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Genomic analysis of secondary metabolite biosynthesis gene clusters and structural characterization of terpene synthase and cytochrome P450 enzymes in Zingiber officinale Roscoe

Yıl 2024, Cilt: 13 Sayı: 2, 134 - 152, 31.08.2024
https://doi.org/10.54187/jnrs.1522818

Öz

This study uses bioinformatics approaches to elucidate the genetic basis of secondary metabolite biosynthesis in Zingiber officinale (Z. officinale). To this end, it identifies 44 secondary metabolite biosynthetic gene clusters and maps onto individual chromosomes, with chromosomes 1A and 8A exhibiting higher concentrations. Here, protein homology modeling provided insights into the structural characteristics of terpene synthases and Cytochrome P450 enzymes, shedding light on their potential roles in stress response and secondary metabolite production. Moreover, the identification of enzymes, such as (-)-kolavenyl diphosphate synthase TPS28 and cytochrome P450 93A3-like, opens up new possibilities for investigating the intricate pathways involved in terpene diversity and stress response mechanisms within Z. officinale. This study highlights the importance of understanding the molecular mechanisms underlying plant-derived bioactive compounds for pharmaceutical applications.

Etik Beyan

No approval from the Board of Ethics is required.

Kaynakça

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Yıl 2024, Cilt: 13 Sayı: 2, 134 - 152, 31.08.2024
https://doi.org/10.54187/jnrs.1522818

Öz

Kaynakça

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  • F. Yousfi, F. Abrigach, J. D. Petrovic, M. Sokovic, M. Ramdani, Phytochemical screening and evaluation of the antioxidant and antibacterial potential of Zingiber officinale extracts, South African Journal of Botany 142 (2021) 433–440.
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  • L. T. D. Würger, J. Alarcan, A. Braeuning, Effects of marine biotoxins on drug-metabolizing cytochrome P450 enzymes and their regulation in mammalian cells, Archives of Toxicology 98 (2024) 1311–1322.
  • E. Gumbarewicz, A. Jarząb, A. Stepulak, W. Kukula-Koch, Zingiber officinale Rosc. in the treatment of metabolic syndrome disorders-A review of in vivo studies, International Journal of Molecular Sciences 23 (24) (2022) Article Number 15545 15 pages.
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  • Z. Pang, J. Chen, T. Wang, C. Gao, Z. Li, L. Guo, J. Xu, Y. Cheng, Linking Plant Secondary Metabolites and Plant Microbiomes: A Review, Frontiers in Plant Science 12 (2021) Article Number 621276 22 pages.
  • U. Öz, Bioinformatics-based detection of secondary metabolite biosynthetic gene clusters and enzymes involved in terpene synthesis in Citrus sinensis (L.) Osbeck, South African Journal Botany 168 (2024) 32–45.
  • R. Bharadwaj, S. R. Kumar, A. Sharma, R. Sathishkumar, Plant Metabolic Gene Clusters: Evolution, Organization, and Their Applications in Synthetic Biology, Frontiers in Plant Science 12 (2021) 1–23.
  • M. Wang, Q. Ji, B. Lai, Y. Liu, K. Mei, Structure-function and engineering of plant UDP-glycosyltransferase, Computational and Structural Biotechnology Journal 21 (2023) 5358–5371.
  • R. Santhoshkumar, A. Yusuf, In silico structural modeling and analysis of physicochemical properties of curcumin synthase (CURS1, CURS2, and CURS3) proteins of Curcuma longa, Journal of Genetic Engineering and Biotechnology 18 (1) (2020) Article Number 24 9 pages.
  • M. Urošević, L. Nikolić, I. Gajić, V. Nikolić, A. Dinić, V. Miljković, Curcumin: Biological Activities and Modern Pharmaceutical Forms, Antibiotics (Basel) 11 (2) (2022) Article Number 135 27 pages.
  • K. Ashraf, A. Ahmad, A. Chaudhary, M. Mujeeb, S. Ahmad, M. Amir, N. Mallick, Genetic diversity analysis of Zingiber officinale Roscoe by RAPD collected from subcontinent of India, Saudi Journal of Biological Sciences 21 (2) (2014) 159–165.
  • S. J. Smit, B. R. Lichman, Plant biosynthetic gene clusters in the context of metabolic evolution, Natural Product Reports 39 (7) (2022) 1465–1482.
  • R. C. Rabara, C. Kudithipudi, M. P. Timko, Identification of Terpene-Related Biosynthetic Gene Clusters in Tobacco through Computational-Based Genomic, Transcriptomic, and Metabolic Analyses, Agronomy 13 (6) (2023) Article Number 1632 14 pages.
  • S. Diao, Y. Zhang, Q. Luan, X. Ding, J. Sun, J. Jiang, Identification of TPS-d subfamily genes and functional characterization of three monoterpene synthases in slash pine, Industrial Crops and Products, 188 (2022) Article Number 115609 11 pages.
  • Y. Wang, Y. C. Liu, W. Y. Li, K. Guo, Y. Liu, S. H. Li, Antifeedant, cytotoxic, and anti-inflammatory neo-clerodane diterpenoids in the peltate glandular trichomes and fresh leaves of Ajuga forrestii, Phytochemistry 186 (2021) Article Number 112731 9 pages.
  • T. Qiu, Y. Y. Li, H. Wu, H. Yang, Z. Peng, Z. Du, Q. Wu, H. Wang, Y. Shen, L. Huang, Tandem duplication and sub-functionalization of clerodane diterpene synthase originate the blooming of clerodane diterpenoids in Scutellaria barbata, The Plant Journal 116 (2) (2023) 375–388.
  • Q. Wei, K. Lan, Y. Liu, R. Chen, T. Hu, S. Zhao, X. Yin, T. Xie, Transcriptome analysis reveals regulation mechanism of methyl jasmonate-induced terpenes biosynthesis in Curcuma wenyujin, PLoS One 17 (6) (2022) Article Number e0270309 20 pages.
  • G. Nie, F. Wu, Z. Duan, S. Wang, B. Ao, P. Zhou, J. Zhang, Genome-wide analysis of the cytochrome P450 superfamily suggests its roles in coumarin biosynthesis and salt stress response in Melilotus albus, Environmental and Experimental Botany 220 (2024) Article Number 105718.
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Toplam 59 adet kaynakça vardır.

