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Pathogen Genetic Control of Transcriptome Variation in the Arabidopsis thaliana - Botrytis cinerea Pathosystem.

Soltis NE, Caseys C, Zhang W, Corwin JA, Atwell S, Kliebenstein DJ.

Genetics. 2020 Mar 12. pii: genetics.303070.2020. doi: 10.1534/genetics.120.303070. [Epub ahead of print]


Epistatic Transcription Factor Networks Differentially Modulate Arabidopsis Growth and Defense.

Li B, Tang M, Caseys C, Nelson A, Zhou M, Zhou X, Brady SM, Kliebenstein DJ.

Genetics. 2020 Feb;214(2):529-541. doi: 10.1534/genetics.119.302996. Epub 2019 Dec 18.


Auxin-sensitive Aux/IAA proteins mediate drought tolerance in Arabidopsis by regulating glucosinolate levels.

Salehin M, Li B, Tang M, Katz E, Song L, Ecker JR, Kliebenstein DJ, Estelle M.

Nat Commun. 2019 Sep 6;10(1):4021. doi: 10.1038/s41467-019-12002-1.


Viruses mobilize plant immunity to deter nonvector insect herbivores.

Zhao P, Yao X, Cai C, Li R, Du J, Sun Y, Wang M, Zou Z, Wang Q, Kliebenstein DJ, Liu SS, Fang RX, Ye J.

Sci Adv. 2019 Aug 21;5(8):eaav9801. doi: 10.1126/sciadv.aav9801. eCollection 2019 Aug.


Plant Networks as Traits and Hypotheses: Moving Beyond Description.

Marshall-Colón A, Kliebenstein DJ.

Trends Plant Sci. 2019 Sep;24(9):840-852. doi: 10.1016/j.tplants.2019.06.003. Epub 2019 Jul 9. Review.


Plant-necrotroph co-transcriptome networks illuminate a metabolic battlefield.

Zhang W, Corwin JA, Copeland DH, Feusier J, Eshbaugh R, Cook DE, Atwell S, Kliebenstein DJ.

Elife. 2019 May 13;8. pii: e44279. doi: 10.7554/eLife.44279.


Questionomics: Using Big Data to Ask and Answer Big Questions.

Kliebenstein DJ.

Plant Cell. 2019 Jul;31(7):1404-1405. doi: 10.1105/tpc.19.00344. Epub 2019 May 8. No abstract available.


Interactions of Tomato and Botrytis cinerea Genetic Diversity: Parsing the Contributions of Host Differentiation, Domestication, and Pathogen Variation.

Soltis NE, Atwell S, Shi G, Fordyce R, Gwinner R, Gao D, Shafi A, Kliebenstein DJ.

Plant Cell. 2019 Feb;31(2):502-519. doi: 10.1105/tpc.18.00857. Epub 2019 Jan 15.


Transcriptional regulation of nitrogen-associated metabolism and growth.

Gaudinier A, Rodriguez-Medina J, Zhang L, Olson A, Liseron-Monfils C, Bågman AM, Foret J, Abbitt S, Tang M, Li B, Runcie DE, Kliebenstein DJ, Shen B, Frank MJ, Ware D, Brady SM.

Nature. 2018 Nov;563(7730):259-264. doi: 10.1038/s41586-018-0656-3. Epub 2018 Oct 24.


Regulation of Root Angle and Gravitropism.

Toal TW, Ron M, Gibson D, Kajala K, Splitt B, Johnson LS, Miller ND, Slovak R, Gaudinier A, Patel R, de Lucas M, Provart NJ, Spalding EP, Busch W, Kliebenstein DJ, Brady SM.

G3 (Bethesda). 2018 Dec 10;8(12):3841-3855. doi: 10.1534/g3.118.200540.


Digital Imaging Combined with Genome-Wide Association Mapping Links Loci to Plant-Pathogen Interaction Traits.

Fordyce RF, Soltis NE, Caseys C, Gwinner R, Corwin JA, Atwell S, Copeland D, Feusier J, Subedy A, Eshbaugh R, Kliebenstein DJ.

Plant Physiol. 2018 Nov;178(3):1406-1422. doi: 10.1104/pp.18.00851. Epub 2018 Sep 28.


Plant nutrient acquisition entices herbivore.

Kliebenstein DJ.

Science. 2018 Aug 17;361(6403):642-643. doi: 10.1126/science.aau6017. No abstract available.


Comparison of the Relative Potential for Epigenetic and Genetic Variation To Contribute to Trait Stability.

Aller EST, Jagd LM, Kliebenstein DJ, Burow M.

G3 (Bethesda). 2018 May 4;8(5):1733-1746. doi: 10.1534/g3.118.200127.


