{"title":"Integrated transcriptome and metabolome analyses reveal divergent developmental in primary rhizome axis and branching rhizomes of Rheum officinale Baill.","authors":"Xiuzhi Wang, Jiaqi Wu, Xiaolin Wan, Tianrun Zhu, Qiang Xiao","doi":"10.1016/j.jarmap.2025.100691","DOIUrl":"10.1016/j.jarmap.2025.100691","url":null,"abstract":"<div><div><em>Rheum officinale</em> Baill<em>.</em> is a key species in traditional Chinese medicine, valued for its significant medicinal properties and economic importance. Rhizome enlargement plays a critical role in the accumulation of bioactive compounds. In this study, we conducted integrated transcriptomic and metabolomic analyses to elucidate the molecular mechanisms underlying the divergent development of the primary rhizome axis (PR) and branching rhizomes (BR). A total of 1220 DAMs were identified between PR and BR, including 276 organic acids and 195 amino acids and their derivatives. These DAMs were significantly enriched in tryptophan metabolism and other key metabolic pathways. Transcriptomic profiling revealed 36,204 DEGs, comprising 21,198 upregulated and 29,984 downregulated genes in PR, with significant enrichment in secondary metabolite biosynthesis, phenylpropanoid biosynthesis, and tryptophan metabolism pathways. A total of 2901 TFs were annotated, among which the bZIP family was the most abundant. Notably, 227 TFs exhibited differential expressions, with the AP2/ERF-ERF subfamily being the most represented. Moreover, genes involved in hormone signaling, including TIR1, GH3, AHP, and A-ARR, were significantly downregulated in BR, suggesting their potential roles in promoting branching rhizome enlargement. Collectively, these findings provide novel insights into the transcriptional and metabolic regulation of rhizome differentiation in <em>R. officinale</em> and offer practical implications for post-harvest utilization: PR, due to their intact morphology, are more suitable for fresh slicing and industrial processing, whereas BR, with more complex structures and enriched metabolite profiles, may be better suited for pharmacological and functional applications.</div></div>","PeriodicalId":15136,"journal":{"name":"Journal of Applied Research on Medicinal and Aromatic Plants","volume":"50 ","pages":"Article 100691"},"PeriodicalIF":3.6,"publicationDate":"2026-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145733202","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Mengyao Lu , Yangguang Dai , Shang Liu , Guohua Xia , Yuping Shen , Le Zhang , Huan Yang
{"title":"Ruscogenin production from Ophiopogon japonicus extract by novel pressurized hydrolysis with solid acid Amberlyst-15","authors":"Mengyao Lu , Yangguang Dai , Shang Liu , Guohua Xia , Yuping Shen , Le Zhang , Huan Yang","doi":"10.1016/j.jarmap.2025.100692","DOIUrl":"10.1016/j.jarmap.2025.100692","url":null,"abstract":"<div><div>Ruscogenin (25D-spirost-5-ene-1β,3β-diol; CAS No: 472–11–7), an important plant-derived natural product, exhibits significant anti-tumor, anti-inflammatory, and antioxidant activities. Traditionally, it is produced via inorganic acid hydrolysis, a process that poses serious environmental concerns. Solid acid catalysts, widely applied in hydrolysis, esterification, olefin polymerization, and other chemical transformations, offer a promising alternative to conventional acid-based methods. In this study, a novel strategy was developed by utilizing solid acid catalyst Amberlyst-15 under pressurized conditions for the first time, in which the extract of <em>Ophiopogon japonicus</em> root was hydrolyzed for ruscogenin production. Hydrolysis parameters were optimized using one-factor-at-a-time experiments followed by response surface methodology. Under optimal conditions - Amberlyst-15 usage of 0.48 g, hydrolysis temperature of 91°C, and reaction time of 4.5 h – the highest ruscogenin yield of 30.11 % was achieved. Importantly, a high yield maintained at 18.26 % even after seven consecutive reaction cycles of the catalyst for pressurized hydrolysis, well demonstrating its good reusability in this application. The newly established approach was environmental-friendly, offering a green and cost-effective alternative for ruscogenin production.</div></div>","PeriodicalId":15136,"journal":{"name":"Journal of Applied Research on Medicinal and Aromatic Plants","volume":"50 ","pages":"Article 100692"},"PeriodicalIF":3.6,"publicationDate":"2026-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145786510","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Sujing He , Jiangna Wang , Ning Yang , Hongwei Li , Kunqian Li , Lin Li , Wei’e Wen , Tingting Luo , Juanjuan Zhao , Delin Xu
