Fungal Barcoding Primer Sequences
This comprehensive table presents primer sequences integral to fungal barcoding studies, meticulously designed for accurate identification and classification of fungal species through DNA barcoding techniques. Covering key genomic regions such as the internal transcribed spacer (ITS), large subunit (LSU), small subunit (SSU), RNA polymerase II (RPB1 and RPB2), and minichromosome maintenance protein 7 (MCM7), these primers contribute to the 80% success rate observed in fungal species identification, facilitating advancements in fungal taxonomy and evolutionary studies.
| Primer name | Sequence | | Lab/commenter | Tax group |
ITS | | | | | | ITS1 | 5'-TCCGTAGGTGAACCTGCGG-3' | forward | all | all | | ITS 1F | 5'-CTTGGTCATTTAGAGGAAGTAA-3' | forward | all | all | | ITS4 | 5'-TCCTCCGCTTATTGATATGC-3' | reverse | all | all | | ITS4BR | 5'-TCAACAGACTTGTACATGGTCC-3' | reverse | Hamelin | | | ITS4BR2 | 5'-GGATTATCACCCTCAATGAT-3' | reverse | Hamelin | | | ITS3R2 | 5'-AAGGTACACCTGTTTGAGTGTC-3' | forward | Hamelin | | | ITS2R2 | 5'-GACACTCAAACAGGTGTACCTT-3' | reverse | Hamelin | | | ITS5 | 5'-GGAAGTAAAAGTCGTAACAAGG-3' | forward | Seifert | | | ITS3R3 | 5'-CACATCGATGAAGAACACAGT-3' | forward | Hamelin | | | 5.8S | 5'-CGCTGCGTTCTTCATCG-3' | forward | Moncalvo | | | 5.8SR | 5'-TCGATGAAGAACGCAGCG-3' | reverse | Moncalvo | | | UN-UP18S42 | 5'-CGTAACAAGGTTTCCGTAGGTGAAC-3' | forward | Levesque | | | UN-LO28S22` | 5'-GTTTCTTTTCCTCCGCTTATTGATATG-3' | reverse | Levesque | |
LSU | | | | | | LR0R | 5'-ACCCGCTGAACTTAAGC-3' | forward | | | | LR5 | 5'-TCCTGAGGGAAACTTCG-3' | reverse | | | | LR16 | 5'-TTCCACCCAAACACTCG-3' | reverse | | |
SSU | | | | | | SR1R | 5'-TACCTGGTTGATQCTGCCAGT-3' | forward | James | Chytrids/Zygos, all | | NS1 | 5'-GTAGTCATATGCTTGTCTC-3' | forward | all | Ascomycota, all | | NS4 | 5'-CTTCCGTCAATTCCTTTAAG-3' | reverse | all | Ascomycota, all | | | | | | | PNS1 | 5’-CCAAGCTTGAATTCGTAGTCATATGCTTGTC-3’ | forward | Hibbett | Basidiomycota | | NS41 | 5’-CCCGTGTTGAGTCAAATTA-3’ | reverse | Hibbett | Basidiomycota |
RPB1 | | | | | | RPB1-Af, RPB1-Ac | 5’-GARTGYCCDGGDCAYTTYGG-3’ | forward | Sung, Matheny | all | | RPB1-Cr | 5’-CCNGCDATNTCRTTRTCCATRTA-3’ | reverse | Sung, Matheny | all |
RPB2 | | | | | | fRPB2-5F | GAYGAYMGWGATCAYTTYGG | forward | Matheny | all | | RPB2-7R | CCCATWGCYTGCTTMCCCAT | reverse | Sung | all | | bRPB2-7.1R | 5'-CCCATRGCYTGYTTMCCCATDGC-3' | reverse | Matheny | Basidiomycota |
MCM7 | | | | | | Mcm7-709for | 5’-ACIMGIGTITCVGAYGTHAARCC-3’ | forward | Schmitt | all | | Mcm7-1348rev | 5’-GAYTTDGCIACICCIGGRTCWCCCAT-3’ | reverse | Schmitt | all | | Mcm7-1447rev | 5’-CATIACIGCIGCIGTRAGRCC-3’ | reverse | Schmitt | all |
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