Aljelehawy QH, Mohammadi S, Mohamadian E, Raji Mal Allah O, Mirzaei A, Ghahremanlou M (2023) Antimicrobial, anticancer, antidiabetic, antineurodegenerative, and antirheumatic activities of thymol: Clarification of mechanisms. Micro Nano Bio Aspects 2(1):1–7. https://doi.org/10.22034/MNBA.2023.381107.1019

Article  Google Scholar 

Almagro Armenteros JJ, Sønderby CK, Sønderby SK, Nielsen H, Winther O (2017) DeepLoc: prediction of protein subcellular localization using deep learning. Bioinformatics 33(21):3387–3395. https://doi.org/10.1093/bioinformatics/btx431

Almeida-Silva F, Venancio TM (2022) BioNERO: an all-in-one R/Bioconductor package for comprehensive and easy biological network reconstruction. Funct Integr Genomics 22(1):131–136. https://doi.org/10.1007/s10142-021-00821-9

Article  CAS  PubMed  Google Scholar 

Andersson-Gunnerås S, Mellerowicz EJ, Love J, Segerman B, Ohmiya Y, Coutinho PM, Nilsson P, Henrissat B, Moritz T, Sundberg B (2006) Biosynthesis of cellulose-enriched tension wood in Populus: global analysis of transcripts and metabolites identifies biochemical and developmental regulators in secondary wall biosynthesis. Plant J 45(2):144–165. https://doi.org/10.1111/j.1365-313X.2005.02584.x

Article  CAS  PubMed  Google Scholar 

Bergman ME, Phillips MA (2021) Structural diversity and biosynthesis of plant derived p-menthane monoterpenes. Phytochem Rev 20(2):433–459. https://doi.org/10.1007/s11101-020-09726-0

Article  CAS  Google Scholar 

Bhargav P, Chaurasia S, Kumar A, Srivastava G, Pant Y, Chanotiya CS, Ghosh S (2023) Unraveling the terpene synthase family and characterization of BsTPS2 contributing to (S)-(+)-linalool biosynthesis in Boswellia. Plant Mol Biol 113(4):219–236. https://doi.org/10.1007/s11103-023-01384-y

Article  CAS  PubMed  Google Scholar 

Bibik JD, Sahu A, Kim B, Unda F, Andersen TB, Mansfield SD, Maravelias CT, Sharkey TD, Hamberger BR (2024) Engineered poplar for bioproduction of the triterpene squalene. Plant Biotechnol J. https://doi.org/10.1111/pbi.14345

BIOVIA, Dassault Systèmes, BIOVIA Discovery Studio (2024) San Diego: Dassault Systèmes

Bleeker PM, Spyropoulou EA, Diergaarde PJ, Volpin H, De Both MT, Zerbe P, Bohlmann J, Falara V, Matsuba Y, Pichersky E, Haring MA (2011) RNA-seq discovery, functional characterization, and comparison of sesquiterpene synthases from Solanum lycopersicum and Solanum habrochaites trichomes. Plant Mol Biol 77:323–336. https://doi.org/10.1007/s11103-011-9813-x

Article  CAS  PubMed  PubMed Central  Google Scholar 

Böttger A, Vothknecht U, Bolle C, Wolf A (2018) Lessons on Caffeine, Cannabis & Co. Cham: Springer 171–8. https://doi.org/10.1007/978-3-319-99546-5_10

Burke CC, Wildung MR, Croteau R (1999) Geranyl diphosphate synthase: cloning, expression, and characterization of this prenyltransferase as a heterodimer. Proc Natl Acad Sci 96(23):3062–13067. https://doi.org/10.1073/pnas.96.23.13062

Article  Google Scholar 

Chang JM, Di Tommaso P, Lefort V, Gascuel O, Notredame C (2015) TCS: a web server for multiple sequence alignment evaluation and phylogenetic reconstruction. Nucleic Acids Res 43(W1):W3-6. https://doi.org/10.1093/nar/gkw257

Article  CAS  PubMed  PubMed Central  Google Scholar 

Chen F, Tholl D, Bohlmann J, Pichersky E (2011) The family of terpene synthases in plants: a mid-size family of genes for specialized metabolism that is highly diversified throughout the kingdom. Plant J 66(1):212–229. https://doi.org/10.1111/j.1365-313X.2011.04520.x

Article  CAS  PubMed  Google Scholar 

Christianson DW (2017) Structural and chemical biology of terpenoid cyclases. Chem Rev 117(17):11570–11648. https://doi.org/10.1021/acs.chemrev.7b00287

Article  CAS  PubMed  PubMed Central  Google Scholar 

Chuang YC, Hung YC, Tsai WC, Chen WH, Chen HH (2018) PbbHLH4 regulates floral monoterpene biosynthesis in Phalaenopsis orchids. J Exp Bot 69(18):4363–4377. https://doi.org/10.1093/jxb/ery246

Article  CAS  PubMed  PubMed Central  Google Scholar 

Crocoll C, Asbach J, Novak J, Gershenzon J, Degenhardt J (2010) Terpene synthases of oregano (Origanum vulgare L.) and their roles in the pathway and regulation of terpene biosynthesis. Plant Mol Biol 73:587–603. https://doi.org/10.1007/s11103-010-9636-1

Article  CAS  PubMed  Google Scholar 

Croteau RB, Wise ML, Katahira EJ, Savage TJ (1999) Inventors; Washington State University Research Foundation, assignee. Monoterpene synthases from common sage (Salvia officinalis). United States patent US 5,891,697

Crowell AL, Williams DC, Davis EM, Wildung MR, Croteau R (2002) Molecular cloning and characterization of a new linalool synthase. Arch Biochem Biophys 405(1):112–121. https://doi.org/10.1016/s0003-9861(02)00348-x

