| description |
Metagenomic studies have enabled us to identify taxonomic profiles of bacterioplankton and also elucidate ecological functions of the residing microbial communities. As the Tama River is regarded as a life line of urban Tokyo, we examined seasonal differences of the bacterial communities in a non-tidal, urban-impacted part of this river to better understand their ecological functions. Water samples (~2L) were collected every month from September 2015 to December 2016 with sterile beakers from the surface to 12.5 cm depth at a middle reach of the Tama River in Tama City, following the guidelines of the Bureau of Sewage, Tokyo Metropolitan Government (2012). Of the collected water, 500 ml were filtered sequentially through Isopore membranes with a 45 mm diameter each of 5, 0.8 and 0.2-µm pore sizes. As we targeted free-living bacterial fraction, DNA was extracted only from 0.2-µm filter membranes and we prepared shotgun metanogemic libraries using Nextera XT library preparation kit (Illumina). The libraries were then sequenced with an Illumina MiSeq using MiSeq Reagent Kit v3. |