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Items: 1 to 50 of 98

1.

Data Integration in Poplar: 'Omics Layers and Integration Strategies.

Weighill D, Tschaplinski TJ, Tuskan GA, Jacobson D.

Front Genet. 2019 Sep 25;10:874. doi: 10.3389/fgene.2019.00874. eCollection 2019. Review.

PMID:
31608114
2.

Horizontal transfer of a pathway for coumarate catabolism unexpectedly inhibits purine nucleotide biosynthesis.

Close DM, Cooper CJ, Wang X, Chirania P, Gupta M, Ossyra JR, Giannone RJ, Engle N, Tschaplinski TJ, Smith JC, Hedstrom L, Parks JM, Michener JK.

Mol Microbiol. 2019 Sep 18. doi: 10.1111/mmi.14393. [Epub ahead of print]

PMID:
31532038
3.

Overexpression of a Prefoldin β subunit gene reduces biomass recalcitrance in the bioenergy crop Populus.

Zhang J, Xie M, Li M, Ding J, Pu Y, Bryan AC, Rottmann W, Winkeler KA, Collins CM, Singan V, Lindquist EA, Jawdy SS, Gunter LE, Engle NL, Yang X, Barry K, Tschaplinski TJ, Schmutz J, Tuskan GA, Muchero W, Chen JG.

Plant Biotechnol J. 2019 Sep 9. doi: 10.1111/pbi.13254. [Epub ahead of print]

4.

Ectopic Defense Gene Expression Is Associated with Growth Defects in Medicago truncatula Lignin Pathway Mutants.

Man Ha C, Fine D, Bhatia A, Rao X, Martin MZ, Engle NL, Wherritt DJ, Tschaplinski TJ, Sumner LW, Dixon RA.

Plant Physiol. 2019 Sep;181(1):63-84. doi: 10.1104/pp.19.00533. Epub 2019 Jul 9.

5.

Mediation of plant-mycorrhizal interaction by a lectin receptor-like kinase.

Labbé J, Muchero W, Czarnecki O, Wang J, Wang X, Bryan AC, Zheng K, Yang Y, Xie M, Zhang J, Wang D, Meidl P, Wang H, Morrell-Falvey JL, Cope KR, Maia LGS, Ané JM, Mewalal R, Jawdy SS, Gunter LE, Schackwitz W, Martin J, Le Tacon F, Li T, Zhang Z, Ranjan P, Lindquist E, Yang X, Jacobson DA, Tschaplinski TJ, Barry K, Schmutz J, Chen JG, Tuskan GA.

Nat Plants. 2019 Jul;5(7):676-680. doi: 10.1038/s41477-019-0469-x. Epub 2019 Jul 8.

PMID:
31285560
6.

Rhizosphere microbiomes diverge among Populus trichocarpa plant-host genotypes and chemotypes, but it depends on soil origin.

Veach AM, Morris R, Yip DZ, Yang ZK, Engle NL, Cregger MA, Tschaplinski TJ, Schadt CW.

Microbiome. 2019 May 18;7(1):76. doi: 10.1186/s40168-019-0668-8.

7.

Combining loss of function of FOLYLPOLYGLUTAMATE SYNTHETASE1 and CAFFEOYL-COA 3-O-METHYLTRANSFERASE1 for lignin reduction and improved saccharification efficiency in Arabidopsis thaliana.

Xie H, Engle NL, Venketachalam S, Yoo CG, Barros J, Lecoultre M, Howard N, Li G, Sun L, Srivastava AC, Pattathil S, Pu Y, Hahn MG, Ragauskas AJ, Nelson RS, Dixon RA, Tschaplinski TJ, Blancaflor EB, Tang Y.

Biotechnol Biofuels. 2019 May 3;12:108. doi: 10.1186/s13068-019-1446-3. eCollection 2019.

8.

4-Coumarate 3-hydroxylase in the lignin biosynthesis pathway is a cytosolic ascorbate peroxidase.

Barros J, Escamilla-Trevino L, Song L, Rao X, Serrani-Yarce JC, Palacios MD, Engle N, Choudhury FK, Tschaplinski TJ, Venables BJ, Mittler R, Dixon RA.

