Rapid decline of PCR amplification from genomic extracts of DESS-preserved, slide-mounted nematodes


Bik, Holly M., Hawkins, Lawrence E., Hughes, J. Alan and Lambshead, John D. (2009) Rapid decline of PCR amplification from genomic extracts of DESS-preserved, slide-mounted nematodes. Nematology, 11, (6), 827-834. (doi:10.1163/156854109X422922).

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Original Publication URL: http://dx.doi.org/10.1163/156854109X422922

Description/Abstract

Many studies use integrative methods to study both morphology and gene sequences of nematode species, yet there is little
evidence to indicate the optimum criteria for merging taxonomic and molecular protocols. Preliminary evidence suggests that standard
methods of desiccation and slide mounting nematode specimens in glycerin can sporadically result in degradation of genomic DNA.
A time series experiment was constructed in order to assess whether this degradation of genomic DNA could be recorded and quantified.
Two groups of nematode specimens were desiccated, mounted on slides, and stored at either 4◦C or at room temperature for specified
time intervals. Genomic DNA was extracted and PCR was conducted to amplify a section of the 18S rRNA gene at each time point. The
resulting gel photographs were used to record the outcome of PCR and quantify the strength of amplification if successful. Results from
slide-mounted specimens were compared to PCR products derived from unmounted nematodes extracted directly from the preservative
solution at specified time intervals. The desiccation and slide mounting process appears to reduce overall band intensity after 1 day in
slide mounts. Unmounted specimens consistently exhibit high success rates of PCR and a high overall DNA content per band at all
time points, whereas slide-mounted nematodes show a decrease in the number of successful PCRs and weakening band intensity as
time progresses. Results clearly indicate a steady degradation of genomic DNA in nematodes stored in slide mounts for more than 2
weeks, whereas unmounted specimens extracted from preservative solution showed no decline in PCR success or quality. We suggest a
maximum storage period of 2 weeks on slides if mounted nematodes are to be used for molecular analyses.

Item Type: Article
Related URLs:
Keywords: DESS, DNA, glycerin, integrated methods, molecular, morphology
Subjects: Q Science > QH Natural history > QH301 Biology
Divisions: University Structure - Pre August 2011 > School of Ocean & Earth Science (SOC/SOES)
University Structure - Pre August 2011 > National Oceanography Centre (NERC)
ePrint ID: 72651
Date Deposited: 18 Feb 2010
Last Modified: 27 Mar 2014 18:51
URI: http://eprints.soton.ac.uk/id/eprint/72651

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