Network-Guided Discovery of Extensive Epistasis between Transcription Factors Involved in Aliphatic Glucosinolate Biosynthesis.

Li B, Tang M, Nelson A, Caligagan H, Zhou X, Clark-Wiest C, Ngo R, Brady SM, Kliebenstein DJ.

Plant Cell. 2018 Jan;30(1):178-195. doi: 10.1105/tpc.17.00805. Epub 2018 Jan 9.


An evolutionarily young defense metabolite influences the root growth of plants via the ancient TOR signaling pathway.

Malinovsky FG, Thomsen MF, Nintemann SJ, Jagd LM, Bourgine B, Burow M, Kliebenstein DJ.

Elife. 2017 Dec 12;6. pii: e29353. doi: 10.7554/eLife.29353.


Plastic Transcriptomes Stabilize Immunity to Pathogen Diversity: The Jasmonic Acid and Salicylic Acid Networks within the Arabidopsis/Botrytis Pathosystem.

Zhang W, Corwin JA, Copeland D, Feusier J, Eshbaugh R, Chen F, Atwell S, Kliebenstein DJ.

Plant Cell. 2017 Nov;29(11):2727-2752. doi: 10.1105/tpc.17.00348. Epub 2017 Oct 17.


Initiation of ER Body Formation and Indole Glucosinolate Metabolism by the Plastidial Retrograde Signaling Metabolite, MEcPP.

Wang JZ, Li B, Xiao Y, Ni Y, Ke H, Yang P, de Souza A, Bjornson M, He X, Shen Z, Balcke GU, Briggs SP, Tissier A, Kliebenstein DJ, Dehesh K.

Mol Plant. 2017 Nov 6;10(11):1400-1416. doi: 10.1016/j.molp.2017.09.012. Epub 2017 Sep 28.


Epistasis × environment interactions among Arabidopsis thaliana glucosinolate genes impact complex traits and fitness in the field.

Kerwin RE, Feusier J, Muok A, Lin C, Larson B, Copeland D, Corwin JA, Rubin MJ, Francisco M, Li B, Joseph B, Weinig C, Kliebenstein DJ.

New Phytol. 2017 Aug;215(3):1249-1263. doi: 10.1111/nph.14646. Epub 2017 Jun 13.


Using RNA-Seq for Genomic Scaffold Placement, Correcting Assemblies, and Genetic Map Creation in a Common Brassica rapa Mapping Population.

Markelz RJC, Covington MF, Brock MT, Devisetty UK, Kliebenstein DJ, Weinig C, Maloof JN.

G3 (Bethesda). 2017 Jul 5;7(7):2259-2270. doi: 10.1534/g3.117.043000.


A novel Filamentous Flower mutant suppresses brevipedicellus developmental defects and modulates glucosinolate and auxin levels.

Douglas SJ, Li B, Kliebenstein DJ, Nambara E, Riggs CD.

PLoS One. 2017 May 11;12(5):e0177045. doi: 10.1371/journal.pone.0177045. eCollection 2017.


An integrated RNAseq-1H NMR metabolomics approach to understand soybean primary metabolism regulation in response to Rhizoctonia foliar blight disease.

Copley TR, Aliferis KA, Kliebenstein DJ, Jabaji SH.

BMC Plant Biol. 2017 Apr 27;17(1):84. doi: 10.1186/s12870-017-1020-8.


A Global Coexpression Network Approach for Connecting Genes to Specialized Metabolic Pathways in Plants.

Wisecaver JH, Borowsky AT, Tzin V, Jander G, Kliebenstein DJ, Rokas A.

Plant Cell. 2017 May;29(5):944-959. doi: 10.1105/tpc.17.00009. Epub 2017 Apr 13.


Quantitative Resistance: More Than Just Perception of a Pathogen.

Corwin JA, Kliebenstein DJ.

Plant Cell. 2017 Apr;29(4):655-665. doi: 10.1105/tpc.16.00915. Epub 2017 Mar 16. Review.


Observability of Plant Metabolic Networks Is Reflected in the Correlation of Metabolic Profiles.

Schwahn K, Küken A, Kliebenstein DJ, Fernie AR, Nikoloski Z.

Plant Physiol. 2016 Oct;172(2):1324-1333. Epub 2016 Aug 26.


Genome Wide Association Mapping in Arabidopsis thaliana Identifies Novel Genes Involved in Linking Allyl Glucosinolate to Altered Biomass and Defense.

Francisco M, Joseph B, Caligagan H, Li B, Corwin JA, Lin C, Kerwin RE, Burow M, Kliebenstein DJ.

Front Plant Sci. 2016 Jul 12;7:1010. doi: 10.3389/fpls.2016.01010. eCollection 2016.


