A non-destructive DNA sampling technique for herbarium specimens v1 (protocols.io.i3jcgkn)

protocols.io ◽  
2017 ◽  
Author(s):  
Lara Shepherd
Keyword(s):  
Sampling Technique ◽  
Herbarium Specimens ◽  
Dna Sampling ◽  
Non Destructive

scholarly journals A non-destructive DNA sampling technique for herbarium specimens

PLoS ONE ◽  
2017 ◽  
Vol 12 (8) ◽  
pp. e0183555 ◽  
Author(s):  
Lara D. Shepherd
Keyword(s):  
Sampling Technique ◽  
Herbarium Specimens ◽  
Dna Sampling ◽  
Non Destructive

Epigenetic Modifications Following Noxious Stimuli in Infants

2018 ◽  
Vol 20 (2) ◽  
pp. 137-144 ◽  
Author(s):  
Linda A. Hatfield ◽  
Rebecca K. Hoffman ◽  
Rosemary C. Polomano ◽  
Yvette Conley
Keyword(s):  
Genetic Research ◽  
Sampling Technique ◽  
Methylation Pattern ◽  
Epigenetic Modifications ◽  
Pain Modulation ◽  
Convenience Sample ◽  
Dna Sampling ◽  
Noninvasive Dna Sampling ◽  
Noxious Stimuli ◽  
Noninvasive Dna

Purpose: To recruit healthy full- and preterm infants into genetic research and determine the effectiveness of a noninvasive DNA sampling technique for comparing epigenetic modifications. Background: Noxious stimuli during a vulnerable period of infant neuronal plasticity may trigger long-term epigenetic changes affecting neurodevelopment, pain modulation, and reactivity. Recognizing epigenetic pain findings is problematic because parents are reluctant to enroll newborns into genetic research. Methods: Design: Within-subject change over time candidate-gene DNA methylation association study. Setting/ sample: Urban teaching hospital’s neonatal intensive care unit and newborn nursery. Convenience sample of healthy full- (>37 weeks, n = 6) and preterm (<37 weeks, n = 6) infants. Procedure: Parents participated in a genetic presentation prior to informed consent. Infant buccal saliva was collected after admission to the unit and prior to discharge. Analysis: The methylation pattern at the 5′ end of µ-opioid receptor gene ( OPRM1) was examined. DNA was treated with bisulfite to convert all cytosines to uracil residues, leaving methylated cytosines unchanged. Sequencing of untreated and bisulfite-converted DNA was carried out. The sequences of unconverted and bisulfite-converted DNA were aligned with ClustalW, fidelity of the polymerase chain reaction and the sequencing reaction evaluated, and the methylation pattern identified. Results: Recruitment and assessment of a noninvasive DNA sampling technique for comparing epigenetic modifications were successful; however, infant stress did not produce a change in OPRM1 methylation expression. Relevance: This study established the feasibility of recruiting healthy full-term infants into genetic research and the effectiveness of noninvasive DNA sampling for comparing epigenetic modification in infants.

A non-destructive tissue sampling technique for holothurians to facilitate extraction of DNA for genetic analysis

2015 ◽  
Vol 134 (3) ◽  
pp. 252-259 ◽  
Author(s):  
Samantha J. Nowland ◽  
Dean R. Jerry ◽  
Paul C. Southgate
Keyword(s):  
Genetic Analysis ◽  
Sampling Technique ◽  
Tissue Sampling ◽  
Non Destructive

scholarly journals Ethnomedical Knowledge of Plants Used for the Treatment of Tuberculosis in Johor, Malaysia

2016 ◽  
Vol 2016 ◽  
pp. 1-12 ◽  
Author(s):  
Siti Fatimah Sabran ◽  
Maryati Mohamed ◽  
Mohd Fadzelly Abu Bakar
Keyword(s):  
Medicinal Plants ◽  
Sampling Technique ◽  
Conservation Strategies ◽  
Herbarium Specimens ◽  
Transfer Of Knowledge ◽  
Snowball Sampling ◽  
Semistructured Interviews ◽  
Biomedical Terminology ◽  
Emic Perspective ◽  
First Time

This study documented ethnomedical knowledge of plants used for the treatment of tuberculosis (TB) and its related symptoms as practiced by the Jakun community of Kampung Peta, situated in Endau Rompin Johor National Park, Johor, Malaysia. Eight key informants were selected by snowball sampling technique and data about medicinal plants were collected by semistructured interviews, participatory observations, and focus group. Qualitative analysis was undertaken using thematic analysis. There were 23 species of plants (22 genera, 20 families) documented and herbarium specimens were deposited at the UTHM Herbarium.Dipterocarpus sublamellatuswas recorded for the first time with ethnomedical uses while other species were previously reported. The qualitative approach employed in this study demonstrates the emic perspective in terms of perceptions on traditional herbal medicine, transfer of knowledge, significant taboos related with medicinal plants, and their conservation efforts. Local and biomedical terminology in treatment of TB showed substantial correspondence. The outcomes obtained in the study are worth being further investigated for conservation strategies and are worthy of verifying their ethnomedical claims scientifically.

