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Jing-Ke Weng, Ph.D. - Publications

Affiliations: 
2013-2023 Biology Massachusetts Institute of Technology, Cambridge, MA, United States 
 2013-2023 Whitehead Institute for Biomedical Research, Cambridge, MA, United States 
 2023- Chemistry and Chemical Biology & Bioengineering Northeastern University, Boston, MA, United States 
Area:
plant metabolism
Website:
https://wenglab.net
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77 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Fallon TR, Čalounová T, Mokrejš M, Weng JK, Pluskal T. transXpress: a Snakemake pipeline for streamlined de novo transcriptome assembly and annotation. Bmc Bioinformatics. 24: 133. PMID 37016291 DOI: 10.1186/s12859-023-05254-8  0.757
2023 Schmid R, Heuckeroth S, Korf A, Smirnov A, Myers O, Dyrlund TS, Bushuiev R, Murray KJ, Hoffmann N, Lu M, Sarvepalli A, Zhang Z, Fleischauer M, Dührkop K, Wesner M, ... ... Weng JK, et al. Integrative analysis of multimodal mass spectrometry data in MZmine 3. Nature Biotechnology. PMID 36859716 DOI: 10.1038/s41587-023-01690-2  0.746
2023 Edwards A, Njaci I, Sarkar A, Jiang Z, Kaithakottil GG, Moore C, Cheema J, Stevenson CEM, Rejzek M, Novák P, Vigouroux M, Vickers M, Wouters RHM, Paajanen P, Steuernagel B, ... ... Weng JK, et al. Genomics and biochemical analyses reveal a metabolon key to β-L-ODAP biosynthesis in Lathyrus sativus. Nature Communications. 14: 876. PMID 36797319 DOI: 10.1038/s41467-023-36503-2  0.779
2023 Kim CY, Mitchell AJ, Kastner DW, Albright CE, Gutierrez MA, Glinkerman CM, Kulik HJ, Weng JK. Emergence of a proton exchange-based isomerization and lactonization mechanism in the plant coumarin synthase COSY. Nature Communications. 14: 597. PMID 36737607 DOI: 10.1038/s41467-023-36299-1  0.806
2022 Glinkerman CM, Lin S, Ni J, Li FS, Zhao X, Weng JK. Sporopollenin-inspired design and synthesis of robust polymeric materials. Communications Chemistry. 5: 110. PMID 36697794 DOI: 10.1038/s42004-022-00729-w  0.804
2022 Kasprzyk PG, Vickery C, Ye M, Sewastianik M, Gong W, Ding S, Dziwenka M, Mozingo A, Valm K, Schachner H, Weng JK. Safety of a Sustainably Produced, Bioengineered, Nature-Identical Salidroside Compound. Nutrients. 14. PMID 35684130 DOI: 10.3390/nu14112330  0.788
2022 Kersten RD, Mydy LS, Fallon TR, de Waal F, Shafiq K, Wotring JW, Sexton JZ, Weng JK. Gene-Guided Discovery and Ribosomal Biosynthesis of Moroidin Peptides. Journal of the American Chemical Society. PMID 35438481 DOI: 10.1021/jacs.2c00014  0.81
2021 Weng JK, Lynch JH, Matos JO, Dudareva N. Adaptive mechanisms of plant specialized metabolism connecting chemistry to function. Nature Chemical Biology. 17: 1037-1045. PMID 34552220 DOI: 10.1038/s41589-021-00822-6  0.404
2021 Torrens-Spence MP, Glinkerman CM, Günther J, Weng JK. Imine chemistry in plant metabolism. Current Opinion in Plant Biology. 60: 101999. PMID 33450608 DOI: 10.1016/j.pbi.2020.101999  0.844
2020 Xu SY, Weng JK. Climate change shapes the future evolution of plant metabolism. Advanced Genetics (Hoboken, N.J.). 1: e10022. PMID 36619247 DOI: 10.1002/ggn2.10022  0.83
2020 Cao Y, Lim E, Xu M, Weng JK, Marelli B. Precision Delivery of Multiscale Payloads to Tissue-Specific Targets in Plants. Advanced Science (Weinheim, Baden-Wurttemberg, Germany). 7: 1903551. PMID 32670750 DOI: 10.1002/Advs.201903551  0.473
