title: Rhizosphere microbial communities were extracted by saline washes of fine roots (diameter > mm) of maize cultivar DKC 4250, collected at the flowering stage BBCH 63-65. Individual plants were sampled. Total DNA was extracted from the collected cells by “FastDNA SPIN kit for soil” (MP Biomedicals, Illkirch, France). The extraction included two bead beating steps of 45 s at 6.5 m s-1 on a FastPrep-24 system (MP Biomedicals) and additional washing steps of the binding matrix each with 1 ml 5.5 M guanidine thiocyanate (Carl Roth GmbH) until the matrix retained its original color (1 - 3 washes).
organism: rhizosphere metagenome
description: Rhizosphere microbial communities were extracted by saline washes of fine roots (diameter > mm) of maize cultivar DKC 4250, collected at the flowering stage BBCH 63-65. Individual plants were sampled. Total DNA was extracted from the collected cells by “FastDNA SPIN kit for soil” (MP Biomedicals, Illkirch, France). The extraction included two bead beating steps of 45 s at 6.5 m s-1 on a FastPrep-24 system (MP Biomedicals) and additional washing steps of the binding matrix each with 1 ml 5.5 M guanidine thiocyanate (Carl Roth GmbH) until the matrix retained its original color (1 - 3 washes).
attributes.tag: ENA-FIRST-PUBLIC
attributes.value: 2012-01-10T15:58:43Z
attributes.tag: ENA-KEYWORD
attributes.value: GSC, MIxS
attributes.tag: ENA-LAST-UPDATE
attributes.value: 2018-03-09T09:55:25Z
attributes.tag: External Id
attributes.value: SAMEA1094724
attributes.tag: Geographic location (country:region,area)
attributes.value: Germany: Lower Saxony
attributes.tag: INSDC center name
attributes.value: VTI
attributes.tag: INSDC first public
attributes.value: 2012-01-10T15:58:43Z
attributes.tag: INSDC last update
attributes.value: 2018-03-09T09:55:25Z
attributes.tag: INSDC status
attributes.value: public
attributes.tag: Submitter Id
attributes.value: 4250_b
attributes.tag: collection date
attributes.value: BBCH 63 - 65; August 2009
attributes.tag: current vegetation
attributes.value: maize culticar DKC 4250
attributes.tag: depth
attributes.value: 2-15 cm
attributes.tag: enviornmental package
attributes.value: soil
attributes.tag: environment (featurel)
attributes.value: field soil; ENVO:00005755
attributes.tag: environment (material)
attributes.value: rhizosphere; ENVO:00005801
attributes.tag: geographic location (latitude)
attributes.value: 52° N
attributes.tag: geographic location (longitude)
attributes.value: 10° E
attributes.tag: investigation type
attributes.value: MIMARKS
attributes.tag: nucleic acid extraction
attributes.value: “FastDNA SPIN kit for soil” (MP Biomedicals, Illkirch, France)
attributes.tag: pcr conditions
attributes.value: initial denaturation: 95degC_15min; 30 cycles of: denaturation: 94degC_60s, annealing: 50degC_60s, extention: 72degC_70s; final extension at 72degC_5min
attributes.tag: pcr primers
attributes.value: F_Com1_MID4: ccatctcatccctgcgtgtctccgactcagAGCACTGTAGCAGCAGCCGCGGTAATAC; R_Com2: cctatcccctgtgtgccttggcagtctcagCCGTCAATTCCTTTGAGTTT
attributes.tag: ph
attributes.value: 6.1
attributes.tag: project name
attributes.value: maize rhizosphere
attributes.tag: sample name
attributes.value: 4250_b
attributes.tag: scientific_name
attributes.value: rhizosphere metagenome
attributes.tag: sequencing method
attributes.value: Pyrosequencing
attributes.tag: target gene
attributes.value: 16S rRNA