Scyphozoan PCR primers

The following primer pairs have been used successfully to amplify DNA from scyphozoans.

Region Forward Reverse Taxa Reference
mitochondrial DNA    

COI

*Genetic Barcode*

LCO1490:
5'-ggtcaacaaatcataaagatattgg

LCOjf:
5'-ggtcaacaaatcataaagatattggaac

 HCO2198:
5'-taaacttcagggtgaccaaaaaatca

Cubozoa,
Hydrozoa,
Scyphozoa
(poor for Coronatae & Stauromedusae)

 Dawson & Jacobs (2001)
Folmer et al. (1994)
16S L5'-CTC TTG TAA GGT GAA GCC H5'-CAT AAT TCA ACA TCG AGG Aurelia Schroth et al. (2002)
16S Primer1:
5'-tcgactgtttaccaaaaacatagc		 Primer3:
5'-gtcgccccaactaaactaccaaactt		 Cubozoa,
Scyphozoa		 Bridge et al. (1992)
 
nuclear DNA

18S

*Genetic Barcode*

 Primer A:
5'-aacctggttgatcctgccagt 		Primer B:
5'-gatccttctgcaggttcacctac 		Medusozoa
Eukaryotes
Collins (2002)
Medlin et al. (1988)
ITS1 jfITS1-5f:
5'-ggtttccgtaggtgaacctgcggaaggatc 		jfITS1-3r:
5'-cgcacgagccgagtgatccaccttagaag		 Aurelia Dawson & Jacobs (2001)
ITS1-5.8S F5'-TAA CAA GGT TTC CGT AGG R5'-CTC AGA CAG ACA TGC TCC Aurelia Schroth et al. (2002)
ITS1-5.8S-ITS2-28S
(p: ~300 nucl. 28S)		 jfITS-5f: see ITS1 above 28S-2R:
5'-gctttgggctgcagtcccaagcaacccactc		 Cubozoa
Hydrozoa
Scyphozoa 		Dawson (2004)
28S

LSUD1F:
acccgctgaatttaagcata

D3Ca:
acgaacgatttgcacgtcag

LSUD4Ra:
aaccagctactagryggttcgat

universal Matsumoto et al. (2003)


Key to table:

mitochondrial DNA (mtDNA)
COI - Cytochrome Oxidase c subunit I *Genetic Barcode*
16S - 16S ribosomal DNA (rDNA)
whole - whole mitochondrial genome
form - number of fragments into which the mtDNA genome is split * size of fragments (Kb), linear (l) or circular (c)

nuclear DNA (nDNA)
18S - 18S rDNA (SSU, Small Sub-Unit) *Genetic Barcode*
ITS1 - Internal Transcribed Spacer One
5.8S - 5.8S rDNA
ITS2 - Internal Transcribed Spacer Two
28S - 28S rDNA (LSU, Large Sub-Unit)

 

Compiled by M.N Dawson.