJ, Fernie AR.

Plant J. 2007 Jun;50(6):1093-106. Epub 2007 Apr 25.

48.

Nitrite reduces cytoplasmic acidosis under anoxia.

Libourel IG, van Bodegom PM, Fricker MD, Ratcliffe RG.

Plant Physiol. 2006 Dec;142(4):1710-7. Epub 2006 Oct 27.

49.

The response of carbohydrate metabolism in potato tubers to low temperature.

Malone JG, Mittova V, Ratcliffe RG, Kruger NJ.

Plant Cell Physiol. 2006 Sep;47(9):1309-22. Epub 2006 Aug 27.

PMID:
16936336
50.

Development of a rat pilocarpine model of seizure/status epilepticus that mimics chemical warfare nerve agent exposure.

Tetz LM, Rezk PE, Ratcliffe RH, Gordon RK, Steele KE, Nambiar MP.

Toxicol Ind Health. 2006 Jul;22(6):255-66.

PMID:
16924957

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