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Table 2 Several variables related to the collection and evaluation of microbial communities by amplicon sequencing have been performed. This table presents a subset of relevant variables and references to the studies in which they have been evaluated

From: The promise and challenge of cancer microbiome research

Variable evaluated Study references
Use of preservative agents (cryoprotectants, RNAlater, etc.) [116,117,118,119,120,121,122,123]
Sequence database [124,125,126,127,128]
Sequencing platform [116, 125, 129,130,131]
Sample storage [117,118,119, 127, 129, 132,133,134,135,136,137,138,139,140,141,142]
DNA extraction method (comparison of kits) [116, 125, 127, 129, 130, 132, 140, 143,144,145,146,147,148]
Lysis method (chemical, enzymatic, mechanical) [143,144,145, 149,150,151]
Sample collection (method, sampling location, sampler) [118, 126, 129, 131, 134, 150, 152,153,154,155,156]
16S rRNA gene variable region sequenced [10, 14, 124]