Gene Expression Variation of Candidate Endogenous Control Genes Across Latitudinal Populations of the Bank Vole (Clethrionomys glareolus)

Kód výsledku v IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F67985904%3A_____%2F20%3A00536235" target="_blank" >RIV/67985904:_____/20:00536235 - isvavai.cz</a>

Výsledek na webu

<a href="https://figshare.com/collections/Gene_Expression_Variation_of_Candidate_Endogenous_Control_Genes_Across_Latitudinal_Populations_of_the_Bank_Vole_Clethrionomys_glareolus_/5181692" target="_blank" >https://figshare.com/collections/Gene_Expression_Variation_of_Candidate_Endogenous_Control_Genes_Across_Latitudinal_Populations_of_the_Bank_Vole_Clethrionomys_glareolus_/5181692</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.3389/fevo.2020.562065" target="_blank" >10.3389/fevo.2020.562065</a>

Jazyk výsledku

angličtina

Název v původním jazyce

Gene Expression Variation of Candidate Endogenous Control Genes Across Latitudinal Populations of the Bank Vole (Clethrionomys glareolus)

Popis výsledku v původním jazyce

The bank vole has become an important species for the study of gene expression changes underlying evolutionary adaptation, within-host dynamics and resistance to pathogens, or response to pollutants. RT-qPCR is an optimized method for the rapid and accurate measuring gene expression, but it relies on the use of reference genes (RGs) as endogenous controls to normalize mRNA levels of the target genes. Contrary to the common practice, the expression level of the housekeeping genes traditionally used as RGs cannot be assumed stable across different species and experimental settings. Furthermore, compared to model laboratory species, there are potentially additional sources of variation when collecting gene expression data from natural populations with unknown genetic and environmental backgrounds. Thus, rigorous determination of RGs in natural populations of the bank vole was necessary to facilitate gene expression studies in this emerging model species. Therefore, we evaluated the expression variation of 10 RG candidates in spleen samples of bank voles spanning a broad latitudinal range across Europe, using four approaches. Ube2d2a, Ppia, and Tbp were consistently identified as the least variable genes, followed by Rn18s, Ywhaz, and Rplp0. The combinations Ube2d2a and Ppia or Ube2d2a and Tbp were identified to be sufficient for the normalization. In contrast, the traditional housekeeping genes Actb, Gapdh, Sdha, and Tuba1a displayed large expression variation and are not recommended as internal controls. Our results underscore the need of a systematic evaluation of appropriate RGs to each particular experimental system and provide a useful starting point for further studies.

Název v anglickém jazyce

Gene Expression Variation of Candidate Endogenous Control Genes Across Latitudinal Populations of the Bank Vole (Clethrionomys glareolus)

Popis výsledku anglicky

The bank vole has become an important species for the study of gene expression changes underlying evolutionary adaptation, within-host dynamics and resistance to pathogens, or response to pollutants. RT-qPCR is an optimized method for the rapid and accurate measuring gene expression, but it relies on the use of reference genes (RGs) as endogenous controls to normalize mRNA levels of the target genes. Contrary to the common practice, the expression level of the housekeeping genes traditionally used as RGs cannot be assumed stable across different species and experimental settings. Furthermore, compared to model laboratory species, there are potentially additional sources of variation when collecting gene expression data from natural populations with unknown genetic and environmental backgrounds. Thus, rigorous determination of RGs in natural populations of the bank vole was necessary to facilitate gene expression studies in this emerging model species. Therefore, we evaluated the expression variation of 10 RG candidates in spleen samples of bank voles spanning a broad latitudinal range across Europe, using four approaches. Ube2d2a, Ppia, and Tbp were consistently identified as the least variable genes, followed by Rn18s, Ywhaz, and Rplp0. The combinations Ube2d2a and Ppia or Ube2d2a and Tbp were identified to be sufficient for the normalization. In contrast, the traditional housekeeping genes Actb, Gapdh, Sdha, and Tuba1a displayed large expression variation and are not recommended as internal controls. Our results underscore the need of a systematic evaluation of appropriate RGs to each particular experimental system and provide a useful starting point for further studies.

Druh

J_imp - Článek v periodiku v databázi Web of Science

CEP obor

—

OECD FORD obor

10605 - Developmental biology

Projekt

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

Návaznosti

I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace

Rok uplatnění

2020

Kód důvěrnosti údajů

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

Název periodika

Frontiers in Ecology and Evolution

ISSN

2296-701X

e-ISSN

—

Svazek periodika

8

Číslo periodika v rámci svazku

OCT 21

Stát vydavatele periodika

CH - Švýcarská konfederace

Počet stran výsledku

10

Strana od-do

562065

Kód UT WoS článku

000584630800001

EID výsledku v databázi Scopus

2-s2.0-85095408848