Nat Commun. 2019 Apr 30;10(1):1994. doi: 10.1038/s41467-019-10082-7.

9.

Correction to: Diel rewiring and positive selection of ancient plant proteins enabled evolution of CAM photosynthesis in Agave.

Yin H, Guo HB, Weston DJ, Borland AM, Ranjan P, Abraham PE, Jawdy SS, Wachira J, Tuskan GA, Tschaplinski TJ, Wullschleger SD, Guo H, Hettich RL, Gross SM, Wang Z, Visel A, Yang X.

BMC Genomics. 2019 Apr 10;20(1):279. doi: 10.1186/s12864-019-5663-8.

10.

Scavenging organic nitrogen and remodelling lipid metabolism are key survival strategies adopted by the endophytic fungi, Serendipita vermifera and Serendipita bescii to alleviate nitrogen and phosphorous starvation in vitro.

Ray P, Abraham PE, Guo Y, Giannone RJ, Engle NL, Yang ZK, Jacobson D, Hettich RL, Tschaplinski TJ, Craven KD.

Environ Microbiol Rep. 2019 Aug;11(4):548-557. doi: 10.1111/1758-2229.12757. Epub 2019 May 1.

PMID:
30970176
11.

Population-level approaches reveal novel aspects of lignin biosynthesis, content, composition and structure.

Tuskan GA, Muchero W, Tschaplinski TJ, Ragauskas AJ.

Curr Opin Biotechnol. 2019 Apr;56:250-257. doi: 10.1016/j.copbio.2019.02.017. Epub 2019 Mar 27. Review.

12.

Multitrait genome-wide association analysis of Populus trichocarpa identifies key polymorphisms controlling morphological and physiological traits.

Chhetri HB, Macaya-Sanz D, Kainer D, Biswal AK, Evans LM, Chen JG, Collins C, Hunt K, Mohanty SS, Rosenstiel T, Ryno D, Winkeler K, Yang X, Jacobson D, Mohnen D, Muchero W, Strauss SH, Tschaplinski TJ, Tuskan GA, DiFazio SP.

New Phytol. 2019 Jul;223(1):293-309. doi: 10.1111/nph.15777. Epub 2019 Apr 8.

PMID:
30843213
13.

The nature of the progression of drought stress drives differential metabolomic responses in Populus deltoides.

Tschaplinski TJ, Abraham PE, Jawdy SS, Gunter LE, Martin MZ, Engle NL, Yang X, Tuskan GA.

Ann Bot. 2019 Jan 23. doi: 10.1093/aob/mcz002. [Epub ahead of print]

PMID:
30689716
14.

Regulation of Lignin Biosynthesis and Its Role in Growth-Defense Tradeoffs.

Xie M, Zhang J, Tschaplinski TJ, Tuskan GA, Chen JG, Muchero W.

Front Plant Sci. 2018 Sep 28;9:1427. doi: 10.3389/fpls.2018.01427. eCollection 2018. Review.

15.

A dynamic model of lignin biosynthesis in Brachypodium distachyon.

Faraji M, Fonseca LL, Escamilla-Treviño L, Barros-Rios J, Engle NL, Yang ZK, Tschaplinski TJ, Dixon RA, Voit EO.

Biotechnol Biofuels. 2018 Sep 19;11:253. doi: 10.1186/s13068-018-1241-6. eCollection 2018.

16.

Underground Azelaic Acid-Conferred Resistance to Pseudomonas syringae in Arabidopsis.

Cecchini NM, Roychoudhry S, Speed DJ, Steffes K, Tambe A, Zodrow K, Konstantinoff K, Jung HW, Engle NL, Tschaplinski TJ, Greenberg JT.

Mol Plant Microbe Interact. 2019 Jan;32(1):86-94. doi: 10.1094/MPMI-07-18-0185-R. Epub 2018 Oct 23.

PMID:
30156481
17.

Diel rewiring and positive selection of ancient plant proteins enabled evolution of CAM photosynthesis in Agave.

Yin H, Guo HB, Weston DJ, Borland AM, Ranjan P, Abraham PE, Jawdy SS, Wachira J, Tuskan GA, Tschaplinski TJ, Wullschleger SD, Guo H, Hettich RL, Gross SM, Wang Z, Visel A, Yang X.

