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Table 4 Advantages and disadvantages between blocking and excluding primers to study protists within oyster microbiota

From: Unveiling protist diversity associated with the Pacific oyster Crassostrea gigas using blocking and excluding primers

  18SV4BP UNonMet 18SV1V2EX
Advantages BP specifically targets host sequences No host sequences are expected to be amplified No host sequences were amplified
Protist diversity is expected to be well represented High nucleotide polymorphism compared to 18SV4BP
Disadvantages Host sequences were not completely removed Excluding primers might not only exclude metazoans, but also other unexpected taxa
Expected amplicon size is too large for current Illumina MiSeq technology  
Low nucleotide polymorphism compared to 18SV1V2EX