-
Je něco špatně v tomto záznamu ?
Experimental Setup and Data Analysis Considerations for DNA- and RNA-SIP Experiments in the Omics Era
R. Angel,
Jazyk angličtina Země Spojené státy americké
Typ dokumentu časopisecké články, práce podpořená grantem
- MeSH
- analýza dat MeSH
- bakteriální RNA chemie MeSH
- deuterium analýza MeSH
- DNA bakterií chemie MeSH
- DNA metabolismus MeSH
- izotopové značení metody MeSH
- izotopy dusíku analýza MeSH
- izotopy kyslíku analýza MeSH
- izotopy uhlíku analýza MeSH
- RNA metabolismus MeSH
- vysoce účinné nukleotidové sekvenování MeSH
- výzkumný projekt MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
Careful and thoughtful experimental design is crucial to the success of any SIP experiment. This chapter discusses the essential aspects of designing a SIP experiment, focusing primarily on DNA- and RNA-SIP. The design aspects discussed here begin with considerations for carrying out the incubation, such as, the effect of choosing different stable isotopes and target biomolecules, to what degree should a labeled substrate be enriched, what concentration to use, and how long should the incubation take. Then tips and pitfalls in the technical execution of SIP are listed, including how much nucleic acids should be loaded, how many fractions to collect, and what centrifuge rotor to use. Lastly, a brief overview of the current methods for analyzing SIP data is presented, focusing on high-throughput amplicon sequencing, together with a discussion on how the choice of analysis method might affect the experimental design.
Citace poskytuje Crossref.org
- 000
- 00000naa a2200000 a 4500
- 001
- bmc20022960
- 003
- CZ-PrNML
- 005
- 20201214125033.0
- 007
- ta
- 008
- 201125s2019 xxu f 000 0|eng||
- 009
- AR
- 024 7_
- $a 10.1007/978-1-4939-9721-3_1 $2 doi
- 035 __
- $a (PubMed)31407292
- 040 __
- $a ABA008 $b cze $d ABA008 $e AACR2
- 041 0_
- $a eng
- 044 __
- $a xxu
- 100 1_
- $a Angel, Roey $u Soil and Water Research Infrastructure and Institute of Soil Biology, Biology Centre CAS, České Budějovice, Czech Republic. Roey.Angel@bc.cas.cz.
- 245 10
- $a Experimental Setup and Data Analysis Considerations for DNA- and RNA-SIP Experiments in the Omics Era / $c R. Angel,
- 520 9_
- $a Careful and thoughtful experimental design is crucial to the success of any SIP experiment. This chapter discusses the essential aspects of designing a SIP experiment, focusing primarily on DNA- and RNA-SIP. The design aspects discussed here begin with considerations for carrying out the incubation, such as, the effect of choosing different stable isotopes and target biomolecules, to what degree should a labeled substrate be enriched, what concentration to use, and how long should the incubation take. Then tips and pitfalls in the technical execution of SIP are listed, including how much nucleic acids should be loaded, how many fractions to collect, and what centrifuge rotor to use. Lastly, a brief overview of the current methods for analyzing SIP data is presented, focusing on high-throughput amplicon sequencing, together with a discussion on how the choice of analysis method might affect the experimental design.
- 650 _2
- $a izotopy uhlíku $x analýza $7 D002247
- 650 _2
- $a DNA $x metabolismus $7 D004247
- 650 _2
- $a DNA bakterií $x chemie $7 D004269
- 650 _2
- $a analýza dat $7 D000078332
- 650 _2
- $a deuterium $x analýza $7 D003903
- 650 _2
- $a vysoce účinné nukleotidové sekvenování $7 D059014
- 650 _2
- $a izotopové značení $x metody $7 D007553
- 650 _2
- $a izotopy dusíku $x analýza $7 D009587
- 650 _2
- $a izotopy kyslíku $x analýza $7 D010103
- 650 _2
- $a RNA $x metabolismus $7 D012313
- 650 _2
- $a bakteriální RNA $x chemie $7 D012329
- 650 _2
- $a výzkumný projekt $7 D012107
- 655 _2
- $a časopisecké články $7 D016428
- 655 _2
- $a práce podpořená grantem $7 D013485
- 773 0_
- $w MED00180389 $t Methods in molecular biology (Clifton, N.J.) $x 1940-6029 $g Roč. 2046, č. - (2019), s. 1-15
- 856 41
- $u https://pubmed.ncbi.nlm.nih.gov/31407292 $y Pubmed
- 910 __
- $a ABA008 $b sig $c sign $y a $z 0
- 990 __
- $a 20201125 $b ABA008
- 991 __
- $a 20201214125033 $b ABA008
- 999 __
- $a ok $b bmc $g 1595279 $s 1113636
- BAS __
- $a 3
- BAS __
- $a PreBMC
- BMC __
- $a 2019 $b 2046 $c - $d 1-15 $e - $i 1940-6029 $m Methods in molecular biology $n Methods Mol Biol $x MED00180389
- LZP __
- $a Pubmed-20201125
