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Extracellular ATP shapes a defense-related transcriptome both independently and along with other defense signaling pathways.

Jewell JB, Sowders JM, He R, Willis MA, Gang DR, Tanaka K.

Plant Physiol. 2019 Jan 10. pii: pp.01301.2018. doi: 10.1104/pp.18.01301. [Epub ahead of print]


Biomolecular archaeology reveals ancient origins of indigenous tobacco smoking in North American Plateau.

Tushingham S, Snyder CM, Brownstein KJ, Damitio WJ, Gang DR.

Proc Natl Acad Sci U S A. 2018 Nov 13;115(46):11742-11747. doi: 10.1073/pnas.1813796115. Epub 2018 Oct 29.


Porcine Breast Extracellular Matrix Hydrogel for Spatial Tissue Culture.

Rijal G, Wang J, Yu I, Gang DR, Chen RK, Li W.

Int J Mol Sci. 2018 Sep 25;19(10). pii: E2912. doi: 10.3390/ijms19102912.


Production of methoxylated flavonoids in yeast using ring A hydroxylases and flavonoid O-methyltransferases from sweet basil.

Berim A, Gang DR.

Appl Microbiol Biotechnol. 2018 Jul;102(13):5585-5598. doi: 10.1007/s00253-018-9043-0. Epub 2018 Apr 28.


Biosynthetic Pathway and Metabolic Engineering of Plant Dihydrochalcones.

Ibdah M, Martens S, Gang DR.

J Agric Food Chem. 2018 Mar 14;66(10):2273-2280. doi: 10.1021/acs.jafc.7b04445. Epub 2017 Dec 11. Review.


Integrated analysis of zone-specific protein and metabolite profiles within nitrogen-fixing Medicago truncatula-Sinorhizobium medicae nodules.

Ogden AJ, Gargouri M, Park J, Gang DR, Kahn ML.

PLoS One. 2017 Jul 10;12(7):e0180894. doi: 10.1371/journal.pone.0180894. eCollection 2017.


Functional photosystem I maintains proper energy balance during nitrogen depletion in Chlamydomonas reinhardtii, promoting triacylglycerol accumulation.

Gargouri M, Bates PD, Park JJ, Kirchhoff H, Gang DR.

Biotechnol Biofuels. 2017 Apr 13;10:89. doi: 10.1186/s13068-017-0774-4. eCollection 2017.


A (-)-kolavenyl diphosphate synthase catalyzes the first step of salvinorin A biosynthesis in Salvia divinorum.

Chen X, Berim A, Dayan FE, Gang DR.

J Exp Bot. 2017 Feb 1;68(5):1109-1122. doi: 10.1093/jxb/erw493.


Production of the antibiotic secondary metabolite solanapyrone A by the fungal plant pathogen Ascochyta rabiei during fruiting body formation in saprobic growth.

Kim W, Park JJ, Dugan FM, Peever TL, Gang DR, Vandemark G, Chen W.

Environ Microbiol. 2017 May;19(5):1822-1835. doi: 10.1111/1462-2920.13673. Epub 2017 Feb 6.


Fecal Metabolome in Hmga1 Transgenic Mice with Polyposis: Evidence for Potential Screen for Early Detection of Precursor Lesions in Colorectal Cancer.

Williams MD, Xian L, Huso T, Park JJ, Huso D, Cope LM, Gang DR, Siems WF, Resar L, Reeves R, Hill HH Jr.

J Proteome Res. 2016 Dec 2;15(12):4176-4187. Epub 2016 Nov 4.


AMPK/α-Ketoglutarate Axis Dynamically Mediates DNA Demethylation in the Prdm16 Promoter and Brown Adipogenesis.

Yang Q, Liang X, Sun X, Zhang L, Fu X, Rogers CJ, Berim A, Zhang S, Wang S, Wang B, Foretz M, Viollet B, Gang DR, Rodgers BD, Zhu MJ, Du M.

Cell Metab. 2016 Oct 11;24(4):542-554. doi: 10.1016/j.cmet.2016.08.010. Epub 2016 Sep 15.


Use of metabolomics for the chemotaxonomy of legume-associated Ascochyta and allied genera.

Kim W, Peever TL, Park JJ, Park CM, Gang DR, Xian M, Davidson JA, Infantino A, Kaiser WJ, Chen W.

Sci Rep. 2016 Feb 5;6:20192. doi: 10.1038/srep20192.


A Novel Type Pathway-Specific Regulator and Dynamic Genome Environments of a Solanapyrone Biosynthesis Gene Cluster in the Fungus Ascochyta rabiei.

Kim W, Park JJ, Gang DR, Peever TL, Chen W.

Eukaryot Cell. 2015 Nov;14(11):1102-13. doi: 10.1128/EC.00084-15. Epub 2015 Sep 4.