BMC Genomics. 2018 Aug 6;19(1):588. doi: 10.1186/s12864-018-4964-7. Erratum in: BMC Genomics. 2019 Apr 10;20(1):279.

18.

Perspectives on the basic and applied aspects of crassulacean acid metabolism (CAM) research.

Liu D, Palla KJ, Hu R, Moseley RC, Mendoza C, Chen M, Abraham PE, Labbé JL, Kalluri UC, Tschaplinski TJ, Cushman JC, Borland AM, Tuskan GA, Yang X.

Plant Sci. 2018 Sep;274:394-401. doi: 10.1016/j.plantsci.2018.06.012. Epub 2018 Jun 19. Review.

PMID:
30080627
19.

Genome-wide association studies and expression-based quantitative trait loci analyses reveal roles of HCT2 in caffeoylquinic acid biosynthesis and its regulation by defense-responsive transcription factors in Populus.

Zhang J, Yang Y, Zheng K, Xie M, Feng K, Jawdy SS, Gunter LE, Ranjan P, Singan VR, Engle N, Lindquist E, Barry K, Schmutz J, Zhao N, Tschaplinski TJ, LeBoldus J, Tuskan GA, Chen JG, Muchero W.

New Phytol. 2018 Oct;220(2):502-516. doi: 10.1111/nph.15297. Epub 2018 Jul 11.

20.

A 5-Enolpyruvylshikimate 3-Phosphate Synthase Functions as a Transcriptional Repressor in Populus.

Xie M, Muchero W, Bryan AC, Yee K, Guo HB, Zhang J, Tschaplinski TJ, Singan VR, Lindquist E, Payyavula RS, Barros-Rios J, Dixon R, Engle N, Sykes RW, Davis M, Jawdy SS, Gunter LE, Thompson O, DiFazio SP, Evans LM, Winkeler K, Collins C, Schmutz J, Guo H, Kalluri U, Rodriguez M, Feng K, Chen JG, Tuskan GA.

Plant Cell. 2018 Jul;30(7):1645-1660. doi: 10.1105/tpc.18.00168. Epub 2018 Jun 11.

21.

Rex in Caldicellulosiruptor bescii: Novel regulon members and its effect on the production of ethanol and overflow metabolites.

Sander K, Chung D, Hyatt D, Westpheling J, Klingeman DM, Rodriguez M Jr, Engle NL, Tschaplinski TJ, Davison BH, Brown SD.

Microbiologyopen. 2019 Feb;8(2):e00639. doi: 10.1002/mbo3.639. Epub 2018 May 23.

22.

A physical catalyst for the electrolysis of nitrogen to ammonia.

Song Y, Johnson D, Peng R, Hensley DK, Bonnesen PV, Liang L, Huang J, Yang F, Zhang F, Qiao R, Baddorf AP, Tschaplinski TJ, Engle NL, Hatzell MC, Wu Z, Cullen DA, Meyer HM 3rd, Sumpter BG, Rondinone AJ.

Sci Adv. 2018 Apr 27;4(4):e1700336. doi: 10.1126/sciadv.1700336. eCollection 2018 Apr.

23.

Clostridium thermocellum LL1210 pH homeostasis mechanisms informed by transcriptomics and metabolomics.

Whitham JM, Moon JW, Rodriguez M Jr, Engle NL, Klingeman DM, Rydzak T, Abel MM, Tschaplinski TJ, Guss AM, Brown SD.

Biotechnol Biofuels. 2018 Apr 5;11:98. doi: 10.1186/s13068-018-1095-y. eCollection 2018.

24.

Mathematical models of lignin biosynthesis.

Faraji M, Fonseca LL, Escamilla-Treviño L, Barros-Rios J, Engle N, Yang ZK, Tschaplinski TJ, Dixon RA, Voit EO.

Biotechnol Biofuels. 2018 Feb 9;11:34. doi: 10.1186/s13068-018-1028-9. eCollection 2018.

25.

Quantitative proteome profile of water deficit stress responses in eastern cottonwood (Populus deltoides) leaves.

Abraham PE, Garcia BJ, Gunter LE, Jawdy SS, Engle N, Yang X, Jacobson DA, Hettich RL, Tuskan GA, Tschaplinski TJ.

