-
Je něco špatně v tomto záznamu ?
Inter-laboratory testing of the effect of DNA blocking reagent G2 on DNA extraction from low-biomass clay samples
CS. Jacobsen, TK. Nielsen, JK. Vester, P. Stougaard, JL. Nielsen, J. Voriskova, A. Winding, P. Baldrian, B. Liu, Å. Frostegård, D. Pedersen, AT. Tveit, MM. Svenning, CC. Tebbe, L. Øvreås, PB. Jakobsen, SJ. Blazewicz, V. Hubablek, S. Bertilsson,...
Jazyk angličtina Země Velká Británie
Typ dokumentu časopisecké články, práce podpořená grantem
NLK
Directory of Open Access Journals
od 2011
Free Medical Journals
od 2011
Nature Open Access
od 2011-12-01
PubMed Central
od 2011
Europe PubMed Central
od 2011
ProQuest Central
od 2011-01-01
Open Access Digital Library
od 2011-01-01
Open Access Digital Library
od 2011-01-01
Health & Medicine (ProQuest)
od 2011-01-01
ROAD: Directory of Open Access Scholarly Resources
od 2011
Springer Nature OA/Free Journals
od 2011-12-01
- MeSH
- biomasa MeSH
- jíl MeSH
- kontaminace DNA MeSH
- laboratoře MeSH
- metagenomika MeSH
- polymerázová řetězová reakce MeSH
- půdní mikrobiologie MeSH
- reagenční diagnostické soupravy normy MeSH
- ribozomální DNA genetika izolace a purifikace MeSH
- RNA ribozomální 16S genetika izolace a purifikace MeSH
- sekvenční analýza DNA MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
Here we show that a commercial blocking reagent (G2) based on modified eukaryotic DNA significantly improved DNA extraction efficiency. We subjected G2 to an inter-laboratory testing, where DNA was extracted from the same clay subsoil using the same batch of kits. The inter-laboratory extraction campaign revealed large variation among the participating laboratories, but the reagent increased the number of PCR-amplified16S rRNA genes recovered from biomass naturally present in the soils by one log unit. An extensive sequencing approach demonstrated that the blocking reagent was free of contaminating DNA, and may therefore also be used in metagenomics studies that require direct sequencing.
Academy of Sciences of the Czech Republic Bron Czech Republic
Academy of Sciences of the Czech Republic Bron Czech Republic Berkeley Lab Berkeley USA
Cellular Molecular and Microbial Biology Program University of Montana Missoula MT USA
Department of Arctic and Marine Biology The Arctic University of Norway Tromsø Norway
Department of Biology University of Bergen Bergen Norway
Department of Biology University of Copenhagen Copenhagen Denmark
Department of Chemistry and Bioscience Aalborg University Aalborg Denmark
Department of Environmental Sciences University of Aarhus Roskilde Denmark
Department of Plant and Environmental Sciences University of Copenhagen Frederiksberg Denmark
Environmental Research Institute University of Waikato Hamilton New Zealand
Faculty of Chemistry Biotechnology and Food Science Norwegian University of Life Sciences Ås Norway
Nuclear and Chemical Sciences Division Lawrence Livermore National Laboratory Livermore CA USA
Citace poskytuje Crossref.org
- 000
- 00000naa a2200000 a 4500
- 001
- bmc19045502
- 003
- CZ-PrNML
- 005
- 20200113082311.0
- 007
- ta
- 008
- 200109s2018 xxk f 000 0|eng||
- 009
- AR
- 024 7_
- $a 10.1038/s41598-018-24082-y $2 doi
- 035 __
- $a (PubMed)29632323
- 040 __
- $a ABA008 $b cze $d ABA008 $e AACR2
- 041 0_
- $a eng
- 044 __
- $a xxk
- 100 1_
- $a Jacobsen, Carsten Suhr $u Department of Environmental Sciences, University of Aarhus, Roskilde, Denmark. csj@envs.au.dk. Center for Permafrost (CENPERM) and Department of Geochemistry, Geological Survey of Denmark and Greenland, Copenhagen, Denmark. csj@envs.au.dk.
- 245 10
- $a Inter-laboratory testing of the effect of DNA blocking reagent G2 on DNA extraction from low-biomass clay samples / $c CS. Jacobsen, TK. Nielsen, JK. Vester, P. Stougaard, JL. Nielsen, J. Voriskova, A. Winding, P. Baldrian, B. Liu, Å. Frostegård, D. Pedersen, AT. Tveit, MM. Svenning, CC. Tebbe, L. Øvreås, PB. Jakobsen, SJ. Blazewicz, V. Hubablek, S. Bertilsson, LH. Hansen, SC. Cary, WE. Holben, F. Ekelund, J. Bælum,
- 520 9_
- $a Here we show that a commercial blocking reagent (G2) based on modified eukaryotic DNA significantly improved DNA extraction efficiency. We subjected G2 to an inter-laboratory testing, where DNA was extracted from the same clay subsoil using the same batch of kits. The inter-laboratory extraction campaign revealed large variation among the participating laboratories, but the reagent increased the number of PCR-amplified16S rRNA genes recovered from biomass naturally present in the soils by one log unit. An extensive sequencing approach demonstrated that the blocking reagent was free of contaminating DNA, and may therefore also be used in metagenomics studies that require direct sequencing.