2020 Goodheart JA, Minsky G, Brynjegard-Bialik MN, Drummond MS, Munoz JD, Fallon TR, Schultz DT, Weng JK, Torres E, Oakley TH. Laboratory culture of the California Sea Firefly Vargula tsujii (Ostracoda: Cypridinidae): Developing a model system for the evolution of marine bioluminescence. Scientific Reports. 10: 10443. PMID 32591605 DOI: 10.1038/S41598-020-67209-W  0.763
2020 Weng JK. Plant Solutions for the COVID-19 Pandemic and Beyond: Historical Reflections and Future Perspectives. Molecular Plant. PMID 32442649 DOI: 10.1016/J.Molp.2020.05.014  0.397
2020 Torrens-Spence MP, Chiang YC, Smith T, Vicent MA, Wang Y, Weng JK. Structural basis for divergent and convergent evolution of catalytic machineries in plant aromatic amino acid decarboxylase proteins. Proceedings of the National Academy of Sciences of the United States of America. PMID 32371491 DOI: 10.1073/Pnas.1920097117  0.833
2020 Kim CY, Mitchell AJ, Glinkerman CM, Li FS, Pluskal T, Weng JK. The chloroalkaloid (-)-acutumine is biosynthesized via a Fe(II)- and 2-oxoglutarate-dependent halogenase in Menispermaceae plants. Nature Communications. 11: 1867. PMID 32313070 DOI: 10.1038/S41467-020-15777-W  0.809
2020 Jacobowitz JR, Weng JK. Exploring Uncharted Territories of Plant Specialized Metabolism in the Postgenomic Era. Annual Review of Plant Biology. PMID 32176525 DOI: 10.1146/Annurev-Arplant-081519-035634  0.832
2020 Matsumoto T, Harima S, Weng J, Nihei K. Systematic approach to the chemical synthesis of arabidopyrones, the unique α-pyrones of Arabidopsis metabolites Synthetic Communications. 1-7. DOI: 10.1080/00397911.2020.1788600  0.303
2020 Cao Y, Lim E, Xu M, Weng J, Marelli B. Plant Engineering: Precision Delivery of Multiscale Payloads to Tissue‐Specific Targets in Plants (Adv. Sci. 13/2020) Advanced Science. 7: 2070070. DOI: 10.1002/Advs.202070070  0.434
2019 Torrens-Spence MP, Bobokalonova A, Carballo V, Glinkerman CM, Pluskal T, Shen A, Weng JK. PBS3 and EPS1 complete salicylic acid biosynthesis from isochorismate in Arabidopsis. Molecular Plant. PMID 31760159 DOI: 10.1016/J.Molp.2019.11.005  0.826
2019 Torrens-Spence MP, Liu CT, Weng JK. Engineering new branches of the kynurenine pathway to produce oxo-(2-aminophenyl) and quinoline scaffolds in yeast. Acs Synthetic Biology. PMID 31714755 DOI: 10.1021/Acssynbio.9B00368  0.782
2019 Chau Y, Li FS, Levsh O, Weng JK. Exploration of icariin analog structure space reveals key features driving potent inhibition of human phosphodiesterase-5. Plos One. 14: e0222803. PMID 31539416 DOI: 10.1371/Journal.Pone.0222803  0.77
2019 Levsh O, Pluskal T, Carballo V, Mitchell AJ, Weng JK. Independent evolution of rosmarinic acid biosynthesis in two sister families under the Lamiids clade of flowering plants. The Journal of Biological Chemistry. PMID 31481469 DOI: 10.1074/Jbc.Ra119.010454  0.809
2019 Pluskal T, Torrens-Spence MP, Fallon TR, De Abreu A, Shi CH, Weng JK. The biosynthetic origin of psychoactive kavalactones in kava. Nature Plants. PMID 31332312 DOI: 10.1038/S41477-019-0474-0  0.793