Neutral red-mediated microbial electrosynthesis by Escherichia coli, Klebsiella pneumoniae, and Zymomonas mobilis.

Harrington TD, Mohamed A, Tran VN, Biria S, Gargouri M, Park JJ, Gang DR, Beyenal H.

Bioresour Technol. 2015 Nov;195:57-65. doi: 10.1016/j.biortech.2015.06.005. Epub 2015 Jun 11.


Asian Citrus Psyllid Expression Profiles Suggest Candidatus Liberibacter Asiaticus-Mediated Alteration of Adult Nutrition and Metabolism, and of Nymphal Development and Immunity.

Vyas M, Fisher TW, He R, Nelson W, Yin G, Cicero JM, Willer M, Kim R, Kramer R, May GA, Crow JA, Soderlund CA, Gang DR, Brown JK.

PLoS One. 2015 Jun 19;10(6):e0130328. doi: 10.1371/journal.pone.0130328. eCollection 2015.


Identification of regulatory network hubs that control lipid metabolism in Chlamydomonas reinhardtii.

Gargouri M, Park JJ, Holguin FO, Kim MJ, Wang H, Deshpande RR, Shachar-Hill Y, Hicks LM, Gang DR.

J Exp Bot. 2015 Aug;66(15):4551-66. doi: 10.1093/jxb/erv217. Epub 2015 May 28.


Colonization of epidermal tissue by Staphylococcus aureus produces localized hypoxia and stimulates secretion of antioxidant and caspase-14 proteins.

Lone AG, Atci E, Renslow R, Beyenal H, Noh S, Fransson B, Abu-Lail N, Park JJ, Gang DR, Call DR.

Infect Immun. 2015 Aug;83(8):3026-34. doi: 10.1128/IAI.00175-15. Epub 2015 May 18.


Characterizing metabolic changes in human colorectal cancer.

Williams MD, Zhang X, Park JJ, Siems WF, Gang DR, Resar LM, Reeves R, Hill HH Jr.

Anal Bioanal Chem. 2015 Jun;407(16):4581-95. doi: 10.1007/s00216-015-8662-x. Epub 2015 May 6.


Staphylococcus aureus induces hypoxia and cellular damage in porcine dermal explants.

Lone AG, Atci E, Renslow R, Beyenal H, Noh S, Fransson B, Abu-Lail N, Park JJ, Gang DR, Call DR.

Infect Immun. 2015 Jun;83(6):2531-41. doi: 10.1128/IAI.03075-14. Epub 2015 Apr 6.


Comparative proteomic analysis of developing rhizomes of the ancient vascular plant Equisetum hyemale and different monocot species.

Salvato F, Balbuena TS, Nelson W, Rao RS, He R, Soderlund CA, Gang DR, Thelen JJ.

J Proteome Res. 2015 Apr 3;14(4):1779-91. doi: 10.1021/pr501157w. Epub 2015 Mar 5.


HMGA1 drives metabolic reprogramming of intestinal epithelium during hyperproliferation, polyposis, and colorectal carcinogenesis.

Williams MD, Zhang X, Belton AS, Xian L, Huso T, Park JJ, Siems WF, Gang DR, Resar LM, Reeves R, Hill HH Jr.

J Proteome Res. 2015 Mar 6;14(3):1420-31. doi: 10.1021/pr501084s. Epub 2015 Feb 23.


Regulation of starch and lipid accumulation in a microalga Chlorella sorokiniana.

Li T, Gargouri M, Feng J, Park JJ, Gao D, Miao C, Dong T, Gang DR, Chen S.

Bioresour Technol. 2015 Mar;180:250-7. doi: 10.1016/j.biortech.2015.01.005. Epub 2015 Jan 9.


Determining the isomeric heterogeneity of neutral oligosaccharide-alditols of bovine submaxillary mucin using negative ion traveling wave ion mobility mass spectrometry.

Li H, Bendiak B, Siems WF, Gang DR, Hill HH Jr.

Anal Chem. 2015 Feb 17;87(4):2228-35. doi: 10.1021/ac503754k. Epub 2015 Jan 29.


Functional Analyses of the Diels-Alderase Gene sol5 of Ascochyta rabiei and Alternaria solani Indicate that the Solanapyrone Phytotoxins Are Not Required for Pathogenicity.

Kim W, Park CM, Park JJ, Akamatsu HO, Peever TL, Xian M, Gang DR, Vandemark G, Chen W.

Mol Plant Microbe Interact. 2015 Jan;2015(1):1-15.


The response of Chlamydomonas reinhardtii to nitrogen deprivation: a systems biology analysis.

Park JJ, Wang H, Gargouri M, Deshpande RR, Skepper JN, Holguin FO, Juergens MT, Shachar-Hill Y, Hicks LM, Gang DR.