scholarly journals New protocol for successful isolation and amplification of DNA from exiguous fractions of specimens: a tool to overcome the basic obstacle in molecular analyses of myxomycetes

PeerJ ◽  
2020 ◽  
Vol 8 ◽  
pp. e8406 ◽  
Author(s):  
Paulina Janik ◽  
Michał Ronikier ◽  
Anna Ronikier
Keyword(s):  
Biological Material ◽  
Dna Isolation ◽  
Cost Effective ◽  
Biological Research ◽  
Herbarium Specimens ◽  
Direct Pcr ◽  
Phylogenetic Studies ◽  
Successful Isolation ◽  
Herbarium Collections ◽  
Non Destructive

Herbarium collections provide an essential basis for a wide array of biological research and, with development of DNA-based methods, they have become an invaluable material for genetic analyses. Yet, the use of such material is hindered by technical limitations related to DNA degradation and to quantity of biological material. The latter is inherent for some biological groups, as best exemplified by myxomycetes which form minute sporophores. It is estimated that ca. two-thirds of myxomycete taxa are represented by extremely scanty material. As DNA isolation methods applied so far in myxomycete studies require destructive sampling of many sporophores, a large part of described diversity of the group remains unavailable for phylogenetic studies or barcoding. Here, we tested several procedures of DNA isolation and amplification to seek for an efficient and possibly non-destructive method of sampling. Tests were based on herbarium specimens of 19 species representing different taxonomic orders. We assayed several variants of isolation based on silica gel membrane columns, and a newly designed procedure using highly reduced amount of biological material (small portion of spores), based on fine disruption of spores and direct PCR. While the most frequently used column-based method led to PCR success in 89.5% of samples when a large amount of material was used, its performance dropped to 52% when based on single sporophores. Single sporophores provided amplicons in 89.5% of samples when using a kit dedicated to low-amount DNA samples. Our new procedure appeared the most effective (94.7%) while it used only a small fraction of spores, being nearly non-destructive; it was also the most cost-effective. We thus demonstrate that combination of adequate handling of spore micro-disruption coupled with application of direct PCR can be an efficient way to circumvent technical limitations for genetic studies in myxomycetes and thus can substantially improve taxon sampling for phylogeny and barcoding. Additionally, this approach gives a unique possibility to apply both molecular and morphological assays to the same structure (sporophore), which then can be further stored as documentation.

Validation of swabs as a non‐destructive and relatively non‐invasive DNA sampling method in fish

2010 ◽  
Vol 11 (1) ◽  
pp. 107-109 ◽  
Author(s):  
A. L. LE VIN ◽  
A. ADAM ◽  
A. TEDDER ◽  
K. E. ARNOLD ◽  
B. K. MABLE
Keyword(s):  
Sampling Method ◽  
Non Invasive ◽  
Dna Sampling ◽  
Non Destructive

scholarly journals Millimeter-resolution mapping of citrate exuded from soil grown roots using a novel, low-invasive sampling technique

2020 ◽  
Author(s):  
Raphael Tiziani ◽  
Markus Puschenreiter ◽  
Erik Smolders ◽  
Tanja Mimmo ◽  
José Carlos Herrera ◽  
...  
Keyword(s):  
Root Exudation ◽  
Sampling Technique ◽  
White Lupin ◽  
Mapping Technique ◽  
Resolution Mapping ◽  
Resolution Imaging ◽  
First Time ◽  
Diffusive Gradients ◽  
Non Destructive ◽  
Grown Plant

AbstractThe reliable sampling of root exudates in soil grown plants is experimentally challenging. This study aimed at developing a citrate sampling and mapping technique with millimetre-resolution using DGT (diffusive gradients in thin films) ZrOH binding gels. Citrate adsorption kinetics, DGT capacity and stability of ZrOH gels were evaluated. ZrOH gels were applied to generate 2D maps of citrate exuded by white lupin roots grown in rhizotrosn in a phosphorus deficient soil. Citrate was adsorbed quantitatively and rapidly by the ZrOH gels, these gels can be stored after sampling for several weeks prior to analysis. The DGT capacity of the ZrOH gel for citrate depends on the ionic strength and the pH of the soil solution but was suitable for citrate sampling. 2D citrate maps of rhizotron grown plants have been generated for the first time at a millimetre resolution to measure an illustrated plant response to P fertilization. DGT-based citrate sampling is suitable for studying the root exudation in soil environments, at unprecedented spatial resolution. By changing binding material, the technique is also applicable to other exudate classes and might be used for the evaluation of whole root exudation crucial in specific cultivar breeding.HighlightWe present a novel, reliable, easy to use, non-destructive citrate sampling- and two-dimensional high-resolution imaging technique for soil grown plant roots.

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