Three cytochrome P450 enzymes catalyse the formation of furanoclerodane precursors in Salvia spp. DOI Open Access
Ruoxi Lin, Haixiu Li, Yiren Xiao

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Oct. 17, 2024

Abstract Salvia species native to the Americas are rich in valuable bioactive furanoclerodanes, like psychoactive salvinorin A found divinorum , which is used treatment of opioid addiction. However, there relatively little known about their biosynthesis. To address this, we investigated biosynthesis salviarin, simplest furanoclerodane structure ornamental sage splendens . Using a self-organizing map and mutual rank analysis RNA-seq co-expression data, identified three cytochrome P450 enzymes responsible for converting kolavenol into salviarin precursors, consecutively: annonene, hardwickiic acid hautriwaic acid. As annonene have also been proposed as intermediates A, examine our hypothesis common evolutionary origin pathway between two species, searched homologous genes available data S. The encoded by orthologous from displayed synthase (SdKLS), (SdANS), (SdHDAS) activity respectively, supporting view that these intermediate steps A. We role gene duplication evolution this specific activity. Our work shows how can serve model studying furanoclerodanes contributes understanding specialized metabolism plants, provides new tools produce biotechnological chassis.

Language: Английский

Deciphering the biosynthetic pathway of triterpene saponins in Prunella vulgaris DOI
Sijie Liu,

Zhengtai Liu,

Bin Shao

et al.

The Plant Journal, Journal Year: 2025, Volume and Issue: 121(2)

Published: Jan. 1, 2025

SUMMARY The traditional Chinese medicinal plant Prunella vulgaris contains numerous triterpene saponin metabolites, notably ursolic and oleanolic acid saponins, which have significant pharmacological values. Despite their importance, the genes responsible for synthesizing these saponins in P. remain unidentified. This study used a comprehensive screening methodology, combining phylogenetic analysis, gene expression assessment, metabolome–transcriptome correlation co‐expression to identify candidate involved biosynthesis. Nine – two OSCs, three CYP716s four UGT73s were precisely identified from large families comprising hundreds of members. These subjected heterologous functional characterization, with enzymatic activity assays confirming roles biosynthetic pathway, aligning bioinformatics predictions. Analysis revealed that originated whole‐genome duplication (WGD) event , highlighting potential importance WGD metabolism. addresses knowledge gap biosynthesis establishing theoretical foundation industrial production via synthetic biology. Additionally, we present an efficient methodological protocol integrates evolutionary principles techniques metabolite research. approach holds value studies focused on unraveling various pathways.

Language: Английский

Citations

2
Single-cell RNA sequencing facilitates the elucidation of the complete biosynthesis of the antidepressant hyperforin in St. John’s wort DOI
Song Wu, Ana Luísa Malaco Morotti, Jun Yang

et al.

Molecular Plant, Journal Year: 2024, Volume and Issue: 17(9), P. 1439 - 1457

Published: Aug. 12, 2024

Language: Английский

Citations

9
Unraveling the specialized metabolic pathways in medicinal plant genomes: a review DOI Creative Commons
Mingcheng Wang, Shuqiao Zhang, Rui Li

et al.

Frontiers in Plant Science, Journal Year: 2024, Volume and Issue: 15

Published: Dec. 24, 2024

Medicinal plants are important sources of bioactive specialized metabolites with significant therapeutic potential. Advances in multi-omics have accelerated the understanding metabolite biosynthesis and regulation. Genomics, transcriptomics, proteomics, metabolomics each contributed new insights into biosynthetic gene clusters (BGCs), metabolic pathways, stress responses. However, single-omics approaches often fail to fully address these complex processes. Integrated provides a holistic perspective on key regulatory networks. High-throughput sequencing emerging technologies like single-cell spatial omics deepened our cell-specific spatially resolved dynamics. Despite advancements, challenges remain managing large datasets, standardizing protocols, accounting for dynamic nature metabolism, effectively applying synthetic biology sustainable production. This review highlights recent progress omics-based research medicinal plants, discusses available bioinformatics tools, explores future trends aimed at leveraging integrated improve quality utilization plant resources.

Language: Английский

Citations

9
Multiomics analyses of two Leonurus species illuminate leonurine biosynthesis and its evolution DOI Creative Commons
Peng Li, Mengxiao Yan, Pan Liu

et al.