Plant J. 2015 Feb;81(4):611-24. doi: 10.1111/tpj.12747.


The regulation of photosynthetic structure and function during nitrogen deprivation in Chlamydomonas reinhardtii.

Juergens MT, Deshpande RR, Lucker BF, Park JJ, Wang H, Gargouri M, Holguin FO, Disbrow B, Schaub T, Skepper JN, Kramer DM, Gang DR, Hicks LM, Shachar-Hill Y.

Plant Physiol. 2015 Feb;167(2):558-73. doi: 10.1104/pp.114.250530. Epub 2014 Dec 8.


Comparison of potato and asian citrus psyllid adult and nymph transcriptomes identified vector transcripts with potential involvement in circulative, propagative liberibacter transmission.

Fisher TW, Vyas M, He R, Nelson W, Cicero JM, Willer M, Kim R, Kramer R, May GA, Crow JA, Soderlund CA, Gang DR, Brown JK.

Pathogens. 2014 Nov 3;3(4):875-907. doi: 10.3390/pathogens3040875.


Identification of a unique 2-oxoglutarate-dependent flavone 7-O-demethylase completes the elucidation of the lipophilic flavone network in basil.

Berim A, Kim MJ, Gang DR.

Plant Cell Physiol. 2015 Jan;56(1):126-36. doi: 10.1093/pcp/pcu152. Epub 2014 Nov 6.


Functional Analyses of the Diels-Alderase Gene sol5 of Ascochyta rabiei and Alternaria solani Indicate that the Solanapyrone Phytotoxins Are Not Required for Pathogenicity.

Kim W, Park CM, Park JJ, Akamatsu HO, Peever TL, Xian M, Gang DR, Vandemark G, Chen W.

Mol Plant Microbe Interact. 2015 Apr;28(4):482-96. doi: 10.1094/MPMI-08-14-0234-R.


Identification and cloning of an NADPH-dependent hydroxycinnamoyl-CoA double bond reductase involved in dihydrochalcone formation in Malus×domestica Borkh.

Ibdah M, Berim A, Martens S, Valderrama AL, Palmieri L, Lewinsohn E, Gang DR.

Phytochemistry. 2014 Nov;107:24-31. doi: 10.1016/j.phytochem.2014.07.027. Epub 2014 Aug 21.


Unexpected roles for ancient proteins: flavone 8-hydroxylase in sweet basil trichomes is a Rieske-type, PAO-family oxygenase.

Berim A, Park JJ, Gang DR.

Plant J. 2014 Nov;80(3):385-95. doi: 10.1111/tpj.12642. Epub 2014 Sep 24.


Ion mobility mass spectrometry analysis of isomeric disaccharide precursor, product and cluster ions.

Li H, Bendiak B, Siems WF, Gang DR, Hill HH Jr.

Rapid Commun Mass Spectrom. 2013 Dec 15;27(23):2699-709. doi: 10.1002/rcm.6720.


A systems-wide comparison of red rice (Oryza longistaminata) tissues identifies rhizome specific genes and proteins that are targets for cultivated rice improvement.

He R, Salvato F, Park JJ, Kim MJ, Nelson W, Balbuena TS, Willer M, Crow JA, May GD, Soderlund CA, Thelen JJ, Gang DR.

BMC Plant Biol. 2014 Feb 12;14:46. doi: 10.1186/1471-2229-14-46.


The potato tuber mitochondrial proteome.

Salvato F, Havelund JF, Chen M, Rao RS, Rogowska-Wrzesinska A, Jensen ON, Gang DR, Thelen JJ, Møller IM.

Plant Physiol. 2014 Feb;164(2):637-53. doi: 10.1104/pp.113.229054. Epub 2013 Dec 18.


Characterization of a tryptophan 2-monooxygenase gene from Puccinia graminis f. sp. tritici involved in auxin biosynthesis and rust pathogenicity.

Yin C, Park JJ, Gang DR, Hulbert SH.

Mol Plant Microbe Interact. 2014 Mar;27(3):227-35. doi: 10.1094/MPMI-09-13-0289-FI.


Ion Mobility-Mass Correlation Trend Line Separation of Glycoprotein Digests without Deglycosylation.

Li H, Bendiak B, Siems WF, Gang DR, Hill HH Jr.

Int J Ion Mobil Spectrom. 2013 Jun 1;16(2):105-115.


TCW: transcriptome computational workbench.

Soderlund C, Nelson W, Willer M, Gang DR.

PLoS One. 2013 Jul 17;8(7):e69401. doi: 10.1371/journal.pone.0069401. Print 2013.


Characterization of two candidate flavone 8-O-methyltransferases suggests the existence of two potential routes to nevadensin in sweet basil.

Berim A, Gang DR.

Phytochemistry. 2013 Aug;92:33-41. doi: 10.1016/j.phytochem.2013.05.001. Epub 2013 Jun 6.


