TY - JOUR

T1 - Knockdown of the Ribosomal Protein eL29 in Mammalian Cells Leads to Significant Changes in Gene Expression at the Transcription Level

AU - Gopanenko, Alexander V.

AU - Kolobova, Alena V.

AU - Meschaninova, Maria I.

AU - Venyaminova, Alya G.

AU - Tupikin, Alexey E.

AU - Kabilov, Marsel R.

AU - Malygin, Alexey A.

AU - Karpova, Galina G.

PY - 2020/5/15

Y1 - 2020/5/15

N2 - An imbalance in the synthesis of ribosomal proteins can lead to the disruption of various cellular processes. For mammalian cells, it has been shown that the level of the eukaryote-specific ribosomal protein eL29, also known as the one interacting with heparin/heparan sulfate, substantially affects their growth. Moreover, in animals lacking this protein, a number of anatomical abnormalities have been observed. Here, we applied next-generation RNA sequencing to HEK293 cells transfected with siRNAs specific for the mRNA of eL29 to determine what changes occur in the transcriptome profile with a decrease in the level of the target protein. We showed that an approximately 2.5-fold decrease in the content of eL29 leads to statistically significant changes in the expression of more than a thousand genes at the transcription level, without a noticeable effect on cell viability, rRNA level, and global translation. The set of eL29-dependent genes included both up-regulated and down-regulated ones, among which there are those previously identified as targets for proteins implicated in oncogenesis. Thus, our findings demonstrate that an insufficiency of eL29 in mammalian cells causes a significant reorganization of gene expression, thereby highlighting the relationship between the cellular balance of eL29 and the activities of certain genes.

AB - An imbalance in the synthesis of ribosomal proteins can lead to the disruption of various cellular processes. For mammalian cells, it has been shown that the level of the eukaryote-specific ribosomal protein eL29, also known as the one interacting with heparin/heparan sulfate, substantially affects their growth. Moreover, in animals lacking this protein, a number of anatomical abnormalities have been observed. Here, we applied next-generation RNA sequencing to HEK293 cells transfected with siRNAs specific for the mRNA of eL29 to determine what changes occur in the transcriptome profile with a decrease in the level of the target protein. We showed that an approximately 2.5-fold decrease in the content of eL29 leads to statistically significant changes in the expression of more than a thousand genes at the transcription level, without a noticeable effect on cell viability, rRNA level, and global translation. The set of eL29-dependent genes included both up-regulated and down-regulated ones, among which there are those previously identified as targets for proteins implicated in oncogenesis. Thus, our findings demonstrate that an insufficiency of eL29 in mammalian cells causes a significant reorganization of gene expression, thereby highlighting the relationship between the cellular balance of eL29 and the activities of certain genes.

KW - differential gene expression

KW - eL29-dependent genes

KW - eL29-related processes

KW - HEK293 cells

KW - knockdown of ribosomal protein eL29

KW - next-generation sequencing

KW - RNA-seq

KW - SULFATE-BINDING

KW - RNA

KW - TRANSLATION

KW - MATURATION

KW - SACCHAROMYCES-CEREVISIAE

KW - COLLAGEN-XXIV

KW - REGULATOR

KW - LACKING

KW - GROWTH

KW - RPL29

UR - http://www.scopus.com/inward/record.url?scp=85084964475&partnerID=8YFLogxK

U2 - 10.3390/cells9051228

DO - 10.3390/cells9051228

M3 - Article

C2 - 32429214

AN - SCOPUS:85084964475

VL - 9

JO - Cells

JF - Cells

SN - 2073-4409

IS - 5

M1 - 1228

ER -