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[Annelida] Looking for help with Annelid PCR

Burkett-Cadena,Nathan Daniel via annelida%40net.bio.net (by nburkettcadena from ufl.edu)
Tue Jun 21 16:19:21 EST 2016

I'm trying to do molecular identification of muck-inhabiting annelids 
(morphologically they key to Lumbriculus) from Florida. I'm having zero 
luck. The primers I am using have worked great with leeches. I get great 
bands (with leeches) and 98% match to various leech species. The same 
protocols produce no band or an ugly smear when using DNA extracted from 
very fresh annelid tissue.

These are the primers that I have tried:

Primer name Used for Primer sequence Reference
12SE1 PCR, sequencing (12S) AAAACATGGATTAGATACCCRYCTAT Jamieson et al. 
12SH PCR, sequencing (12S) ACCTACTTTGTTACGACTTATCT Jamieson et al. 
16Sar-L PCR, sequencing (16S) CGCCTGTTTATCAAAAACAT Palumbi et al. 
16Sbr-H PCR, sequencing (16S) CCGGTCTGAACTCAGATCACGT Palumbi et al. 
16S AnnF PCR, sequencing (16S) GCGGTATCCTGACCGTRCWAAGGTA Sjölin et al. 
16S AnnR PCR, sequencing (16S) TCCTAAGCCAACATCGAGGTGCCAA Sjölin et al. 
TimA PCR, sequencing (18S) AMCTGGTTGATCCTGCCAG Tim Littlewood (pers. 
comm. in Norén and Jondelius, 1999)
TimB PCR (18S) TGATCCATCTGCAGGTTCACCT Tim Littlewood (pers. comm. in 
Norén and Jondelius, 1999)
1100R PCR, sequencing (18S) GATCGTCTTCGAACCTCTG Tim Littlewood (pers. 
comm. in Norén and Jondelius, 1999)
660F PCR, sequencing (18S) GATCTCGGGTCCAGGCT Erséus et al. (2002)
600F PCR, sequencing (18S) GGTGCCAGCMGCCGCGGT Tim Littlewood (pers. 
comm. in Norén and Jondelius, 1999)

They come from Envall et al. (2006) Molecular evidence for the 
non-monophyletic status of Naidinae (Annelida, Clitellata, TubiWcidae). 
I cannot use barcoding primers (Folmer et al / LCOI) because they 
amplify other (non annelid) organisms from the same sample.

Any help would be appreciated.


Nathan D. Burkett-Cadena, PhD
Assistant Professor
University of Florida | IFAS
Florida Medical Entomology Laboratory
200 9th St. SE
Vero Beach, FL 32962

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