{"title":"Regulatory mechanisms underlying stress-induced accumulation of plant secondary metabolites","authors":"Sujing He , Jiangna Wang , Ning Yang , Hongwei Li , Kunqian Li , Lin Li , Wei’e Wen , Tingting Luo , Juanjuan Zhao , Delin Xu","doi":"10.1016/j.jarmap.2025.100689","DOIUrl":"10.1016/j.jarmap.2025.100689","url":null,"abstract":"<div><div>Plant secondary metabolites (PSMs) are the primary source of bioactive compounds in medicinal and aromatic plants, whose biosynthesis is profoundly influenced by environmental stresses. While the induction of PSMs by abiotic and biotic stressors is well-documented, a systematic synthesis of the underlying molecular orchestrators—spanning signal perception, transduction, and transcriptional regulation—remains less explored in an applied context. This review comprehensively delineates the impact of diverse stresses on the accumulation of major PSMs and elucidates the intricate signaling networks they activate. We critically evaluate the molecular machineries, from phytohormone signaling and reactive oxygen species (ROS) to key transcription factors and structural genes, that collectively reprogram metabolic pathways to enhance the production of valuable compounds. A central novelty of this work lies in its forward-looking perspective, which bridges fundamental mechanistic understanding with applied metabolic engineering strategies. We specifically highlight how emerging approaches-such as targeted elicitation, CRISPR-based genome editing, and the engineering of stress signaling components-can be harnessed to rationally enhance PSM yields in medicinal and aromatic plants. Ultimately, this review provides a strategic framework for leveraging plant stress responses to develop robust, high-yielding production platforms for plant-derived pharmaceuticals and nutraceuticals.</div></div>","PeriodicalId":15136,"journal":{"name":"Journal of Applied Research on Medicinal and Aromatic Plants","volume":"50 ","pages":"Article 100689"},"PeriodicalIF":3.6,"publicationDate":"2026-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145691156","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Qiaohuan Chen , Jia Zhou , Jinxin Li , Ling Gong , Yuhuan Miao , Dahui Liu
{"title":"Identification, biological characteristics, and fungicidal control of pathogens causing root diseases in Chrysanthemum morifolium (Ramat.) Hemal","authors":"Qiaohuan Chen , Jia Zhou , Jinxin Li , Ling Gong , Yuhuan Miao , Dahui Liu","doi":"10.1016/j.jarmap.2025.100693","DOIUrl":"10.1016/j.jarmap.2025.100693","url":null,"abstract":"<div><div><em>Chrysanthemum morifolium</em> (Ramat.) Hemal. is a widely cultivated medicinal and edible herb in China, cherished for its substantial economic value and therapeutic benefits. However, root diseases pose a severe threat to its yield stability and quality integrity. From 2019–2020, diseased plants of <em>C</em>. <em>morifolium</em> showing rot symptoms were collected from five major production regions across China. Based on detailed symptomatological observations, the root diseases were classified into three types: wilt, root rot, and southern blight. To identify the causal agents, pure fungal isolates were obtained, and pathogenicity assays were conducted to fulfill Koch’s postulates. Through phylogenetic analysis of three gene regions, including internal transcribed spacer (<em>ITS</em>), large subunit of ribosomal DNA (<em>LSU</em>), and the translation elongation factor 1-alpha (<em>TEF-1α</em>) gene, the pathogens responsible for wilt, root rot, and southern blight were determined to be <em>Fusarium oxysporum</em>, <em>Fusarium solani</em>, and <em>Agroathelia rolfsii</em> respectively. Biological characterization revealed that the o ptimal growth temperatures for <em>Fusarium</em> spp. and <em>A. rolfsii</em> were 28°C and 30°C, respectively. Additionally, prolonged light exposure and extreme pH conditions were found to inhibit pathogens growth. Fungicidal screening results indicated that environmentally friendly fungicides, such as <em>Bacillus subtilis</em>, ethylicin, fluorosiconazole, and difenoconazole, are promising candidates for application during <em>C. morifolium</em> cultivation. This study provides a scientific basis for developing effective management strategies to mitigate root diseases in <em>C. morifolium</em> production.</div></div>","PeriodicalId":15136,"journal":{"name":"Journal of Applied Research on Medicinal and Aromatic Plants","volume":"50 ","pages":"Article 100693"},"PeriodicalIF":3.6,"publicationDate":"2026-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145836430","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Ariadne G.L.P. Gonçalves, Bruna C. Padoin, Felipe Z. Perleberg, Lana A. Bratz, Paola A. Mello, Rochele S. Picoloto
