Literature DB >> 31559510

Comparison of the novel dipstick DNA extraction technique with two established techniques for use in biological barcoding.

Avrie Martello1, Brett Lambert1, Clifton Johnston2, Jacob Cutler1, Christof F Stumpf3.   

Abstract

The novel dipstick DNA extraction method was tested for its reliability and usability for biological barcoding in comparison to a commercial kit and to a simplified isopropanol precipitation method using crayfish gill tissue. Following DNA extraction, the mitochondrial COI-gene was amplified in a PCR-reaction using a standard set of universal invertebrate primers. All three extraction techniques resulted in successful amplifications. With the dipstick method, PCR immediately follows the very brief DNA extraction technique. We suggest that the dipstick method is an affordable, efficient, and reliable DNA extraction method uniquely suited for biological barcoding that results in reliable and reproducible amplification for downstream applications such as sequencing. Additional tests on crayfish with primers for different parts of the mitochondrial genome and on fish using specific fish COI-primers confirmed these findings. Due to the few steps involved in the DNA extraction procedure the dipstick technique is also highly recommended for high school and university biology courses.

Entities:  

Keywords:  Biological barcoding; Crayfish; DNA extraction; Dipstick; Fish; PCR

Mesh:

Substances:

Year:  2019        PMID: 31559510     DOI: 10.1007/s11033-019-05083-0

Source DB:  PubMed          Journal:  Mol Biol Rep        ISSN: 0301-4851            Impact factor:   2.316


  6 in total

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Authors:  Sarah J Adamowicz
Journal:  Genome       Date:  2015-05       Impact factor: 2.166

2.  Many species in one: DNA barcoding overestimates the number of species when nuclear mitochondrial pseudogenes are coamplified.

Authors:  Hojun Song; Jennifer E Buhay; Michael F Whiting; Keith A Crandall
Journal:  Proc Natl Acad Sci U S A       Date:  2008-08-29       Impact factor: 11.205

3.  A simplified arthropod genomic-DNA extraction protocol for polymerase chain reaction (PCR)-based specimen identification through barcoding.

Authors:  Venu M Margam; Emma W Gachomo; John H Shukle; Oluwole O Ariyo; Manfredo J Seufferheld; Simeon O Kotchoni
Journal:  Mol Biol Rep       Date:  2010-03-04       Impact factor: 2.316

4.  MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets.

Authors:  Sudhir Kumar; Glen Stecher; Koichiro Tamura
Journal:  Mol Biol Evol       Date:  2016-03-22       Impact factor: 16.240

5.  The complete mitochondrial genome of the Japanese mud shrimp Upogebia major (Crustacea, Decapoda).

Authors:  Sanghee Kim; Taeho Kim; Han-Gu Choi; Joong-Ki Park; Dong-Ha Ahn; Gi-Sik Min
Journal:  Mitochondrial DNA       Date:  2011-08

6.  Nucleic acid purification from plants, animals and microbes in under 30 seconds.

Authors:  Yiping Zou; Michael Glenn Mason; Yuling Wang; Eugene Wee; Conny Turni; Patrick J Blackall; Matt Trau; Jose Ramon Botella
Journal:  PLoS Biol       Date:  2017-11-21       Impact factor: 8.029

  6 in total
  1 in total

1.  Rapid (30-second), equipment-free purification of nucleic acids using easy-to-make dipsticks.

Authors:  Michael G Mason; José R Botella
Journal:  Nat Protoc       Date:  2020-10-01       Impact factor: 13.491

  1 in total

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