Molecular Plant, Journal Year: 2023, Volume and Issue: 17(1), P. 158 - 177

Published: Nov. 10, 2023

Language: Английский

Citations

21
Gap-free genome assembly andCYP450gene family analysis reveal the biosynthesis of anthocyanins inScutellaria baicalensis DOI Creative Commons
Tianlin Pei,

Sanming Zhu,

Weizhi Liao

et al.

Horticulture Research, Journal Year: 2023, Volume and Issue: 10(12)

Published: Nov. 17, 2023

Abstract Scutellaria baicalensis Georgi, a member of the Lamiaceae family, is widely utilized medicinal plant. The flavones extracted from S. contribute to numerous health benefits, including anti-inflammatory, antiviral, and anti-tumor activities. However, incomplete genome assembly hinders biological studies on baicalensis. This study presents first telomere-to-telomere (T2T) gap-free through integration Pacbio HiFi, Nanopore ultra-long Hi-C technologies. A total 384.59 Mb size with contig N50 42.44 was obtained, all sequences were anchored into nine pseudochromosomes without any gap or mismatch. In addition, we analysed major cyanidin- delphinidin-based anthocyanins involved in determination blue-purple flower using widely-targeted metabolome approach. Based genome-wide identification Cytochrome P450 (CYP450) gene three genes (SbFBH1, 2, 5) encoding flavonoid 3′-hydroxylases (F3′Hs) one (SbFBH7) 3′5′-hydroxylase (F3′5′H) found hydroxylate B-ring flavonoids. Our enrich genomic information available for family provide toolkit discovering CYP450 decoration.

Language: Английский

Citations

16
Genome-wide identification, stress- and hormone-responsive expression characteristics, and regulatory pattern analysis of Scutellaria baicalensis SbSPLs DOI Creative Commons
Jiawen Wu, Ziyi Zhao,

Renchuan Hu

et al.

Plant Molecular Biology, Journal Year: 2024, Volume and Issue: 114(2)

Published: Feb. 16, 2024

Abstract SQUAMOSA PROMOTER BINDING PROTEIN-LIKEs ( SPLs ) encode plant-specific transcription factors that regulate plant growth and development, stress response, metabolite accumulation. However, there is limited information on Scutellaria baicalensis . In this study, 14 SbSPLs were identified divided into 8 groups based phylogenetic relationships. in the same group had similar structures. Abscisic acid-responsive (ABRE) MYB binding site (MBS) cis-acting elements found promoters of 6 Segmental duplications transposable main causes SbSPL expansion. Expression analysis transcriptional profiling showed SbSPL1 , SbSPL10 SbSPL13 highly expressed roots, stems, flowers, respectively. quantitative real-time polymerase chain reaction (RT‒qPCR) most responded to low temperature, drought, abscisic acid (ABA) salicylic (SA), among which expression levels SbSPL7/9/10/12 significantly upregulated response abiotic stress. These results indicate are involved growth, development S. addition, Sba-miR156/157 s identified, SbSPL1-5 was a potential target s. The gene prediction coexpression together indicated may be regulation L-phenylalanine (L-Phe), lignin jasmonic (JA) biosynthesis. summary, identification characterization family lays foundation for functional research provides reference improved breeding resistance quality traits.

Language: Английский

Citations

5
Novel Tri-Segmented Rhabdoviruses: A Data Mining Expedition Unveils the Cryptic Diversity of Cytorhabdoviruses DOI Creative Commons
Nicolás Bejerman, Ralf G. Dietzgen, Humberto Debat

et al.

Viruses, Journal Year: 2023, Volume and Issue: 15(12), P. 2402 - 2402

Published: Dec. 10, 2023

Cytorhabdoviruses (genus Cytorhabdovirus, family Rhabdoviridae) are plant-infecting viruses with enveloped, bacilliform virions. Established members of the genus Cytorhabdovirus have unsegmented single-stranded negative-sense RNA genomes (ca. 10–16 kb) which encode four to ten proteins. Here, by exploring large publicly available metatranscriptomics datasets, we report identification and genomic characterization 93 novel genetic evolutionary cues cytorhabdoviruses. Strikingly, five unprecedented tri-segmented were also identified. This finding represents first in Rhabdoviridae, they should be classified a within this for suggest name “Trirhavirus”. Interestingly, nucleocapsid polymerase only typical rhabdoviral proteins encoded those viruses, whereas three them, protein similar emaravirus (family Fimoviridae) silencing suppressor was found, while other predicted had no matches any sequence databases. Genetic distance insights that all these may represent species. Phylogenetic analyses, both previously plant rhabdoviruses, provide compelling support division into distinct genera. proposed reclassification not enhances our understanding dynamics group rhabdoviruses but illuminates remarkable diversity encompass. study significant expansion genomics cytorhabdoviruses will enable future research on peculiarity shows plasticity rhabdovirus genome organization discovery unique trajectory.