2019 Christ B, Xu C, Xu M, Li FS, Wada N, Mitchell AJ, Han XL, Wen ML, Fujita M, Weng JK. Repeated evolution of cytochrome P450-mediated spiroketal steroid biosynthesis in plants. Nature Communications. 10: 3206. PMID 31324795 DOI: 10.1038/S41467-019-11286-7  0.831
2019 Cheng J, Hu G, Xu Y, Torrens-Spence MP, Zhou X, Wang D, Weng JK, Wang Q. Production of nonnatural straight-chain amino acid 6-aminocaproate via an artificial iterative carbon-chain-extension cycle. Metabolic Engineering. PMID 31220662 DOI: 10.1016/J.Ymben.2019.06.009  0.77
2019 Zhao Q, Yang J, Cui MY, Liu J, Fang Y, Yan M, Qiu W, Shang H, Xu Z, Yidiresi R, Weng JK, Pluskal T, Vigouroux M, Steuernagel B, Wei Y, et al. The Reference Genome Sequence of Scutellaria baicalensis Provides Insights into the Evolution of Wogonin Biosynthesis. Molecular Plant. PMID 30999079 DOI: 10.1016/J.Molp.2019.04.002  0.738
2019 Jacobowitz JR, Doyle WC, Weng JK. PRX9 and PRX40 are extensin peroxidases essential for maintaining tapetum and microspore cell wall integrity during Arabidopsis anther development. The Plant Cell. PMID 30886127 DOI: 10.1105/Tpc.18.00907  0.806
2019 Mitchell AJ, Weng JK. Unleashing the synthetic power of plant oxygenases: from mechanism to application. Plant Physiology. PMID 30670605 DOI: 10.1104/Pp.18.01223  0.652
2018 Li FS, Phyo P, Jacobowitz J, Hong M, Weng JK. The molecular structure of plant sporopollenin. Nature Plants. PMID 30559416 DOI: 10.1038/S41477-018-0330-7  0.82
2018 Torrens-Spence MP, Liu CT, Pluskal T, Chung YK, Weng JK. Monoamine biosynthesis via a noncanonical calcium-activatable aromatic amino acid decarboxylase in psilocybin mushroom. Acs Chemical Biology. PMID 30484626 DOI: 10.1021/Acschembio.8B00821  0.808
2018 Renault H, Werck-Reichhart D, Weng JK. Harnessing lignin evolution for biotechnological applications. Current Opinion in Biotechnology. 56: 105-111. PMID 30439673 DOI: 10.1016/J.Copbio.2018.10.011  0.493
2018 Kersten RD, Weng JK. Gene-guided discovery and engineering of branched cyclic peptides in plants. Proceedings of the National Academy of Sciences of the United States of America. PMID 30373830 DOI: 10.1073/Pnas.1813993115  0.763
2018 Chiang YC, Levsh O, Lam CK, Weng JK, Wang Y. Structural and dynamic basis of substrate permissiveness in hydroxycinnamoyltransferase (HCT). Plos Computational Biology. 14: e1006511. PMID 30365487 DOI: 10.1371/Journal.Pcbi.1006511  0.803
2018 Christ B, Pluskal T, Aubry S, Weng JK. Contribution of Untargeted Metabolomics for Future Assessment of Biotech Crops. Trends in Plant Science. PMID 30361071 DOI: 10.1016/J.Tplants.2018.09.011  0.788
2018 Fallon TR, Lower SE, Chang CH, Bessho-Uehara M, Martin GJ, Bewick AJ, Behringer M, Debat HJ, Wong I, Day JC, Suvorov A, Silva CJ, Stanger-Hall KF, Hall DW, Schmitz RJ, ... ... Weng JK, et al. Firefly genomes illuminate parallel origins of bioluminescence in beetles. Elife. 7. PMID 30324905 DOI: 10.7554/Elife.36495  0.756
2018 Liou G, Chiang YC, Wang Y, Weng JK. Mechanistic basis for the evolution of chalcone synthase catalytic cysteine reactivity in land plants. The Journal of Biological Chemistry. PMID 30291143 DOI: 10.2210/Pdb6Dxd/Pdb  0.823
2018 Ban Z, Qin H, Mitchell AJ, Liu B, Zhang F, Weng JK, Dixon RA, Wang G. Noncatalytic chalcone isomerase-fold proteins in are auxiliary components in prenylated flavonoid biosynthesis. Proceedings of the National Academy of Sciences of the United States of America. PMID 29760092 DOI: 10.1073/Pnas.1802223115  0.619