Article  CAS  PubMed  Google Scholar 

Dallakyan S, Olson AJ (2015) Small-molecule library screening by docking with PyRx. Chemical Biology: Methods and Protocols 243–250. https://doi.org/10.1007/978-1-4939-2269-7_19

Degenhardt J, Köllne TG, Gershenzon J (2009) Monoterpene and sesquiterpene synthases and the origin of terpene skeletal diversity in plants. Phytochemistry 70(15–16):1621–1637. https://doi.org/10.1016/j.phytochem.2009.07.030

Article  CAS  PubMed  Google Scholar 

Despinasse Y, Fiorucci S, Antonczak S, Moja S, Bony A, Nicolè F, Baudino S, Magnard JL, Jullien F (2017) Bornyl-diphosphate synthase from Lavandula angustifolia: a major monoterpene synthase involved in essential oil quality. Phytochemistry 137:24–33. https://doi.org/10.1016/j.phytochem.2017.01.015

Article  CAS  PubMed  Google Scholar 

Dinday S, Ghosh S (2023) Recent advances in triterpenoid pathway elucidation and engineering. Biotechnol Adv 108214. https://doi.org/10.1016/j.biotechadv.2023.108214

Dorman HD, Deans SG (2004) Chemical composition, antimicrobial and in vitro antioxidant properties of Monarda citriodora var. citriodora, Myristica fragrans, Origanum vulgare ssp. hirtum, Pelargonium sp. and Thymus zygis oils. J Essent Oil Res 16(2):145–150. https://doi.org/10.1080/10412905.2004.9698679

Article  CAS  Google Scholar 

Edgar RC (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32(5):1792–1797. https://doi.org/10.1093/nar/gkh340

Article  CAS  PubMed  PubMed Central  Google Scholar 

Ennajdaoui H, Vachon G, Giacalone C, Besse I, Sallaud C, Herzog M, Tissier A (2010) Trichome specific expression of the tobacco (Nicotiana sylvestris) cembratrien-ol synthase genes is controlled by both activating and repressing cis-regions. Plant Mol Biol 73:673–685. https://doi.org/10.1007/s11103-010-9648-x

Evans R, O’Neill M, Pritzel A, Antropova N, Senior A, Green T, Žídek A, Bates R, Blackwell S, Yim J, Ronneberger O (2021) Protein complex prediction with AlphaFold-Multimer. bio-archive 2021–10. https://doi.org/10.1101/2021.10.04.463034

Faith JJ, Hayete B, Thaden JT, Mogno I, Wierzbowski J, Cottarel G, Kasif S, Collins JJ, Gardner TS (2007) Large-scale mapping and validation of Escherichia coli transcriptional regulation from a compendium of expression profiles. Public Library Sci Biol 5(1):e8. https://doi.org/10.1371/journal.pbio.0050008

Article  CAS  Google Scholar 

Fayaz M, Kundan M, Gani U, Sharma P, Wajid MA, Katoch K, Babu V, Gairola S, Misra P (2023) Identification of Lipoxygenase gene repertoire of Cannabis sativa and functional characterization of CsLOX13 gene. Plant Sci 334:111780. https://doi.org/10.1016/j.plantsci.2023.111780

Article  CAS  PubMed  Google Scholar 

Filipe A, Cardoso JC, Miguel G, Anjos L, Trindade H, Figueiredo AC, Barroso J, Power DM, Marques NT (2017) Molecular cloning and functional characterization of a monoterpene synthase isolated from the aromatic wild shrub Thymus albicans. J Plant Physiol 1(218):35–44. https://doi.org/10.1016/j.jplph.2017.07.013

Forestier EC, Brown GD, Harvey D, Larson TR, Graham IA (2021) Engineering production of a novel diterpene synthase precursor in Nicotiana benthamiana. Front Plant Sci 12:757186. https://doi.org/10.3389/fpls.2021.757186

Article  PubMed  PubMed Central  Google Scholar 

Gao P, Xin Z, Zheng ZL (2008) The OSU1/QUA2/TSD2-encoded putative methyltransferase is a critical modulator of carbon and nitrogen nutrient balance response in Arabidopsis. Public Library Sci One 3(1):e1387. https://doi.org/10.1371/journal.pone.0001387

Article  CAS  Google Scholar 

Gontar Ł, Geszprych A, Przybył J, Buła M, Osińska E (2022) Chemical variability of lemon beebalm (Monarda citriodora Cerv. ex Lag.) during plant phenology. J Appl Res Med Aromat Plants 31:100433. https://doi.org/10.1016/j.jarmap.2022.100433

Article  CAS  Google Scholar 

Guindon S, Gascuel O (2003) A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 52(5):696–704. https://doi.org/10.1080/10635150390235520

Article  PubMed  Google Scholar 

Guindon S, Dufayard JF, Lefort V, Anisimova M, Hordijk W, Gascuel O (2010) New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Syst Biol 59(3):307–321. https://doi.org/10.1093/sysbio/syq010

Article  CAS  PubMed  Google Scholar 

Gutensohn M, Nagegowda DA, Dudareva N (2013) Involvement of compartmentalization in monoterpene and sesquiterpene biosynthesis in plants. Isoprenoid Synthesis in Plants and Microorganisms: New Concepts and Experimental Approaches 155–69. https://doi.org/10.1007/978-1-4614-4063-5_11

Hornyák M, Dziurka M, Kula-Maximenko M, Pastuszak J, Szczerba A, Szklarczyk M, Płażek A (2022) Photosynthetic efficiency, growth and secondary metabolism of common buckwheat (Fagopyrum esculentum Moench) in different controlled-environment production systems. Sci Rep 12(1):257. https://doi.org/10.1038/s41598-021-04134-6

Article  CAS  PubMed  PubMed Cen