Matrin 3 binds and stabilizes mRNA

Maayan Salton; Ran Elkon; Tatiana Borodina; Aleksey Davydov; Marie-Laure Yaspo; Eran Halperin; Yosef Shiloh

doi:10.1371/journal.pone.0023882

Matrin 3 binds and stabilizes mRNA

PLoS One. 2011;6(8):e23882. doi: 10.1371/journal.pone.0023882. Epub 2011 Aug 17.

Authors

Maayan Salton¹, Ran Elkon, Tatiana Borodina, Aleksey Davydov, Marie-Laure Yaspo, Eran Halperin, Yosef Shiloh

Affiliation

¹ The David and Inez Myers Laboratory for Cancer Research, Department of Human Molecular Genetics and Biochemistry, Sackler School of Medicine, Tel Aviv University, Tel Aviv, Israel. maayan.salton@gmail.com

Abstract

Matrin 3 (MATR3) is a highly conserved, inner nuclear matrix protein with two zinc finger domains and two RNA recognition motifs (RRM), whose function is largely unknown. Recently we found MATR3 to be phosphorylated by the protein kinase ATM, which activates the cellular response to double strand breaks in the DNA. Here, we show that MATR3 interacts in an RNA-dependent manner with several proteins with established roles in RNA processing, and maintains its interaction with RNA via its RRM2 domain. Deep sequencing of the bound RNA (RIP-seq) identified several small noncoding RNA species. Using microarray analysis to explore MATR3's role in transcription, we identified 77 transcripts whose amounts depended on the presence of MATR3. We validated this finding with nine transcripts which were also bound to the MATR3 complex. Finally, we demonstrated the importance of MATR3 for maintaining the stability of several of these mRNA species and conclude that it has a role in mRNA stabilization. The data suggest that the cellular level of MATR3, known to be highly regulated, modulates the stability of a group of gene transcripts.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Amino Acid Motifs / genetics
Base Sequence
Binding Sites / genetics
Cell Line, Tumor
DEAD-box RNA Helicases / metabolism
Gene Expression Profiling
HEK293 Cells
Heterogeneous-Nuclear Ribonucleoprotein K
Humans
Immunoblotting
Immunoprecipitation
Neoplasm Proteins / metabolism
Nuclear Matrix-Associated Proteins / genetics
Nuclear Matrix-Associated Proteins / metabolism*
Oligonucleotide Array Sequence Analysis
Phosphoproteins / genetics
Phosphoproteins / metabolism
Protein Binding
RNA / genetics
RNA / metabolism*
RNA Interference
RNA Processing, Post-Transcriptional
RNA Stability
RNA, Messenger / genetics
RNA, Messenger / metabolism*
RNA, Small Untranslated / metabolism
RNA-Binding Proteins / genetics
RNA-Binding Proteins / metabolism*
Reverse Transcriptase Polymerase Chain Reaction
Ribonucleoproteins / metabolism

Substances

Heterogeneous-Nuclear Ribonucleoprotein K
MATR3 protein, human
Neoplasm Proteins
Nuclear Matrix-Associated Proteins
Phosphoproteins
RNA, Messenger
RNA, Small Untranslated
RNA-Binding Proteins
Ribonucleoproteins
HNRNPK protein, human
RNA
DHX9 protein, human
DEAD-box RNA Helicases