2018 Wada N, Kersten R, Iwai T, Lee S, Sakurai F, Kikuchi T, Fujita D, Fujita M, Weng JK. Crystalline Sponge-based Structural Analysis of Crude Natural Product Extracts. Angewandte Chemie (International Ed. in English). PMID 29417714 DOI: 10.1002/Anie.201713219  0.767
2018 Fallon TR, Lower SE, Chang C, Bessho-Uehara M, Martin GJ, Bewick AJ, Behringer M, Debat HJ, Wong I, Day JC, Suvorov A, Silva CJ, Stanger-Hall KF, Hall DW, Schmitz RJ, ... ... Weng J, et al. Author response: Firefly genomes illuminate parallel origins of bioluminescence in beetles Elife. DOI: 10.7554/Elife.36495.176  0.735
2018 Chiang Y, Levsh O, Kei Lam C, Weng J, Wang Y. Active Site Dynamics and Substrate Permissiveness of Hydroxylcinnamoyltransferase (HCT) Biophysical Journal. 114: 583a-584a. DOI: 10.1016/J.Bpj.2017.11.3193  0.761
2017 Torrens-Spence MP, Pluskal T, Li FS, Carballo V, Weng JK. Complete Pathway Elucidation and Heterologous Reconstitution of Rhodiola Salidroside Biosynthesis. Molecular Plant. PMID 29277428 DOI: 10.1016/J.Molp.2017.12.007  0.825
2017 Christ B, Hochstrasser R, Guyer L, Francisco R, Aubry S, Hörtensteiner S, Weng JK. Non-specific activities of the major herbicide-resistance gene BAR. Nature Plants. 3: 937-945. PMID 29180815 DOI: 10.1038/S41477-017-0061-1  0.834
2017 Kersten RD, Lee S, Fujita D, Pluskal T, Kram S, Smith JE, Iwai T, Noel JP, Fujita M, Weng JK. A Red Algal Bourbonane Sesquiterpene Synthase Defined by Microgram-scale NMR-coupled Crystalline Sponge XRD Analysis. Journal of the American Chemical Society. PMID 29083151 DOI: 10.1021/Jacs.7B09452  0.813
2017 Pluskal T, Weng JK. Natural product modulators of human sensations and mood: molecular mechanisms and therapeutic potential. Chemical Society Reviews. PMID 28933478 DOI: 10.1039/C7Cs00411G  0.693
2017 Zhao Q, Cui MY, Levsh O, Yang D, Liu J, Li J, Hill L, Yang L, Hu Y, Weng JK, Chen XY, Martin C. Two CYP82D enzymes function as flavone hydroxylases in the biosynthesis of root-specific 4'-deoxyflavones in Scutellaria baicelensis. Molecular Plant. PMID 28842248 DOI: 10.1016/J.Molp.2017.08.009  0.817
2017 Li FS, Weng JK. Demystifying traditional herbal medicine with modern approach. Nature Plants. 3: 17109. PMID 28758992 DOI: 10.1038/Nplants.2017.109  0.759
2017 Chezem WR, Memon A, Li FS, Weng JK, Clay NK. SG2-type R2R3-MYB transcription factor MYB15 controls defense-induced lignification and basal immunity in Arabidopsis. The Plant Cell. PMID 28733420 DOI: 10.1105/Tpc.16.00954  0.721
2016 Al-Wathiqui N, Fallon TR, South A, Weng JK, Lewis SM. Molecular characterization of firefly nuptial gifts: a multi-omics approach sheds light on postcopulatory sexual selection. Scientific Reports. 6: 38556. PMID 28004739 DOI: 10.1038/Srep38556  0.742
2016 Levsh O, Chiang YC, Tung CF, Noel JP, Wang Y, Weng JK. Dynamic Conformational States Dictate Selectivity toward the Native Substrate in a Substrate-Permissive Acyltransferase. Biochemistry. PMID 27805809 DOI: 10.1021/Acs.Biochem.6B00887  0.802
2016 Edgar S, Li FS, Qiao K, Weng JK, Stephanopoulos G. Engineering of Taxadiene Synthase for Improved Selectivity and Yield of a Key Taxol Biosynthetic Intermediate. Acs Synthetic Biology. PMID 27794603 DOI: 10.1021/Acssynbio.6B00206  0.703