PLoS One. 2018 Feb 15;13(2):e0190019. doi: 10.1371/journal.pone.0190019. eCollection 2018.

26.

Abiotic Stresses Shift Belowground Populus-Associated Bacteria Toward a Core Stress Microbiome.

Timm CM, Carter KR, Carrell AA, Jun SR, Jawdy SS, Vélez JM, Gunter LE, Yang Z, Nookaew I, Engle NL, Lu TS, Schadt CW, Tschaplinski TJ, Doktycz MJ, Tuskan GA, Pelletier DA, Weston DJ.

mSystems. 2018 Jan 23;3(1). pii: e00070-17. doi: 10.1128/mSystems.00070-17. eCollection 2018 Jan-Feb.

27.

Overexpression of a Domain of Unknown Function 231-containing protein increases O-xylan acetylation and cellulose biosynthesis in Populus.

Yang Y, Yoo CG, Winkeler KA, Collins CM, Hinchee MAW, Jawdy SS, Gunter LE, Engle NL, Pu Y, Yang X, Tschaplinski TJ, Ragauskas AJ, Tuskan GA, Chen JG.

Biotechnol Biofuels. 2017 Dec 27;10:311. doi: 10.1186/s13068-017-0998-3. eCollection 2017.

28.

Targeted redox and energy cofactor metabolomics in Clostridium thermocellum and Thermoanaerobacterium saccharolyticum.

Sander K, Asano KG, Bhandari D, Van Berkel GJ, Brown SD, Davison B, Tschaplinski TJ.

Biotechnol Biofuels. 2017 Nov 30;10:270. doi: 10.1186/s13068-017-0960-4. eCollection 2017.

29.

Agronomic performance of Populus deltoides trees engineered for biofuel production.

Macaya-Sanz D, Chen JG, Kalluri UC, Muchero W, Tschaplinski TJ, Gunter LE, Simon SJ, Biswal AK, Bryan AC, Payyavula R, Xie M, Yang Y, Zhang J, Mohnen D, Tuskan GA, DiFazio SP.

Biotechnol Biofuels. 2017 Nov 30;10:253. doi: 10.1186/s13068-017-0934-6. eCollection 2017.

30.

The Kalanchoë genome provides insights into convergent evolution and building blocks of crassulacean acid metabolism.

Yang X, Hu R, Yin H, Jenkins J, Shu S, Tang H, Liu D, Weighill DA, Cheol Yim W, Ha J, Heyduk K, Goodstein DM, Guo HB, Moseley RC, Fitzek E, Jawdy S, Zhang Z, Xie M, Hartwell J, Grimwood J, Abraham PE, Mewalal R, Beltrán JD, Boxall SF, Dever LV, Palla KJ, Albion R, Garcia T, Mayer JA, Don Lim S, Man Wai C, Peluso P, Van Buren R, De Paoli HC, Borland AM, Guo H, Chen JG, Muchero W, Yin Y, Jacobson DA, Tschaplinski TJ, Hettich RL, Ming R, Winter K, Leebens-Mack JH, Smith JAC, Cushman JC, Schmutz J, Tuskan GA.

Nat Commun. 2017 Dec 1;8(1):1899. doi: 10.1038/s41467-017-01491-7.

31.

Corrigendum: Pentose sugars inhibit metabolism and increase expression of an AgrD-type cyclic pentapeptide in Clostridium thermocellum.

Verbeke TJ, Giannone RJ, Klingeman DM, Engle NL, Rydzak T, Guss AM, Tschaplinski TJ, Brown SD, Hettich RL, Elkins JG.

Sci Rep. 2017 Jul 27;7:46875. doi: 10.1038/srep46875.

32.

Pentose sugars inhibit metabolism and increase expression of an AgrD-type cyclic pentapeptide in Clostridium thermocellum.

Verbeke TJ, Giannone RJ, Klingeman DM, Engle NL, Rydzak T, Guss AM, Tschaplinski TJ, Brown SD, Hettich RL, Elkins JG.

Sci Rep. 2017 Feb 23;7:43355. doi: 10.1038/srep43355. Erratum in: Sci Rep. 2017 Jul 27;7:46875.

