Non-destructive DNA extraction from herbarium specimens: a method particularly suitable for plants with small and fragile leaves

2019 ◽  
Vol 133 (1) ◽  
pp. 133-141 ◽  
Author(s):  
Norimasa Sugita ◽  
Atsushi Ebihara ◽  
Tsuyoshi Hosoya ◽  
Utsugi Jinbo ◽  
Shingo Kaneko ◽  
...  
Keyword(s):  
Dna Extraction ◽  
Herbarium Specimens ◽  
Non Destructive

scholarly journals Non-destructive genetic sampling in fish. An improved method for DNA extraction from fish fins and scales

Hereditas ◽  
2003 ◽  
Vol 138 (3) ◽  
pp. 161-165 ◽  
Author(s):  
ADRIANE P. WASKO ◽  
CESAR MARTINS ◽  
CLAUDIO OLIVEIRA ◽  
FAUSTO FORESTI
Keyword(s):  
Dna Extraction ◽  
Improved Method ◽  
Genetic Sampling ◽  
Fish Fins ◽  
Non Destructive

Tu1709 An Efficient and Non-Destructive Method for Microbial DNA Extraction From Paraffin-Embedded Intestinal Biopsies

2013 ◽  
Vol 144 (5) ◽  
pp. S-827
Author(s):  
Franck Carbonero ◽  
Ann C. Benefiel ◽  
Jona Kristo ◽  
Jenna K. Leinberger ◽  
Eugene Greenberg ◽  
...  
Keyword(s):  
Dna Extraction ◽  
Microbial Dna ◽  
Non Destructive

DNA extraction from herbarium specimens of Rhodiola rosea

2016 ◽  
Author(s):  
Tagimanova D.S. ◽  
◽  
Khapilina O.N. ◽  
Amenov A.A. ◽  
Kalendar R.N.
Keyword(s):  
Dna Extraction ◽  
Rhodiola Rosea ◽  
Herbarium Specimens

Non-destructive DNA extraction method for identification of Bradysia odoriphaga (Diptera: Sciaridae), a pest of Welsh onion, carrot, and Chinese chive in Japan

2019 ◽  
Vol 55 (1) ◽  
pp. 181-185
Author(s):  
Makoto Arimoto ◽  
Norihide Hinomoto ◽  
Ryosuke Omata ◽  
Ryozaburo Iwase ◽  
Masahiro Sueyoshi ◽  
...  
Keyword(s):  
Dna Extraction ◽  
Extraction Method ◽  
Welsh Onion ◽  
Dna Extraction Method ◽  
Chinese Chive ◽  
Non Destructive

scholarly journals A new, harmless, high-throughput endosperm-based DNA extraction method for wheat

2019 ◽  
Vol 49 (9) ◽  
Author(s):  
Zhihui Ma ◽  
Yuquan Wang ◽  
Wenhui Wei ◽  
Zhengang Ru
Keyword(s):  
Dna Extraction ◽  
High Throughput ◽  
Extraction Method ◽  
Seedling Emergence ◽  
Control Group ◽  
Suitable Alternative ◽  
Dna Extraction Method ◽  
High Throughput Method ◽  
Young Leaves ◽  
Non Destructive

ABSTRACT: In this study, a non-destructive, high-throughput, endosperm-based DNA extraction method was developed. To verify the non-destructive nature of this method, a germination test was performed on 288 seeds after sampling their endosperm, which gave a seedling emergence rate that was higher (97.6%) than that of the control group (92%). To confirm the feasibility of the new method, DNA was extracted from plants of a BC1F2 population by two different methods, namely, from endosperm using our rapid, high-throughput method (ER-DNA) and from young leaves emerging from the same sampled seed using the CTAB method (LC-DNA). The ER-DNA was undetectable by agarose gel electrophoresis, but was found to be an adequate replacement for LC-DNA for the amplification and detection of simple sequence repeats (SSRs). Further analysis revealed that ER-DNA was generally suitable for the generation of specific 500-750-bp fragments, but not for the amplification of 1,000-2,000-bp fragments. Our rapid, high-throughput method therefore has no deleterious effects on wheat seeds and yields DNA for SSR genotyping that is a suitable alternative to traditionally obtained DNA.

scholarly journals Can non-destructive DNA extraction of bulk invertebrate samples be used for metabarcoding?

PeerJ ◽  
2018 ◽  
Vol 6 ◽  
pp. e4980 ◽  
Author(s):  
Melissa E. Carew ◽  
Rhys A. Coleman ◽  
Ary A. Hoffmann
Keyword(s):  
Dna Extraction ◽  
Dna Barcode ◽  
Extraction Methods ◽  
Biological Communities ◽  
Freshwater Invertebrate ◽  
High Throughput Dna Sequencing ◽  
Dna Extraction Methods ◽  
Taxonomic Groups ◽  
Taxonomic Studies ◽  
Non Destructive

Background High throughput DNA sequencing of bulk invertebrate samples or metabarcoding is becoming increasingly used to provide profiles of biological communities for environmental monitoring. As metabarcoding becomes more widely applied, new reference DNA barcodes linked to individual specimens identified by taxonomists are needed. This can be achieved through using DNA extraction methods that are not only suitable for metabarcoding but also for building reference DNA barcode libraries. Methods In this study, we test the suitability of a rapid non-destructive DNA extraction method for metabarcoding of freshwater invertebrate samples. Results This method resulted in detection of taxa from many taxonomic groups, comparable to results obtained with two other tissue-based extraction methods. Most taxa could also be successfully used for subsequent individual-based DNA barcoding and taxonomic identification. The method was successfully applied to field-collected invertebrate samples stored for taxonomic studies in 70% ethanol at room temperature, a commonly used storage method for freshwater samples. Discussion With further refinement and testing, non-destructive extraction has the potential to rapidly characterise species biodiversity in invertebrate samples, while preserving specimens for taxonomic investigation.

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.

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