Ayrıntılar

Birincil Dil İngilizce
Konular Genomik ve Transkriptomik
Bölüm Articles
Yazarlar

Ummahan Öz 0000-0002-0281-1048

Erken Görünüm Tarihi 30 Ağustos 2024
Yayımlanma Tarihi 31 Ağustos 2024
Gönderilme Tarihi 26 Temmuz 2024
Kabul Tarihi 26 Ağustos 2024
Yayımlandığı Sayı Yıl 2024 Cilt: 13 Sayı: 2

Kaynak Göster

APA Öz, U. (2024). Genomic analysis of secondary metabolite biosynthesis gene clusters and structural characterization of terpene synthase and cytochrome P450 enzymes in Zingiber officinale Roscoe. Journal of New Results in Science, 13(2), 134-152. https://doi.org/10.54187/jnrs.1522818
AMA Öz U. Genomic analysis of secondary metabolite biosynthesis gene clusters and structural characterization of terpene synthase and cytochrome P450 enzymes in Zingiber officinale Roscoe. JNRS. Ağustos 2024;13(2):134-152. doi:10.54187/jnrs.1522818
Chicago Öz, Ummahan. “Genomic Analysis of Secondary Metabolite Biosynthesis Gene Clusters and Structural Characterization of Terpene Synthase and Cytochrome P450 Enzymes in Zingiber Officinale Roscoe”. Journal of New Results in Science 13, sy. 2 (Ağustos 2024): 134-52. https://doi.org/10.54187/jnrs.1522818.
EndNote Öz U (01 Ağustos 2024) Genomic analysis of secondary metabolite biosynthesis gene clusters and structural characterization of terpene synthase and cytochrome P450 enzymes in Zingiber officinale Roscoe. Journal of New Results in Science 13 2 134–152.
IEEE U. Öz, “Genomic analysis of secondary metabolite biosynthesis gene clusters and structural characterization of terpene synthase and cytochrome P450 enzymes in Zingiber officinale Roscoe”, JNRS, c. 13, sy. 2, ss. 134–152, 2024, doi: 10.54187/jnrs.1522818.
ISNAD Öz, Ummahan. “Genomic Analysis of Secondary Metabolite Biosynthesis Gene Clusters and Structural Characterization of Terpene Synthase and Cytochrome P450 Enzymes in Zingiber Officinale Roscoe”. Journal of New Results in Science 13/2 (Ağustos 2024), 134-152. https://doi.org/10.54187/jnrs.1522818.
JAMA Öz U. Genomic analysis of secondary metabolite biosynthesis gene clusters and structural characterization of terpene synthase and cytochrome P450 enzymes in Zingiber officinale Roscoe. JNRS. 2024;13:134–152.
MLA Öz, Ummahan. “Genomic Analysis of Secondary Metabolite Biosynthesis Gene Clusters and Structural Characterization of Terpene Synthase and Cytochrome P450 Enzymes in Zingiber Officinale Roscoe”. Journal of New Results in Science, c. 13, sy. 2, 2024, ss. 134-52, doi:10.54187/jnrs.1522818.
Vancouver Öz U. Genomic analysis of secondary metabolite biosynthesis gene clusters and structural characterization of terpene synthase and cytochrome P450 enzymes in Zingiber officinale Roscoe. JNRS. 2024;13(2):134-52.


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