2016 Weng JK, Ye M, Li B, Noel JP. Co-evolution of Hormone Metabolism and Signaling Networks Expands Plant Adaptive Plasticity. Cell. 166: 881-93. PMID 27518563 DOI: 10.1016/J.Cell.2016.06.027  0.623
2016 Torrens-Spence MP, Fallon TR, Weng JK. A Workflow for Studying Specialized Metabolism in Nonmodel Eukaryotic Organisms. Methods in Enzymology. 576: 69-97. PMID 27480683 DOI: 10.1016/Bs.Mie.2016.03.015  0.805
2016 Fallon TR, Li FS, Vicent MA, Weng JK. Sulfoluciferin is biosynthesized by a specialized luciferin sulfotransferase in fireflies. Biochemistry. PMID 27227579 DOI: 10.1021/Acs.Biochem.6B00402  0.788
2016 Zhao Q, Zhang Y, Wang G, Hill L, Weng JK, Chen XY, Xue H, Martin C. A specialized flavone biosynthetic pathway has evolved in the medicinal plant, Scutellaria baicalensis. Science Advances. 2: e1501780. PMID 27152350 DOI: 10.1126/Sciadv.1501780  0.415
2016 Torrens-Spence MP, Fallon TR, Weng JK. A Workflow for Studying Specialized Metabolism in Nonmodel Eukaryotic Organisms Methods in Enzymology. DOI: 10.1016/bs.mie.2016.03.015  0.805
2015 Weng JH, Hsieh YC, Huang CF, Wei TW, Lim LH, Chen YH, Ho MR, Wang I, Huang KF, Chen CJ, Tsai MD. Uncovering the mechanism of FHA domain-mediated TIFA oligomerization that plays a central role in immune responses. Biochemistry. PMID 26389808 DOI: 10.1021/Acs.Biochem.5B00500  0.385
2014 Fallon TR, Weng JK. A molecular gauge for nitrogen economy in plants. Cell. 159: 977-8. PMID 25416938 DOI: 10.1016/J.Cell.2014.11.007  0.817
2014 Weng JK. The evolutionary paths towards complexity: a metabolic perspective. The New Phytologist. 201: 1141-9. PMID 23889087 DOI: 10.1111/Nph.12416  0.493
2013 Weng JK, Noel JP. Chemodiversity in Selaginella: a reference system for parallel and convergent metabolic evolution in terrestrial plants. Frontiers in Plant Science. 4: 119. PMID 23717312 DOI: 10.3389/Fpls.2013.00119  0.688
2012 Weng JK, Noel JP. The remarkable pliability and promiscuity of specialized metabolism. Cold Spring Harbor Symposia On Quantitative Biology. 77: 309-20. PMID 23269558 DOI: 10.1101/Sqb.2012.77.014787  0.56
2012 Weng JK, Noel JP. Structure-function analyses of plant type III polyketide synthases. Methods in Enzymology. 515: 317-35. PMID 22999180 DOI: 10.1016/B978-0-12-394290-6.00014-8  0.637
2012 Weng JK, Li Y, Mo H, Chapple C. Assembly of an evolutionarily new pathway for α-pyrone biosynthesis in Arabidopsis. Science (New York, N.Y.). 337: 960-4. PMID 22923580 DOI: 10.1126/Science.1221614  0.686
2012 Weng JK, Philippe RN, Noel JP. The rise of chemodiversity in plants. Science (New York, N.Y.). 336: 1667-70. PMID 22745420 DOI: 10.1126/Science.1217411  0.674
2012 Bonawitz ND, Soltau WL, Blatchley MR, Powers BL, Hurlock AK, Seals LA, Weng JK, Stout J, Chapple C. REF4 and RFR1, subunits of the transcriptional coregulatory complex mediator, are required for phenylpropanoid homeostasis in Arabidopsis. The Journal of Biological Chemistry. 287: 5434-45. PMID 22167189 DOI: 10.1074/Jbc.M111.312298  0.81
2011 Weng JK, Akiyama T, Ralph J, Chapple C. Independent recruitment of an O-methyltransferase for syringyl lignin biosynthesis in Selaginella moellendorffii. The Plant Cell. 23: 2708-24. PMID 21742988 DOI: 10.1105/Tpc.110.081547  0.595
