plant metagenome
Potato is a major crop of the world and transmission of tuber borne diseases is a major cause of yield reduction in potato cultivation. The potato tuber harbors an array of undescribed microorganisms inside which may include pathogens with a of quarantine importance. Therefore, majority of many countries follow stringent quarantine regulations to prevent the entry of pests with the imported potato seed stocks. In this study, 16S rDNA-based meta-genomic analyses was carried out to detect the microbial pathogens and to characterize the bacterial diversity associated with the potato seed tuber consignments lots imported to Sri Lanka for cultivation purposes. DNA extracted from the potato tubers were sequenced by using Ion Torrent Next Generation Sequencing (NGS) technology and meta-genomic studies were performed by amplifying a ~400bp V1-V2 hypervariable region of the prokaryotic 16S rRNA gene.
host
Solanum tuberosum
isolation_source
Seed potato imported to Sri Lanka from France
collection_date
NA
geo_loc_name
France
lat_lon
46.22 N 2.22 E
samp_collect_device
Random sampling
samp_mat_process
DNA extraction
BioSampleModel
Metagenome or environmental