- 650 _2
- $a biomasa $7 D018533
- 650 _2
- $a jíl $7 D000077215
- 650 _2
- $a kontaminace DNA $7 D059018
- 650 _2
- $a ribozomální DNA $x genetika $x izolace a purifikace $7 D004275
- 650 _2
- $a laboratoře $7 D007753
- 650 _2
- $a metagenomika $7 D056186
- 650 _2
- $a polymerázová řetězová reakce $7 D016133
- 650 _2
- $a RNA ribozomální 16S $x genetika $x izolace a purifikace $7 D012336
- 650 _2
- $a reagenční diagnostické soupravy $x normy $7 D011933
- 650 _2
- $a sekvenční analýza DNA $7 D017422
- 650 _2
- $a půdní mikrobiologie $7 D012988
- 655 _2
- $a časopisecké články $7 D016428
- 655 _2
- $a práce podpořená grantem $7 D013485
- 700 1_
- $a Nielsen, Tue Kjærgaard $u Department of Environmental Sciences, University of Aarhus, Roskilde, Denmark. Center for Permafrost (CENPERM) and Department of Geochemistry, Geological Survey of Denmark and Greenland, Copenhagen, Denmark.
- 700 1_
- $a Vester, Jan Kjølhede $u Department of Plant and Environmental Sciences, University of Copenhagen, Frederiksberg, Denmark. NovoZymes A/S, Copenhagen, Denmark.
- 700 1_
- $a Stougaard, Peter $u Department of Plant and Environmental Sciences, University of Copenhagen, Frederiksberg, Denmark.
- 700 1_
- $a Nielsen, Jeppe Lund $u Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark.
- 700 1_
- $a Voriskova, Jana $u Academy of Sciences of the Czech Republic, Bron, Czech Republic. Berkeley Lab, Berkeley, USA.
- 700 1_
- $a Winding, Anne $u Department of Environmental Sciences, University of Aarhus, Roskilde, Denmark.
- 700 1_
- $a Baldrian, Petr $u Academy of Sciences of the Czech Republic, Bron, Czech Republic.
- 700 1_
- $a Liu, Binbin $u Faculty of Chemistry, Biotechnology and Food Science, Norwegian University of Life Sciences, Ås, Norway.
- 700 1_
- $a Frostegård, Åsa $u Faculty of Chemistry, Biotechnology and Food Science, Norwegian University of Life Sciences, Ås, Norway.
- 700 1_
- $a Pedersen, Dorthe $u Center for Geomicrobiology, Department of Biosciences, University of Aarhus, Aarhus, Denmark. NIRAS A/S, Aarhus, Denmark.
- 700 1_
- $a Tveit, Alexander Tøsdal $u Department of Arctic and Marine Biology, The Arctic University of Norway, Tromsø, Norway.
- 700 1_
- $a Svenning, Mette Marianne $u Department of Arctic and Marine Biology, The Arctic University of Norway, Tromsø, Norway.
- 700 1_
- $a Tebbe, Christoph C $u Thünen-Institut für Biodiversität, Braunschweig, Germany.
- 700 1_
- $a Øvreås, Lise $u Department of Biology, University of Bergen, Bergen, Norway.
- 700 1_
- $a Jakobsen, Pia Bach $u Center for Permafrost (CENPERM) and Department of Geochemistry, Geological Survey of Denmark and Greenland, Copenhagen, Denmark.
- 700 1_
- $a Blazewicz, Steven J $u Nuclear and Chemical Sciences Division, Lawrence Livermore National Laboratory, Livermore, CA, USA.
- 700 1_
- $a Hubablek, Valerie $u Department of Ecology and Genetics, Limnology and Science for Life Laboratory, Uppsala University, Uppsala, Sweden.
- 700 1_
- $a Bertilsson, Stefan $u Department of Ecology and Genetics, Limnology and Science for Life Laboratory, Uppsala University, Uppsala, Sweden.
- 700 1_
- $a Hansen, Lars Hestbjerg $u Department of Environmental Sciences, University of Aarhus, Roskilde, Denmark.
- 700 1_
- $a Cary, S Craig $u Environmental Research Institute, University of Waikato, Hamilton, New Zealand.
- 700 1_
- $a Holben, William E $u Cellular, Molecular and Microbial Biology Program, University of Montana, Missoula, MT, USA.
- 700 1_
- $a Ekelund, Flemming $u Department of Biology, University of Copenhagen, Copenhagen, Denmark.
- 700 1_
- $a Bælum, Jacob $u Center for Permafrost (CENPERM) and Department of Geochemistry, Geological Survey of Denmark and Greenland, Copenhagen, Denmark. Chr Hansen A/S, Hørsholm, Denmark.
- 773 0_
- $w MED00182195 $t Scientific reports $x 2045-2322 $g Roč. 8, č. 1 (2018), s. 5711
- 856 41
- $u https://pubmed.ncbi.nlm.nih.gov/29632323 $y Pubmed
- 910 __
- $a ABA008 $b sig $c sign $y a $z 0
- 990 __
- $a 20200109 $b ABA008
- 991 __
- $a 20200113082643 $b ABA008
- 999 __
- $a ok $b bmc $g 1483770 $s 1084175
- BAS __
- $a 3
- BAS __
- $a PreBMC
- BMC __
- $a 2018 $b 8 $c 1 $d 5711 $e 20180409 $i 2045-2322 $m Scientific reports $n Sci Rep $x MED00182195
- LZP __
- $a Pubmed-20200109