Language: Английский

Citations

12
Haplotype-resolved genome of Agastache rugosa (Huo Xiang) provides insight into monoterpenoid biosynthesis and gene cluster evolution DOI Creative Commons
Chanchan Liu, Dishuai Li,

Jingjie Dang

et al.

Horticulture Research, Journal Year: 2025, Volume and Issue: 12(5)

Published: Feb. 1, 2025

Abstract Monoterpenoids are small volatile molecules produced by many plants that have applications in consumer products and healthcare. Plants from the mint family (Lamiaceae) prodigious producers of monoterpenoids, including a chemotype Agastache rugosa (Huo Xiang), which produces pulegone isomenthone. We sequenced, assembled annotated haplotype-resolved chromosome-scale genome assembly A. with monoterpene chemotype. This revealed biosynthesis genes biosynthetic gene cluster, shares common origin cluster Schizonepeta tenuifolia. Using phylogenetics synteny analysis, we describe how clusters these two species diverged through inversions duplications. Hi-C identified tentative evidence contact between an array reductases, both regions also enriched retrotransposons. its analysis add valuable novel insights to organization evolution terpenoid Lamiaceae.

Language: Английский

Citations

0
Chromosome-level genome assembly provides insights into the genome evolution and functional importance of the phenylpropanoid–flavonoid pathway in Thymus mongolicus DOI Creative Commons
Zhenhua Dang, Ying Xu, Xin Zhang

et al.

BMC Genomics, Journal Year: 2024, Volume and Issue: 25(1)

Published: March 19, 2024

Thymus mongolicus (family Lamiaceae) is a Thyme subshrub with strong aroma and remarkable environmental adaptability. Limited genomic information limits the use of this plant.

Language: Английский

Citations

2
Bioinformatic Identification and Expression Analyses of the MAPK–MAP4K Gene Family Reveal a Putative Functional MAP4K10-MAP3K7/8-MAP2K1/11-MAPK3/6 Cascade in Wheat (Triticum aestivum L.) DOI Creative Commons
Yongliang Li, You Li,

Xiaoxiao Zou

et al.

Plants, Journal Year: 2024, Volume and Issue: 13(7), P. 941 - 941

Published: March 24, 2024

The mitogen-activated protein kinase (MAPK) cascades act as crucial signaling modules that regulate plant growth and development, response to biotic/abiotic stresses, immunity. MAP3Ks can be activated through MAP4K phosphorylation in non-plant systems, but this has not been reported plants date. Here, we identified a total of 234 putative TaMAPK family members wheat (Triticum aestivum L.). They included 48 MAPKs, 17 MAP2Ks, 144 MAP3Ks, 25 MAP4Ks. We conducted systematic analyses the evolution, domain conservation, interaction networks, expression profiles these TaMAPK–TaMAP4K (representing TaMAPK, TaMAP2K, TaMAP3K, TaMAP4K) members. TaMAPK–TaMAP4Ks are distributed on 21 chromosomes one unknown linkage group (Un). Notably, TaMAP4K possessed conserved motifs genes, including glycine-rich motif, invariant lysine (K) HRD DFG signature motif. TaMAPK3 6, TaMAP4K10/24 were shown strongly expressed only throughout development stages also drought or heat stress. bioinformatics qRT-PCR results suggested may activate MAP4K10–MEKK7–MAP2K11–MAPK6 pathway increase resistance wheat, MAP4K10–MAP3K8–MAP2K1/11-MAPK3 involved growth. In general, our work MAPK–MAP4K cascade profiled their potential roles during abiotic stresses based pattern. characterized might good candidates for future crop improvement molecular breeding.

Language: Английский

Citations

2