{"title":"Contamination of mercury in medicinal plants: Development and validation of a green analytical method","authors":"Ariadne G.L.P. Gonçalves, Bruna C. Padoin, Felipe Z. Perleberg, Lana A. Bratz, Paola A. Mello, Rochele S. Picoloto","doi":"10.1016/j.jarmap.2025.100688","DOIUrl":"10.1016/j.jarmap.2025.100688","url":null,"abstract":"<div><div>The increasing consumption of medicinal plants has highlighted the importance of rigorous quality control, particularly concerning contamination by toxic elements, such as mercury (Hg). Even at trace levels, Hg exposure poses significant health risks, including neurotoxicity, nephrotoxicity, and endocrine disruption. Therefore, sensitive and reliable analytical methods are essential for its determination. In this study, a microwave-assisted wet digestion in a pressurized digestion cavity (MAWD-PDC) method was developed and validated for the determination of Hg in medicinal plants commonly used for anxiety treatment. Mercury was quantified by cold vapor generation coupled to inductively coupled plasma mass spectrometry (CVG-ICP-MS). Using a high sample mass (2.0 g), a diluted acid solution (8 mol L<sup>−1</sup> HNO<sub>3</sub>), and a microwave irradiation program of 20 min at 250 °C, the effective decomposition of all medicinal plants was achieved. The validation of the proposed method was carried out according to the Eurachem guidelines, demonstrating a good linearity (R² > 0.9995), precision (8 %), accuracy (99 %), robustness (7 %), low limits of detection (0.101 ng g<sup>−1</sup>), and quantification (0.300 ng g<sup>−1</sup>). The proposed method was also considered environmentally friendly because it requires only diluted acid for the digestion of medicinal plants, reducing the toxic laboratory residues. Moreover, it is one of the few methods that enable digestion of a 2.0 g sample using only diluted acids, allowing Hg determination at ultra-low concentrations. Finally, the proposed method can be recommended for the quality control of Hg in medicinal plants, ensuring the safe consumption of these plants by the population.</div></div>","PeriodicalId":15136,"journal":{"name":"Journal of Applied Research on Medicinal and Aromatic Plants","volume":"50 ","pages":"Article 100688"},"PeriodicalIF":3.6,"publicationDate":"2026-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145691155","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Haejin Kwon , Jiwon Yoon , Bokyeong Kim , Jae Kwang Kim , Sang Un Park , Chanung Park
{"title":"Integrative metabolic and gene expression analysis of Eschscholzia californica organs highlights antioxidant activity","authors":"Haejin Kwon , Jiwon Yoon , Bokyeong Kim , Jae Kwang Kim , Sang Un Park , Chanung Park","doi":"10.1016/j.jarmap.2025.100685","DOIUrl":"10.1016/j.jarmap.2025.100685","url":null,"abstract":"<div><div><em>Eschscholzia californica</em> Cham. of the Papaveraceae family has distinct features, including bright orange flowers and root-specialised benzylisoquinoline alkaloid (BIA) production. Metabolic studies of <em>E</em>. <em>californica</em> have mainly focused on BIA biosynthesis, but investigations of the biosynthesis of carotenoids and other compounds have remained limited to date. Thus, this study aimed to elucidate secondary metabolites (BIAs, carotenoids, and phenylpropanoids) based on a comprehensive investigation including biosynthesis gene expression analysis, metabolite profiling of primary metabolites, and antioxidant potential determination in <em>E. californica</em> organs. A total of 58 metabolites were identified, and secondary metabolite accumulation generally corresponded to the expression patterns of their biosynthesis genes. Further multivariate analysis of antioxidant assay data revealed that the strongest antioxidant activity observed in the flowers may be due to their high contents of phenolics, flavonoids, and some amino acids. This study demonstrates that some key bioactive metabolites modulating antioxidant activity are organ-specific, emphasising the importance of selecting organs to improve the acquisition of specific bioactive compounds for applications in <em>E</em>. <em>californica</em>.</div></div>","PeriodicalId":15136,"journal":{"name":"Journal of Applied Research on Medicinal and Aromatic Plants","volume":"50 ","pages":"Article 100685"},"PeriodicalIF":3.6,"publicationDate":"2026-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145621736","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Murat Ozdemir , Veranur Gungor-Bilgicer , Coskun Aydiner
