See also
OTU
clustering
What is an OTU?
Finding
species in SSU reads
SSU reference databases
Metagenomics using SSU rRNA
Next-generation sequencing allows high-throughput acquisition of nucleotide
sequences for genes or regions for which universal PCR primers are available,
i.e. primers that match a large majority of the species of interest. In
microbial ecology,
small subunit ribosomal RNA
(SSU rRNA) genes are typically used:
16S for
prokaryotes,
ITS for fungi and
18S for eukaryotes. A typical SSU metagenomics experiment generates thousands (pyrosequencing)
to millions (Illumina)
of reads.
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