Selection of DNA barcoding loci for Nepeta deflersiana Schweinf. ex Hedge from chloroplast and nuclear DNA genomes

Al‐Qurainy, Fahad; Khan, Salim; Nadeem, Mohammad; Tarroum, Mohamed; Gaafar, Abdel-Rhman Z.

doi:10.4238/2014.february.21.3

Cited by 6 publications

(5 citation statements)

References 31 publications

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“…Recently, various studies have shown that DNA markers are highly effective in identifying medicinal plants at genus and species levels. Thus, the ITS marker used in this study showed the phylogenetic relationship of E. macrochaetus to the other species of Echinops, and a higher capacity of this marker in terms of phylogenetic reconstruction has been proven in other research studies [41][42][43].…”

Section: Discussionmentioning

confidence: 63%

Effect of Green Synthesized ZnO-NPs on Growth, Antioxidant System Response and Bioactive Compound Accumulation in Echinops macrochaetus, a Potential Medicinal Plant, and Assessment of Genome Size (2C DNA Content)

Khan

Al‐Qurainy

Al-Hashimi

et al. 2023

Plants

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Echinops macrochaetus is a medicinal plant that can be used to cure various diseases. In the present study, plant-mediated zinc oxide nanoparticles (ZnO-NPs) were synthesized using an aqueous leaf extract of the medicinal plant Heliotropium bacciferum and characterized using various techniques. E. macrochaetus was collected from the wild and identified using the internal transcribed spacer sequence of nrDNA (ITS-nrDNA), which showed the closeness to its related genus in a phylogenetic tree. The effect of synthesized biogenic ZnO-NPs was studied on E. macrochaetus in a growth chamber for growth, bioactive compound enhancement and antioxidant system response. The irrigation of plants at a low concentration of ZnO-NPs (T1 = 10 mg/L) induced more growth in terms of biomass, chlorophyll content (273.11 µg/g FW) and carotenoid content (135.61 µg/g FW) than the control and other treatments (T2-20 mg/L and T3-40 mg/L). However, the application of a high concentration of ZnO-NPs (20 and 40 mg/L) increased the level of antioxidant enzymes (SOD, APX and GR), total crude and soluble protein, proline and TBARS contents. The accumulations of the compounds quercetin-3-β-D-glucoside, luteolin 7-rutinoside and p-coumaric acid were greater in the leaf compared to the shoot and root. A minor variation was observed in genome size in treated plants as compared to the control group. Overall, this study revealed the stimulatory effect of phytomediated ZnO-NPs, which act as bio-stimulants/nano-fertilizers as revealed by more biomass and the higher production of phytochemical compounds in different parts of the E. macrochaetus.

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Section: Discussionmentioning

confidence: 63%

Effect of Green Synthesized ZnO-NPs on Growth, Antioxidant System Response and Bioactive Compound Accumulation in Echinops macrochaetus, a Potential Medicinal Plant, and Assessment of Genome Size (2C DNA Content)

Khan

Al‐Qurainy

Al-Hashimi

et al. 2023

Plants

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“…Results revealed the proximity and maximal identity of Resedae with 100% bootstrap support and nested within the clade. Al-Qurainy et al (2013, 2014a,b) analyzed five species of rare and endangered plants from Saudi Arabia. Al-Qurainy et al (2014a,b) evaluated medicinal plants Nepeta deflersiana and Plectranthus asirensi using DNA barcoding.…”

Section: Plant Dna Barcoding: An Emerging Approachmentioning

confidence: 99%

“…Al-Qurainy et al (2013, 2014a,b) analyzed five species of rare and endangered plants from Saudi Arabia. Al-Qurainy et al (2014a,b) evaluated medicinal plants Nepeta deflersiana and Plectranthus asirensi using DNA barcoding. In their study, they used various markers (Table 1), among which ITS was suggested for rare and endangered plant species, including P. asirensi (with the exception of N. deflersiana ).…”