An Integrative Genetic Study of Rice Metabolism, Growth and Stochastic Variation Reveals Potential C/N Partitioning Loci.

Li B, Zhang Y, Mohammadi SA, Huai D, Zhou Y, Kliebenstein DJ.

Sci Rep. 2016 Jul 21;6:30143. doi: 10.1038/srep30143.


The Defense Metabolite, Allyl Glucosinolate, Modulates Arabidopsis thaliana Biomass Dependent upon the Endogenous Glucosinolate Pathway.

Francisco M, Joseph B, Caligagan H, Li B, Corwin JA, Lin C, Kerwin R, Burow M, Kliebenstein DJ.

Front Plant Sci. 2016 Jun 1;7:774. doi: 10.3389/fpls.2016.00774. eCollection 2016.


Isolate Dependency of Brassica rapa Resistance QTLs to Botrytis cinerea.

Zhang W, Kwon ST, Chen F, Kliebenstein DJ.

Front Plant Sci. 2016 Feb 17;7:161. doi: 10.3389/fpls.2016.00161. eCollection 2016.


The Quantitative Basis of the Arabidopsis Innate Immune System to Endemic Pathogens Depends on Pathogen Genetics.

Corwin JA, Copeland D, Feusier J, Subedy A, Eshbaugh R, Palmer C, Maloof J, Kliebenstein DJ.

PLoS Genet. 2016 Feb 11;12(2):e1005789. doi: 10.1371/journal.pgen.1005789. eCollection 2016 Feb.


Expansive Phenotypic Landscape of Botrytis cinerea Shows Differential Contribution of Genetic Diversity and Plasticity.

Corwin JA, Subedy A, Eshbaugh R, Kliebenstein DJ.

Mol Plant Microbe Interact. 2016 Apr;29(4):287-98. doi: 10.1094/MPMI-09-15-0196-R. Epub 2016 Mar 23.


Pectin Biosynthesis Is Critical for Cell Wall Integrity and Immunity in Arabidopsis thaliana.

Bethke G, Thao A, Xiong G, Li B, Soltis NE, Hatsugai N, Hillmer RA, Katagiri F, Kliebenstein DJ, Pauly M, Glazebrook J.

Plant Cell. 2016 Feb;28(2):537-56. doi: 10.1105/tpc.15.00404. Epub 2016 Jan 26.


Evolution retraces its steps to advance.

Kliebenstein DJ.

Elife. 2015 Dec 15;4. pii: e12386. doi: 10.7554/eLife.12386.


Molecular mechanisms governing differential robustness of development and environmental responses in plants.

Lachowiec J, Queitsch C, Kliebenstein DJ.

Ann Bot. 2016 Apr;117(5):795-809. doi: 10.1093/aob/mcv151. Epub 2015 Oct 14. Review.


Overexpression of Three Glucosinolate Biosynthesis Genes in Brassica napus Identifies Enhanced Resistance to Sclerotinia sclerotiorum and Botrytis cinerea.

Zhang Y, Huai D, Yang Q, Cheng Y, Ma M, Kliebenstein DJ, Zhou Y.

PLoS One. 2015 Oct 14;10(10):e0140491. doi: 10.1371/journal.pone.0140491. eCollection 2015.


Investigation of the multifunctional gene AOP3 expands the regulatory network fine-tuning glucosinolate production in Arabidopsis.

Jensen LM, Kliebenstein DJ, Burow M.

Front Plant Sci. 2015 Sep 23;6:762. doi: 10.3389/fpls.2015.00762. eCollection 2015.


Natural variation in cross-talk between glucosinolates and onset of flowering in Arabidopsis.

Jensen LM, Jepsen HS, Halkier BA, Kliebenstein DJ, Burow M.

Front Plant Sci. 2015 Sep 8;6:697. doi: 10.3389/fpls.2015.00697. eCollection 2015.


Whole genome resequencing of Botrytis cinerea isolates identifies high levels of standing diversity.

Atwell S, Corwin JA, Soltis NE, Subedy A, Denby KJ, Kliebenstein DJ.

Front Microbiol. 2015 Sep 24;6:996. doi: 10.3389/fmicb.2015.00996. eCollection 2015.


Natural Variation of Plant Metabolism: Genetic Mechanisms, Interpretive Caveats, and Evolutionary and Mechanistic Insights.

Soltis NE, Kliebenstein DJ.

Plant Physiol. 2015 Nov;169(3):1456-68. doi: 10.1104/pp.15.01108. Epub 2015 Aug 13.


Acetylation of cell wall is required for structural integrity of the leaf surface and exerts a global impact on plant stress responses.