{"title":"A response surface methodology approach for optimization of ultrasound-assisted extraction of bioactive compounds from galangal (Alpinia officinarum)","authors":"Murat Ozdemir , Veranur Gungor-Bilgicer , Coskun Aydiner","doi":"10.1016/j.jarmap.2025.100682","DOIUrl":"10.1016/j.jarmap.2025.100682","url":null,"abstract":"<div><div>The effects of three independent variables, including temperature (20–60 °C), time (10–60 min), and solvent-to-solid (s/s) ratio (10:1–30:1 mL/g) on the dependent variables, including total phenolic content (TPC), total flavonoid content (TFC), DPPH (2,2-diphenyl-1-picrylhydrazyl), and ABTS (2,2′-Azino-bis (3-ethylbenzothiazoline-6-sulfonic acid) diammonium salt) of galangal (<em>Alpinia officinarum</em>) extracts, were investigated using a Box-Behnken design (BBD) and optimized through response surface methodology (RSM). Optimal ultrasound-assisted extraction (UAE) conditions were achieved at an extraction temperature of 47.51 °C, an extraction time of 52.66 min, and s/s ratio of 30 mL/g, yielding TPC of 64.74 mg gallic acid equivalents (GAE)/g sample dry weight (DW), TFC of 134.54 mg quercetin equivalents (QE)/g sample DW, DPPH inhibition of 48.49 %, and ABTS activity of 167.98 mM Trolox equivalents (TE)/mL extract. UAE produced considerably higher values of TPC, TFC, DPPH, and ABTS than conventional solvent extraction. Scanning electron microscopy (SEM) revealed notable microstructural changes in galangal tissues treated with various extraction methods, while the raw galangal tissue had an intact and non-porous structure. UAE induced pronounced surface disruptions, enhancing solvent penetration and providing higher extraction efficiency compared to conventional solvent extraction. The results demonstrate that UAE is better than conventional solvent extraction for recovering bioactive compounds from plant materials, and it has high potential as an alternative extraction method for industrial applications.</div></div>","PeriodicalId":15136,"journal":{"name":"Journal of Applied Research on Medicinal and Aromatic Plants","volume":"50 ","pages":"Article 100682"},"PeriodicalIF":3.6,"publicationDate":"2026-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145532672","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Ming Zhang , Kai-xuan Shi , Jia Jiang , Qiao-chu Ma , Wan-bo Ding , Qing-ni Peng , Ya-ping Shi , Mei-long Liu , Zhi Sun , Ming Li , Sheng Wang
{"title":"Effects of neutral and alkaline salt stress on seed germination, physiological and biochemical properties of Andrographis paniculata (Burm.f.) Wall. ex Nees","authors":"Ming Zhang , Kai-xuan Shi , Jia Jiang , Qiao-chu Ma , Wan-bo Ding , Qing-ni Peng , Ya-ping Shi , Mei-long Liu , Zhi Sun , Ming Li , Sheng Wang","doi":"10.1016/j.jarmap.2025.100686","DOIUrl":"10.1016/j.jarmap.2025.100686","url":null,"abstract":"<div><div>Salinity and alkalinity are major environmental stresses limiting seed germination and early seedling establishment, particularly in medicinal plants cultivated in saline regions. <em>Andrographis paniculata</em> (Burm.f.) Wall. ex Nees, an important traditional medicinal species, exhibits potential salt tolerance, yet its germination response to different salt types remains unclear. In this study, seeds were exposed to two neutral salts (NaCl and Na₂SO₄) and two alkaline salts (NaHCO₃ and Na₂CO₃) at equivalent Na⁺ concentrations to evaluate their effects on germination and associated physiological-biochemical traits. Parameters measured included germination rate, germination energy, relative salt injury rate, germination index, vigor index, root length, fresh weight, and the activities of antioxidant enzymes (SOD, CAT, POD) together with malondialdehyde (MDA) content. Both neutral and alkaline salts inhibited germination to varying degrees. Under moderate neutral salt levels (25–50 mM), antioxidant enzyme activities increased, followed by a decline as salinity intensified, whereas alkaline salts caused more pronounced and continuous inhibition of germination and enzyme activity. The tolerance ranking of <em>A. paniculata</em> to the four salts was NaCl > Na₂SO₄ > NaHCO₃ > Na₂CO₃. These results indicate that <em>A. paniculata</em> is relatively tolerant to chloride-type neutral salts but sensitive to carbonate-type alkaline salts, providing a scientific basis for selecting salt-tolerant germplasm and guiding cultivation in saline–alkaline soils.