organism: freshwater metagenome
description: Epiphreatic pool of the karst cave Baerenschacht
attributes.tag: ENA-FIRST-PUBLIC
attributes.value: 2014-11-26T02:21:34Z
attributes.tag: ENA-KEYWORDS
attributes.value: GSC, MIMARKS, MIxS
attributes.tag: ENA-LAST-UPDATE
attributes.value: 2018-03-09T10:02:10Z
attributes.tag: External Id
attributes.value: SAMEA2029258
attributes.tag: INSDC center name
attributes.value: UZH
attributes.tag: INSDC first public
attributes.value: 2014-11-26T02:21:34Z
attributes.tag: INSDC last update
attributes.value: 2018-03-09T10:02:10Z
attributes.tag: INSDC status
attributes.value: public
attributes.tag: Submitter Id
attributes.value: NGIII_sample_3
attributes.tag: amount or size of sample collected
attributes.value: 1.5-2 l of water
attributes.tag: assembly
attributes.value: Vector NTI Invitorgen
attributes.tag: broker name
attributes.value: ENA
attributes.tag: chimera check
attributes.value: Mallard 1.02
attributes.tag: collection date
attributes.value: 2009-12-30
attributes.tag: environment
attributes.value: Epiphreatic pool of the karst cave Baerenschacht
attributes.tag: environment (biome)
attributes.value: Freshwater
attributes.tag: environment (feature)
attributes.value: Underground water body
attributes.tag: environment (material)
attributes.value: Water
attributes.tag: geographic location (altitude/elevation)
attributes.value: 591 m
attributes.tag: geographic location (country)
attributes.value: Switzerland:Bernese Oberland
attributes.tag: geographic location (depth)
attributes.value: 903 m
attributes.tag: geographic location (latitudeandlongitude)
attributes.value: 46.716360 DegN, 7.812370 DegE
attributes.tag: investigation type
attributes.value: MIMARKS-survey
attributes.tag: library size
attributes.value: 304
attributes.tag: library vector
attributes.value: pGEM-T Vector System I (Promega)
attributes.tag: nucleic acid amplification
attributes.value: as discribed in: Shabarova T. and Pernthaler J. (2010) Karst pools in subsurface environments: collectors of microbial diversity or temporary residence between habitat types. Environmental Microbiology 12: 1061-1074.
attributes.tag: nucleic acid extraction
attributes.value: UltraClean Water DNA isolation kit (MO BIO Laboratories Inc.)
attributes.tag: pcr conditions
attributes.value: initial_denaturation= 94degC_5min,26_cycles,denaturation=94degC_0.5min,annealing= 48degC_0.5min,extension=68degC_1.5min,final_extension=68degC_10min
attributes.tag: pcr primers
attributes.value: GM3F:AGAGTTTGATCMTGGC;GM3R:TACCTTGTTACGACTT
attributes.tag: project name
attributes.value: Mass effects meet species sorting: transformations of microbial assemblages in epiphreatic subsurface karst water pools
attributes.tag: sample collection device or method
attributes.value: Sample were collected with sterille seringe (100 ml volume)
attributes.tag: sample material processing
attributes.value: Filtration (microbial biomass was collected on irradiated Sterivex-GP filter unit)
attributes.tag: sample name
attributes.value: NGIII_sample_3
attributes.tag: scientific_name
attributes.value: freshwater metagenome
attributes.tag: sequence quality check
attributes.value: Manual edition of chromatograms
attributes.tag: sequencing method
attributes.value: ABI solid
attributes.tag: target gene
attributes.value: 16S rRNA