BioSample Detail : SAMD00002574

Description

Title16S rRNA gene study of rice-root associated bacteria in paddy fields dressed with low nitrogen.
Taxonomy ID939928
Organism Namerhizosphere metagenome
DescriptionField metadata., Country: Japan, Latitude: 38-27-39.37' N, Longitude: 141-5-33.33' E, Altitude: 4 m a.s.l., Classification: Gray lowland soil (classification of cultivated soils in Japan, 3rd approximation), Geomorphic Position: Alluvial plain, Slope Characteristics: Flat, Precipitation: Udic soil moisture regime, Water Table Depth: 97 cm, Drainage: Poorly drained, Land Use: Paddy rice field, Parent material: Unconsolidated alluvium, Vegetation: Paddy field after harvest

General Info

OrganizationLaboratory of Environmental Plant Microbiology, Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University

Model

Sample typeGeneric

Attributes

sample_nameDRS000516
sample commentGeneral description. Rice plants (Oryza sativa L. cultivar gNipponbareh) were cultivated in paddy fields dressed with low N (LN; 0 kg ha-1). The roots (approximately 100 g) were sampled on August 26, 2009 and homogenized without surface sterilization to prepare the root-associated bacterial cells, and the bacterial cells were extracted and purified using a bacterial cell enrichment method. Total DNA was extracted from the cell fraction. We amplified 16S rRNA genes using a primer set 27F, 518R. These PCR primers target the V1 and V3 region.