Genome of the long-living sacred lotus (Nelumbo nucifera Gaertn.).

Ming R, VanBuren R, Liu Y, Yang M, Han Y, Li LT, Zhang Q, Kim MJ, Schatz MC, Campbell M, Li J, Bowers JE, Tang H, Lyons E, Ferguson AA, Narzisi G, Nelson DR, Blaby-Haas CE, Gschwend AR, Jiao Y, Der JP, Zeng F, Han J, Min XJ, Hudson KA, Singh R, Grennan AK, Karpowicz SJ, Watling JR, Ito K, Robinson SA, Hudson ME, Yu Q, Mockler TC, Carroll A, Zheng Y, Sunkar R, Jia R, Chen N, Arro J, Wai CM, Wafula E, Spence A, Han Y, Xu L, Zhang J, Peery R, Haus MJ, Xiong W, Walsh JA, Wu J, Wang ML, Zhu YJ, Paull RE, Britt AB, Du C, Downie SR, Schuler MA, Michael TP, Long SP, Ort DR, Schopf JW, Gang DR, Jiang N, Yandell M, dePamphilis CW, Merchant SS, Paterson AH, Buchanan BB, Li S, Shen-Miller J.

Genome Biol. 2013 May 10;14(5):R41. doi: 10.1186/gb-2013-14-5-r41.


Inhibition of hydroxycinnamoyl-CoA thioesterases in ginger (Zingiber officinale Rosc.) and turmeric (Curcuma longa L.) by lipase inhibitors.

Flores-Sanchez IJ, Gang DR.

Plant Physiol Biochem. 2013 Nov;72:46-53. doi: 10.1016/j.plaphy.2013.02.012. Epub 2013 Mar 5.


Ginger and turmeric expressed sequence tags identify signature genes for rhizome identity and development and the biosynthesis of curcuminoids, gingerols and terpenoids.

Koo HJ, McDowell ET, Ma X, Greer KA, Kapteyn J, Xie Z, Descour A, Kim H, Yu Y, Kudrna D, Wing RA, Soderlund CA, Gang DR.

BMC Plant Biol. 2013 Feb 15;13:27. doi: 10.1186/1471-2229-13-27.


Carbohydrate structure characterization by tandem ion mobility mass spectrometry (IMMS)2.

Li H, Bendiak B, Siems WF, Gang DR, Hill HH Jr.

Anal Chem. 2013 Mar 5;85(5):2760-9. doi: 10.1021/ac303273z. Epub 2013 Feb 20.


Production of huperzine A and other Lycopodium alkaloids in Huperzia species grown under controlled conditions and in vitro.

Ishiuchi K, Park JJ, Long RM, Gang DR.

Phytochemistry. 2013 Jul;91:208-19. doi: 10.1016/j.phytochem.2012.11.012. Epub 2013 Jan 7.


Suites of terpene synthases explain differential terpenoid production in ginger and turmeric tissues.

Koo HJ, Gang DR.

PLoS One. 2012;7(12):e51481. doi: 10.1371/journal.pone.0051481. Epub 2012 Dec 18.


The roles of a flavone-6-hydroxylase and 7-O-demethylation in the flavone biosynthetic network of sweet basil.

Berim A, Gang DR.

J Biol Chem. 2013 Jan 18;288(3):1795-805. doi: 10.1074/jbc.M112.420448. Epub 2012 Nov 26.


A set of regioselective O-methyltransferases gives rise to the complex pattern of methoxylated flavones in sweet basil.

Berim A, Hyatt DC, Gang DR.

Plant Physiol. 2012 Oct;160(2):1052-69. doi: 10.1104/pp.112.204164. Epub 2012 Aug 24.


A SABATH Methyltransferase from the moss Physcomitrella patens catalyzes S-methylation of thiols and has a role in detoxification.

Zhao N, Ferrer JL, Moon HS, Kapteyn J, Zhuang X, Hasebe M, Stewart CN Jr, Gang DR, Chen F.

Phytochemistry. 2012 Sep;81:31-41. doi: 10.1016/j.phytochem.2012.06.011. Epub 2012 Jul 13.


Large-scale proteome comparative analysis of developing rhizomes of the ancient vascular plant equisetum hyemale.

Balbuena TS, He R, Salvato F, Gang DR, Thelen JJ.

Front Plant Sci. 2012 Jun 26;3:131. doi: 10.3389/fpls.2012.00131. eCollection 2012.


An elm EST database for identifying leaf beetle egg-induced defense genes.

Büchel K, McDowell E, Nelson W, Descour A, Gershenzon J, Hilker M, Soderlund C, Gang DR, Fenning T, Meiners T.

BMC Genomics. 2012 Jun 15;13:242. doi: 10.1186/1471-2164-13-242.

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