Nafisi M, Stranne M, Fimognari L, Atwell S, Martens HJ, Pedas PR, Hansen SF, Nawrath C, Scheller HV, Kliebenstein DJ, Sakuragi Y.

Front Plant Sci. 2015 Jul 22;6:550. doi: 10.3389/fpls.2015.00550. eCollection 2015.


Quantitative Variation in Responses to Root Spatial Constraint within Arabidopsis thaliana.

Joseph B, Lau L, Kliebenstein DJ.

Plant Cell. 2015 Aug;27(8):2227-43. doi: 10.1105/tpc.15.00335. Epub 2015 Aug 4.


Reassess the t Test: Interact with All Your Data via ANOVA.

Brady SM, Burow M, Busch W, Carlborg Ö, Denby KJ, Glazebrook J, Hamilton ES, Harmer SL, Haswell ES, Maloof JN, Springer NM, Kliebenstein DJ.

Plant Cell. 2015 Aug;27(8):2088-94. doi: 10.1105/tpc.15.00238. Epub 2015 Jul 28.


Macroevolutionary patterns of glucosinolate defense and tests of defense-escalation and resource availability hypotheses.

Cacho NI, Kliebenstein DJ, Strauss SY.

New Phytol. 2015 Nov;208(3):915-27. doi: 10.1111/nph.13561. Epub 2015 Jul 20.


The conserved transcription factors, MYB115 and MYB118, control expression of the newly evolved benzoyloxy glucosinolate pathway in Arabidopsis thaliana.

Zhang Y, Li B, Huai D, Zhou Y, Kliebenstein DJ.

Front Plant Sci. 2015 May 13;6:343. doi: 10.3389/fpls.2015.00343. eCollection 2015.


Keeping the rhythm: light/dark cycles during postharvest storage preserve the tissue integrity and nutritional content of leafy plants.

Liu JD, Goodspeed D, Sheng Z, Li B, Yang Y, Kliebenstein DJ, Braam J.

BMC Plant Biol. 2015 Mar 27;15:92. doi: 10.1186/s12870-015-0474-9.


Natural genetic variation in Arabidopsis thaliana defense metabolism genes modulates field fitness.

Kerwin R, Feusier J, Corwin J, Rubin M, Lin C, Muok A, Larson B, Li B, Joseph B, Francisco M, Copeland D, Weinig C, Kliebenstein DJ.

Elife. 2015 Apr 13;4. doi: 10.7554/eLife.05604.


The Glucosinolate Biosynthetic Gene AOP2 Mediates Feed-back Regulation of Jasmonic Acid Signaling in Arabidopsis.

Burow M, Atwell S, Francisco M, Kerwin RE, Halkier BA, Kliebenstein DJ.

Mol Plant. 2015 Aug;8(8):1201-12. doi: 10.1016/j.molp.2015.03.001. Epub 2015 Mar 7.


In planta variation of volatile biosynthesis: an alternative biosynthetic route to the formation of the pathogen-induced volatile homoterpene DMNT via triterpene degradation in Arabidopsis roots.

Sohrabi R, Huh JH, Badieyan S, Rakotondraibe LH, Kliebenstein DJ, Sobrado P, Tholl D.

Plant Cell. 2015 Mar;27(3):874-90. doi: 10.1105/tpc.114.132209. Epub 2015 Feb 27.


Genetic variation in the nuclear and organellar genomes modulates stochastic variation in the metabolome, growth, and defense.

Joseph B, Corwin JA, Kliebenstein DJ.

PLoS Genet. 2015 Jan 8;11(1):e1004779. doi: 10.1371/journal.pgen.1004779. eCollection 2015 Jan.


An Arabidopsis gene regulatory network for secondary cell wall synthesis.

Taylor-Teeples M, Lin L, de Lucas M, Turco G, Toal TW, Gaudinier A, Young NF, Trabucco GM, Veling MT, Lamothe R, Handakumbura PP, Xiong G, Wang C, Corwin J, Tsoukalas A, Zhang L, Ware D, Pauly M, Kliebenstein DJ, Dehesh K, Tagkopoulos I, Breton G, Pruneda-Paz JL, Ahnert SE, Kay SA, Hazen SP, Brady SM.

Nature. 2015 Jan 29;517(7536):571-5. doi: 10.1038/nature14099. Epub 2014 Dec 24.


Promoter-based integration in plant defense regulation.

Li B, Gaudinier A, Tang M, Taylor-Teeples M, Nham NT, Ghaffari C, Benson DS, Steinmann M, Gray JA, Brady SM, Kliebenstein DJ.

Plant Physiol. 2014 Dec;166(4):1803-20. doi: 10.1104/pp.114.248716. Epub 2014 Oct 28.

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