</div></div>","PeriodicalId":15136,"journal":{"name":"Journal of Applied Research on Medicinal and Aromatic Plants","volume":"50 ","pages":"Article 100686"},"PeriodicalIF":3.6,"publicationDate":"2026-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145621737","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Optimization of natural deep eutectic solvent extraction process and activity study of total flavonoids from Dalbergia benthami prain","authors":"Bingyou Luo, Haiyu Yang, Jianwei Luo, Kunying Yu, Peiyuan Li, Jianhua Wei, Haiyi Zhong","doi":"10.1016/j.jarmap.2025.100662","DOIUrl":"10.1016/j.jarmap.2025.100662","url":null,"abstract":"<div><div>This study employed natural deep eutectic solvents (NADES) combined with ultrasound-assisted extraction to optimize the extraction process of total flavonoids from <em>Dalbergia benthami</em> Prain. Through single-factor experiments and response surface optimization, the optimal extraction conditions were determined as: Optimal NADES-11, composed of betaine and urea (molar ratio 1:2, 42 % moisture content), solid-liquid ratio 1:30 g/mL, extraction temperature 64°C, and an ultrasound duration of 41 min. Under these conditions, the total flavonoid yield reached 202.04 mg/g. Infrared spectroscopy analysis confirmed the successful preparation of NADES, and scanning electron microscopy observation revealed that NADES exhibited enhanced penetration and erosion capabilities, which facilitated the extraction of total flavonoids. Further studies found that the total flavonoids from <em>Dalbergia benthami</em> Prain had significant in vitro antioxidant activity, with the highest DPPH radical and ABTS radical scavenging rates reaching 92.02 % and 94.79 %, respectively. In addition, the total flavonoids in NADES-11 showed a highly significant synergistic antibacterial effect on <em>Escherichia coli</em> and <em>Staphylococcus aureus</em>. This study demonstrates that NADES-11 exhibits a higher extraction efficiency for the total flavonoids from <em>Dalbergia benthami</em> Prain than traditional organic solvents. It also boasts advantages like environmental friendliness. This research provides novel ideas and methods for the exploitation and utilization of <em>Dalbergia benthami</em> Prain, a precious and rare traditional Chinese medicine resource, and paves the way for its further comprehensive development and application.</div></div>","PeriodicalId":15136,"journal":{"name":"Journal of Applied Research on Medicinal and Aromatic Plants","volume":"49 ","pages":"Article 100662"},"PeriodicalIF":3.6,"publicationDate":"2025-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145120194","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Microsatellite marker resource, genetic diversity, bottleneck, and expected habitat inferences for conservation of critically endangered Saussurea costus (Falc.) Lipsch","authors":"Aasim Majeed , Amna Devi , Balraj Sharma , Mamta Masand , Shivani Sandal , Ram Kumar Sharma","doi":"10.1016/j.jarmap.2025.100673","DOIUrl":"10.1016/j.jarmap.2025.100673","url":null,"abstract":"<div><div><em>Saussurea costus</em> (Falc.) is an important medicinal herb known to treat diverse medical ailments that require an immediate conservation effort to rescue its natural genetic resources. This study aimed to implement an integrative use of molecular and climatic data to assess population genetics, genetic structure, and habitat suitability providing comprehensive insights to facilitate conservation strategies. The phylogenetic analysis using 701 orthologous groups of 26 representative plant species revealed a close evolutionary relationship between <em>S. costus</em> and <em>A. lappa.</em> Furthermore, transcriptome-derived 17,022 SSR marker resource was created and a set of informative markers were utilized for the genotyping of 215 individuals comprising 17 populations, which revealed compromised genetic diversity (Ho = 0.24), significant inbreeding (Fis = 0.48), and higher population differentiation (Fst = 0.28). AMOVA exhibited 29 % variation among populations and STRUCTURE, PCoA, and UNJ clustered populations into three gene pools predominantly structured by geographic isolation. Besides, a strong genetic structure and isolation by distance, the genetic bottleneck reported a significant reduction in 13 of the 17 tested populations of <em>S. costus</em>. Additionally, habitat suitability is predicted to deteriorate in at least 64 % of the area in future. Nevertheless, populations with high genetic diversity and climatic hotspots may provide valuable germplasm with suitable geographical regions to evolve strategies for conservation and sustainable utilization of <em>S. costus</em>. In future, identified core genotypes and functionally relevant SSR marker resource created in this study can be utilized to implement molecular breeding efforts for genetic improvement and selection of elite cultivars for commercial cultivation.</div></div>","PeriodicalId":15136,"journal":{"name":"Journal of Applied Research on Medicinal and Aromatic Plants","volume":"49 ","pages":"Article 100673"},"PeriodicalIF":3.6,"publicationDate":"2025-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145359253","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}