2011 Banks JA, Nishiyama T, Hasebe M, Bowman JL, Gribskov M, dePamphilis C, Albert VA, Aono N, Aoyama T, Ambrose BA, Ashton NW, Axtell MJ, Barker E, Barker MS, Bennetzen JL, ... ... Weng JK, et al. The Selaginella genome identifies genetic changes associated with the evolution of vascular plants. Science (New York, N.Y.). 332: 960-3. PMID 21551031 DOI: 10.1126/Science.1203810  0.811
2010 Weng JK, Mo H, Chapple C. Over-expression of F5H in COMT-deficient Arabidopsis leads to enrichment of an unusual lignin and disruption of pollen wall formation. The Plant Journal : For Cell and Molecular Biology. 64: 898-911. PMID 21143672 DOI: 10.1111/J.1365-313X.2010.04391.X  0.63
2010 Weng JK, Chapple C. The origin and evolution of lignin biosynthesis. The New Phytologist. 187: 273-85. PMID 20642725 DOI: 10.1111/J.1469-8137.2010.03327.X  0.599
2010 Li X, Bonawitz ND, Weng JK, Chapple C. The growth reduction associated with repressed lignin biosynthesis in Arabidopsis thaliana is independent of flavonoids. The Plant Cell. 22: 1620-32. PMID 20511296 DOI: 10.1105/Tpc.110.074161  0.807
2010 Weng JK, Akiyama T, Bonawitz ND, Li X, Ralph J, Chapple C. Convergent evolution of syringyl lignin biosynthesis via distinct pathways in the lycophyte Selaginella and flowering plants. The Plant Cell. 22: 1033-45. PMID 20371642 DOI: 10.1105/Tpc.109.073528  0.84
2009 Schilmiller AL, Stout J, Weng JK, Humphreys J, Ruegger MO, Chapple C. Mutations in the cinnamate 4-hydroxylase gene impact metabolism, growth and development in Arabidopsis. The Plant Journal : For Cell and Molecular Biology. 60: 771-82. PMID 19682296 DOI: 10.1111/J.1365-313X.2009.03996.X  0.789
2008 Weng JK, Banks JA, Chapple C. Parallels in lignin biosynthesis: A study in Selaginella moellendorffii reveals convergence across 400 million years of evolution. Communicative & Integrative Biology. 1: 20-2. PMID 19704782 DOI: 10.4161/Cib.1.1.6466  0.65
2008 Weng JK, Li X, Stout J, Chapple C. Independent origins of syringyl lignin in vascular plants. Proceedings of the National Academy of Sciences of the United States of America. 105: 7887-92. PMID 18505841 DOI: 10.1073/Pnas.0801696105  0.831
2008 Li X, Weng JK, Chapple C. Improvement of biomass through lignin modification. The Plant Journal : For Cell and Molecular Biology. 54: 569-81. PMID 18476864 DOI: 10.1111/J.1365-313X.2008.03457.X  0.62
2008 Weng JK, Li X, Bonawitz ND, Chapple C. Emerging strategies of lignin engineering and degradation for cellulosic biofuel production. Current Opinion in Biotechnology. 19: 166-72. PMID 18403196 DOI: 10.1016/J.Copbio.2008.02.014  0.804
2005 Wang W, Tanurdzic M, Luo M, Sisneros N, Kim HR, Weng JK, Kudrna D, Mueller C, Arumuganathan K, Carlson J, Chapple C, de Pamphilis C, Mandoli D, Tomkins J, Wing RA, et al. Construction of a bacterial artificial chromosome library from the spikemoss Selaginella moellendorffii: a new resource for plant comparative genomics. Bmc Plant Biology. 5: 10. PMID 15955246 DOI: 10.1186/1471-2229-5-10  0.593
2005 Weng JK, Tanurdzic M, Chapple C. Functional analysis and comparative genomics of expressed sequence tags from the lycophyte Selaginella moellendorffii. Bmc Genomics. 6: 85. PMID 15938755 DOI: 10.1186/1471-2164-6-85  0.574
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