Table 1. List of primers used for amplification and sequencing of the 5' part of the mitochondrial COI gene.
Primer name | Sequence | Publication | Used at |
---|---|---|---|
LCO1490 | 5'-GGTCAACAAATCATAAAGATATTGG | Folmer et al. 1994 | SMNS, CCDB for ZSM, ZFMK |
HCO2198 | 5'-TAAACTTCAGGGTGACCAAAAAATCA | Folmer et al. 1994 | SMNS, CCDB for ZSM, ZFMK |
LepF1 | 5'-ATTCAACCAATCATAAAGATATTGG | Hebert et al. 2004 | CCDB for ZSM |
LepR1 | 5'-TAAACTTCTGGATGTCCAAAAAATCA | Hebert et al. 2004 | CCDB for ZSM |
C_LepFolF | cocktail of LepF1 and LCO1490 | www.boldystem.org/index.php/Public_Primer_PrimerSearch | CCDB for ZSM |
C_LepFolR | cocktail of LepR1 and HCO2198 | www.boldystem.org/index.php/Public_Primer_PrimerSearch | CCDB for ZSM |
LCO1490-JJ | 5'-CHACWAAYCATAAAGATATYGG | Astrin & Stüben 2008 | ZFMK |
HCO2198-JJ | 5'-AWACTTCVGGRTGVCCAAARAATCA | Astrin & Stüben 2008 | ZFMK |
LCO1490-JJ2 | 5'-CHACWAAYCAYAARGAYATYGG | new | ZFMK |
HCO2198-JJ2 | 5'-ANACTTCNGGRTGNCCAAARAATCA | new | ZFMK |
LCO1490-JJ4a | 5'-CNACNAAYCAYARRGAYATYGG | new | ZFMK |
HCO2198-JJ4a | 5'-AIACYTCNGGRTGICCAAARAATC | new | ZFMK |
LCO1490-JJ4 | 5'-CIACIAAYCAYAARGAYATYGG | new | ZFMK |
HCO2198-JJ4 | 5'-ANACTTCNGGRTGNCCAAARAATC | new | ZFMK |
Species—also many others than arachnids—with strongly modified binding sites could usually be successfully amplified at ZFMK with a set of newly (manually) designed, highly degenerate primers (most often using combination LCO1490-JJ2 & HCO2198-JJ2). The combination LCO1490-JJ and HCO2198-JJ constitutes the standard set of primers used at ZFMK. The standard set of primers used at CCDB for ZSM was the combination C_LepFolF and C_LepFolR, a cocktail consisting of the primers listed above.