Experimental setup and data analysis considerations for DNA- and RNA-SIP experiments in the Omics Era

Kód výsledku v IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F60077344%3A_____%2F19%3A00518966" target="_blank" >RIV/60077344:_____/19:00518966 - isvavai.cz</a>

Výsledek na webu

<a href="http://dx.doi.org/10.1007/978-1-4939-9721-3_1" target="_blank" >http://dx.doi.org/10.1007/978-1-4939-9721-3_1</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1007/978-1-4939-9721-3_1" target="_blank" >10.1007/978-1-4939-9721-3_1</a>

Jazyk výsledku

angličtina

Název v původním jazyce

Experimental setup and data analysis considerations for DNA- and RNA-SIP experiments in the Omics Era

Popis výsledku v původním jazyce

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.

Název v anglickém jazyce

Experimental setup and data analysis considerations for DNA- and RNA-SIP experiments in the Omics Era

Popis výsledku anglicky

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.

Druh

C - Kapitola v odborné knize

CEP obor

—

OECD FORD obor

10606 - Microbiology

Projekt

Výsledek vznikl pri realizaci vícero projektů. Více informací v záložce Projekty.

Návaznosti

P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Rok uplatnění

2019

Kód důvěrnosti údajů

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Název knihy nebo sborníku

Stable Isotope Probing: Methods and Protocols, Methods in Molecular Biology

ISBN

978-1-4939-9720-6

Počet stran výsledku

15

Strana od-do

1-15

Počet stran knihy

247

Název nakladatele

Humana Press

Místo vydání

New York

Kód UT WoS kapitoly

000517291000002