Molecular authentication of medicinal and edible plant Gnaphalium affine (cudweed herb, “Shu-qu-cao”) based on DNA barcode marker ITS2

Zheng, Mengdi; Liu, Die; Zhang, Han; Zhang, Yan

doi:10.1007/s11738-021-03293-3

Cited by 8 publications

(2 citation statements)

References 21 publications

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“…Prediction of secondary structure differentiation indicated variation among RNA molecules in all species when using either ITS1 or ITS2. The alignment of the primary nucleic acid sequences could be optimized and modified using the secondary ITS2 information, contributing to the accuracy and robustness of the phylogeny [ 45 ]. Previous research had shown that genetic structure uniqueness at the conserved nuclear region could be useful for developing species-specific primers, as reported in a previous study [ 18 ].…”

Section: Discussionmentioning

confidence: 99%

DNA Barcoding, Phylogenetic Analysis and Secondary Structure Predictions of Nepenthes ampullaria, Nepenthes gracilis and Nepenthes rafflesiana

Saidon

Wagiran

Samad

et al. 2023

Genes

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Nepentheceae, the most prominent carnivorous family in the Caryophyllales order, comprises the Nepenthes genus, which has modified leaf trap characteristics. Although most Nepenthes species have unique morphologies, their vegetative stages are identical, making identification based on morphology difficult. DNA barcoding is seen as a potential tool for plant identification, with small DNA segments amplified for species identification. In this study, three barcode loci; ribulose-bisphosphate carboxylase (rbcL), intergenic spacer 1 (ITS1) and intergenic spacer 2 (ITS2) and the usefulness of the ITS1 and ITS2 secondary structure for the molecular identification of Nepenthes species were investigated. An analysis of barcodes was conducted using BLASTn, pairwise genetic distance and diversity, followed by secondary structure prediction. The findings reveal that PCR and sequencing were both 100% successful. The present study showed the successful amplification of all targeted DNA barcodes at different sizes. Among the three barcodes, rbcL was the least efficient as a DNA barcode compared to ITS1 and ITS2. The ITS1 nucleotide analysis revealed that the ITS1 barcode had more variations compared to ITS2. The mean genetic distance (K2P) between them was higher for interspecies compared to intraspecies. The results showed that the DNA barcoding gap existed among Nepenthes species, and differences in the secondary structure distinguish the Nepenthes. The secondary structure generated in this study was found to successfully discriminate between the Nepenthes species, leading to enhanced resolutions.

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Section: Discussionmentioning

confidence: 99%

DNA Barcoding, Phylogenetic Analysis and Secondary Structure Predictions of Nepenthes ampullaria, Nepenthes gracilis and Nepenthes rafflesiana

Saidon

Wagiran

Samad

et al. 2023

Genes

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show abstract

“…With rapid advancements in molecular biology, DNA barcoding has been widely utilized for identifying medicinal plants. The ITS2 sequence, known for its short length, ease of amplification, significant variation, strong identification capabilities, and minimal material requirements, has successfully been applied to identify various traditional Chinese medicines, including Gnaphalium affine [16], Kochia scoparia [17], Herbaceous peony [18], Rhubarb [19], and many others [20,21]. High-throughput sequencing technology has emerged as a valuable method for transcriptomic research [22].…”

Section: Introductionmentioning

confidence: 99%

DNA barcoding identification of grafted Semen Ziziphi Spinosae and transcriptome study of wild Semen Ziziphi Spinosae

Wu,

Guo,

Zhao

et al. 2023

PLoS ONE

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Semen Ziziphi Spinosae (SZS) is the dried and ripe seeds of Ziziphus jujuba var. spinosa. Currently, the yield of naturally grown SZS is unstable owing to environmental factors. Grafting high-quality sour jujube scions onto sour jujube or jujube tree stocks can result in a greater yield. However, the effects of grafting on the quality and gene expression of SZS have rarely been reported. This study used a DNA barcoding technique, high-performance liquid phase-evaporative luminescence detector (HPLC-ELSD), and transcriptomics to investigate the origin and genetic differences between grafted and wild jujube seeds. DNA barcoding identified all samples as Ziziphus jujuba var. spinosa. HPLC-ELSD analysis revealed a higher content of grafted SZS compared to that of the wild SZS. Transcriptome analysis of the metabolic pathways in SZS showed that 22 and 19 differentially expressed gene sequences encoded enzymes related to flavonoids and saponin synthesis, respectively. Weighted correlation network analysis (WGCNA) identified 15 core genes governing the differences in medicinal components between grafted and wild SZS. This study demonstrated the use of DNA barcoding and fingerprint methods to identify jujube seed species and effectively capture ingredient information of medicinal materials. Additionally, transcriptome technology provided data for identifying core differential genes, facilitating studies on quality differences between grafted and wild SZS.

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Advancements in Medicinal Plants Genome Sequencing to Revolutionize Genomics

Patial,

Rani,

Joshi

et al. 2024

Ethnopharmacology and OMICS Advances in Medicinal Plants Volume 2

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Molecular authentication of medicinal and edible plant Gnaphalium affine (cudweed herb, “Shu-qu-cao”) based on DNA barcode marker ITS2

Cited by 8 publications

References 21 publications

DNA Barcoding, Phylogenetic Analysis and Secondary Structure Predictions of Nepenthes ampullaria, Nepenthes gracilis and Nepenthes rafflesiana

DNA Barcoding, Phylogenetic Analysis and Secondary Structure Predictions of Nepenthes ampullaria, Nepenthes gracilis and Nepenthes rafflesiana

DNA barcoding identification of grafted Semen Ziziphi Spinosae and transcriptome study of wild Semen Ziziphi Spinosae

Advancements in Medicinal Plants Genome Sequencing to Revolutionize Genomics

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