33.

Integrated omics analyses reveal the details of metabolic adaptation of Clostridium thermocellum to lignocellulose-derived growth inhibitors released during the deconstruction of switchgrass.

Poudel S, Giannone RJ, Rodriguez M Jr, Raman B, Martin MZ, Engle NL, Mielenz JR, Nookaew I, Brown SD, Tschaplinski TJ, Ussery D, Hettich RL.

Biotechnol Biofuels. 2017 Jan 10;10:14. doi: 10.1186/s13068-016-0697-5. eCollection 2017.

34.

Study of traits and recalcitrance reduction of field-grown COMT down-regulated switchgrass.

Li M, Pu Y, Yoo CG, Gjersing E, Decker SR, Doeppke C, Shollenberger T, Tschaplinski TJ, Engle NL, Sykes RW, Davis MF, Baxter HL, Mazarei M, Fu C, Dixon RA, Wang ZY, Neal Stewart C Jr, Ragauskas AJ.

Biotechnol Biofuels. 2017 Jan 3;10:12. doi: 10.1186/s13068-016-0695-7. eCollection 2017.

35.

An In-Depth Understanding of Biomass Recalcitrance Using Natural Poplar Variants as the Feedstock.

Meng X, Pu Y, Yoo CG, Li M, Bali G, Park DY, Gjersing E, Davis MF, Muchero W, Tuskan GA, Tschaplinski TJ, Ragauskas AJ.

ChemSusChem. 2017 Jan 10;10(1):139-150. doi: 10.1002/cssc.201601303. Epub 2016 Dec 12.

PMID:
27882723
36.

Poplar PtabZIP1-like enhances lateral root formation and biomass growth under drought stress.

Dash M, Yordanov YS, Georgieva T, Tschaplinski TJ, Yordanova E, Busov V.

Plant J. 2017 Feb;89(4):692-705. doi: 10.1111/tpj.13413. Epub 2017 Feb 10.

37.

Down-Regulation of KORRIGAN-Like Endo-β-1,4-Glucanase Genes Impacts Carbon Partitioning, Mycorrhizal Colonization and Biomass Production in Populus.

Kalluri UC, Payyavula RS, Labbé JL, Engle N, Bali G, Jawdy SS, Sykes RW, Davis M, Ragauskas A, Tuskan GA, Tschaplinski TJ.

Front Plant Sci. 2016 Oct 4;7:1455. eCollection 2016.

38.

Two Poplar-Associated Bacterial Isolates Induce Additive Favorable Responses in a Constructed Plant-Microbiome System.

Timm CM, Pelletier DA, Jawdy SS, Gunter LE, Henning JA, Engle N, Aufrecht J, Gee E, Nookaew I, Yang Z, Lu TY, Tschaplinski TJ, Doktycz MJ, Tuskan GA, Weston DJ.

Front Plant Sci. 2016 Apr 26;7:497. doi: 10.3389/fpls.2016.00497. eCollection 2016.

39.

Transgenic soybean overexpressing GmSAMT1 exhibits resistance to multiple-HG types of soybean cyst nematode Heterodera glycines.

Lin J, Mazarei M, Zhao N, Hatcher CN, Wuddineh WA, Rudis M, Tschaplinski TJ, Pantalone VR, Arelli PR, Hewezi T, Chen F, Stewart CN Jr.

Plant Biotechnol J. 2016 Nov;14(11):2100-2109. doi: 10.1111/pbi.12566. Epub 2016 May 23.

40.

Knockdown of a laccase in Populus deltoides confers altered cell wall chemistry and increased sugar release.

Bryan AC, Jawdy S, Gunter L, Gjersing E, Sykes R, Hinchee MA, Winkeler KA, Collins CM, Engle N, Tschaplinski TJ, Yang X, Tuskan GA, Muchero W, Chen JG.

Plant Biotechnol J. 2016 Oct;14(10):2010-20. doi: 10.1111/pbi.12560. Epub 2016 Apr 15.

41.

Consolidated bioprocessing of Populus using Clostridium (Ruminiclostridium) thermocellum: a case study on the impact of lignin composition and structure.