Section: Plant Dna Barcoding: An Emerging Approachmentioning

confidence: 99%

The Promise of Molecular and Genomic Techniques for Biodiversity Research and DNA Barcoding of the Arabian Peninsula Flora

et al. 2019

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The Arabian Peninsula is known to have a comprehensive and rich endowment of unique and genetically diverse plant genetic resources. Analysis and conservation of biological diversity is a crucial issue to the whole Arabian Peninsula. The rapid and accurate delimitation and identification of a species is crucial to genetic diversity analysis and the first critical step in the assessment of distribution, population abundance and threats related to a particular target species. During the last two decades, classical strategies of evaluating genetic variability, such as morphology and physiology, have been greatly complemented by phylogenetic, taxonomic, genetic diversity and breeding research molecular studies. At present, initiatives are taking place around the world to generate DNA barcode libraries for vascular plant flora and to make these data available in order to better understand, conserve and utilize biodiversity. The number of herbarium collection-based plant evolutionary genetics and genomics studies being conducted has been increasing worldwide. The herbaria provide a rich resource of already preserved and identified material, and these as well as freshly collected samples from the wild can be used for creating a reference DNA barcode library for the vascular plant flora of a region. This review discusses the main molecular and genomic techniques used in plant identification and biodiversity analysis. Hence, we highlight studies emphasizing various molecular techniques undertaken during the last 10 years to study the plant biodiversity of the Arabian Peninsula. Special emphasis on the role of DNA barcoding as a powerful tool for plant biodiversity analysis is provided, along with the crucial role of herbaria in creating a DNA barcode library.

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“…Alaklabi et al (2014) used the rbcL gene to identify the endangered tree Diospyros mespiliformis (Ebenaceae). Furthermore, Al-Qurainy et al (2014) used the nuclear gene ITS for identification of Nepeta deflersiana (Lamiaceae). Ali et al (2015) used ITS1 and ITS4 primers in DNA barcodes to study the system of the genus Echinops (Asteraceae).…”

Section: Introductionmentioning

confidence: 99%

Research Article Evaluation of the capacity of the DNA barcode ITS2 for identifying and discriminating dryland plants

Al-Juhani¹

2019

Genet. Mol. Res.

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Many of the plants that grow in arid and semi-arid regions under harsh conditions (drought, salinity and misuse) are of medical importance. Desert plants also provide other benefits; so conservation efforts should be strengthened in these areas. In this study, three DNA barcodes-chloroplast maturase-K (matK), ribulose-1,5-bisphosphate carboxylase/oxygenase (rbcL) and secondary internal transcribed spacer (ITS2)-were tested in order to determine the ability of these markers to distinguish between various species. A total of 93 fresh and dry samples belonging to 30 plant families were examined. These are native to the arid lands around Makkah in the Kingdom of Saudi Arabia. Various tools and tests were used to evaluate the efficiency of the barcode markers; these included the basic local alignment search tool (BLAST), as well as the use of inter-and intraspecific distances, barcode gap, prediction of the secondary structure of the ITS2 and phylogenetic methods. The results confirmed the efficiency and superiority of the ITS2 loci over two chloroplast genes: matK and rbcL. ITS2 had a 97% success rate with amplification and a 95% success rate with sequencing, showing 100% identification at the family level, 77% identification at the genus level and 70% species resolution. A clear barcode gap was observed between inter-and intraspecific distances. Identification was achieved even in cases of degraded samples or old herbarium ©FUNPEC-RP www.funpecrp.com.br Genetics and Molecular Research 18 (1): gmr18133 W.S. Al-Juhani 2 specimens. This study contributes to DNA barcode data by adding 224 DNA sequences of desert plants to the National Center for Biotechnology Information NCBI database. The results of this study are important and useful for application in each of the following fields: validation of medicinal plant identity, conservation, and taxonomic and evolutionary studies.

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Selection of DNA barcoding loci for Nepeta deflersiana Schweinf. ex Hedge from chloroplast and nuclear DNA genomes

Cited by 6 publications

References 31 publications

Effect of Green Synthesized ZnO-NPs on Growth, Antioxidant System Response and Bioactive Compound Accumulation in Echinops macrochaetus, a Potential Medicinal Plant, and Assessment of Genome Size (2C DNA Content)

Effect of Green Synthesized ZnO-NPs on Growth, Antioxidant System Response and Bioactive Compound Accumulation in Echinops macrochaetus, a Potential Medicinal Plant, and Assessment of Genome Size (2C DNA Content)

The Promise of Molecular and Genomic Techniques for Biodiversity Research and DNA Barcoding of the Arabian Peninsula Flora

Research Article Evaluation of the capacity of the DNA barcode ITS2 for identifying and discriminating dryland plants

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