Dumitrache A, Akinosho H, Rodriguez M Jr, Meng X, Yoo CG, Natzke J, Engle NL, Sykes RW, Tschaplinski TJ, Muchero W, Ragauskas AJ, Davison BH, Brown SD.

Biotechnol Biofuels. 2016 Feb 4;9:31. doi: 10.1186/s13068-016-0445-x. eCollection 2016.

42.

Scaling nitrogen and carbon interactions: what are the consequences of biological buffering?

Weston DJ, Rogers A, Tschaplinski TJ, Gunter LE, Jawdy SA, Engle NL, Heady LE, Tuskan GA, Wullschleger SD.

Ecol Evol. 2015 Jul;5(14):2839-50. doi: 10.1002/ece3.1565. Epub 2015 Jun 25.

43.

Genome-scale resources for Thermoanaerobacterium saccharolyticum.

Currie DH, Raman B, Gowen CM, Tschaplinski TJ, Land ML, Brown SD, Covalla SF, Klingeman DM, Yang ZK, Engle NL, Johnson CM, Rodriguez M, Shaw AJ, Kenealy WR, Lynd LR, Fong SS, Mielenz JR, Davison BH, Hogsett DA, Herring CD.

BMC Syst Biol. 2015 Jun 26;9:30. doi: 10.1186/s12918-015-0159-x.

44.

Computational Ranking of Yerba Mate Small Molecules Based on Their Predicted Contribution to Antibacterial Activity against Methicillin-Resistant Staphylococcus aureus.

Rempe CS, Burris KP, Woo HL, Goodrich B, Gosnell DK, Tschaplinski TJ, Stewart CN Jr.

PLoS One. 2015 May 8;10(5):e0123925. doi: 10.1371/journal.pone.0123925. eCollection 2015.

45.

Xylan hydrolysis in Populus trichocarpa × P. deltoides and model substrates during hydrothermal pretreatment.

Trajano HL, Pattathil S, Tomkins BA, Tschaplinski TJ, Hahn MG, Van Berkel GJ, Wyman CE.

Bioresour Technol. 2015 Mar;179:202-210. doi: 10.1016/j.biortech.2014.11.090. Epub 2014 Nov 27.

PMID:
25545089
46.

A comparative multidimensional LC-MS proteomic analysis reveals mechanisms for furan aldehyde detoxification in Thermoanaerobacter pseudethanolicus 39E.

Clarkson SM, Hamilton-Brehm SD, Giannone RJ, Engle NL, Tschaplinski TJ, Hettich RL, Elkins JG.

Biotechnol Biofuels. 2014 Dec 3;7(1):165. doi: 10.1186/s13068-014-0165-z. eCollection 2014.

47.

Transgenic American chestnuts show enhanced blight resistance and transmit the trait to T1 progeny.

Newhouse AE, Polin-McGuigan LD, Baier KA, Valletta KE, Rottmann WH, Tschaplinski TJ, Maynard CA, Powell WA.

Plant Sci. 2014 Nov;228:88-97. doi: 10.1016/j.plantsci.2014.04.004. Epub 2014 Apr 13.

PMID:
25438789
48.

The exometabolome of Clostridium thermocellum reveals overflow metabolism at high cellulose loading.

Holwerda EK, Thorne PG, Olson DG, Amador-Noguez D, Engle NL, Tschaplinski TJ, van Dijken JP, Lynd LR.

Biotechnol Biofuels. 2014 Oct 21;7(1):155. doi: 10.1186/s13068-014-0155-1. eCollection 2014.

49.

ALD1 Regulates Basal Immune Components and Early Inducible Defense Responses in Arabidopsis.

Cecchini NM, Jung HW, Engle NL, Tschaplinski TJ, Greenberg JT.

Mol Plant Microbe Interact. 2015 Apr;28(4):455-66. doi: 10.1094/MPMI-06-14-0187-R.

50.

Metabolic profiling reveals altered sugar and secondary metabolism in response to UGPase overexpression in Populus.

Payyavula RS, Tschaplinski TJ, Jawdy SS, Sykes RW, Tuskan GA, Kalluri UC.

BMC Plant Biol. 2014 Oct 7;14:265. doi: 10.1186/s12870-014-0265-8.

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