Evaluation of the mirn23a cluster through an iTRAQ-based quantitative proteomic approach

Katelyn R. Ludwig, Richard Dahl, Amanda B. Hummon

Research output: Contribution to journalArticle

4 Citations (Scopus)

Abstract

MicroRNAs (miRNAs) are post-transcriptional regulators of gene expression that are implicated in a number of disease states. MiRNAs can exist as individual entities or may be clustered and transcribed as a single polycistron. The mirn23a cluster consists of three miRNAs: miR-23a, miR-24-2, and miR-27a. Although these miRNAs are transcribed together, they often exist at varying levels in the cell. Despite the fact that the mirn23a cluster is known to play a role in a number of diseases and developmental processes, few direct targets have been identified. In this study, we examined the effects of miR-23a, miR-24-2, miR-27a, or the mirn23a cluster overexpression on the proteome of 70Z/3 pre-B lymphoblast cells. Quantitative mass spectrometry using isobaric tags for relative and absolute quantification (iTRAQ) allowed for the global profiling of cell lines after miRNA overexpression. We identified a number of targets of each miRNA that contained predicted miRNA seed sequences and are likely direct targets. In addition, we discovered a cohort of shared miRNA targets and cluster targets, demonstrating the importance of studying miRNA clusters in their entirety.

Original languageEnglish (US)
Pages (from-to)1497-1505
Number of pages9
JournalJournal of Proteome Research
Volume15
Issue number5
DOIs
StatePublished - May 6 2016

Fingerprint

MicroRNAs
Proteomics
B-Lymphoid Precursor Cells
Proteome
Regulator Genes
Gene expression
Mass spectrometry
Seed
Mass Spectrometry
Seeds
Cells
Gene Expression
Cell Line

Keywords

  • cluster
  • iTRAQ
  • microRNA
  • miR-23a
  • miR-24
  • miR-27a

ASJC Scopus subject areas

  • Chemistry(all)
  • Biochemistry

Cite this

Evaluation of the mirn23a cluster through an iTRAQ-based quantitative proteomic approach. / Ludwig, Katelyn R.; Dahl, Richard; Hummon, Amanda B.

In: Journal of Proteome Research, Vol. 15, No. 5, 06.05.2016, p. 1497-1505.

Research output: Contribution to journalArticle

@article{bbe619f67b644149bf13b6cda6bdcba2,
title = "Evaluation of the mirn23a cluster through an iTRAQ-based quantitative proteomic approach",
abstract = "MicroRNAs (miRNAs) are post-transcriptional regulators of gene expression that are implicated in a number of disease states. MiRNAs can exist as individual entities or may be clustered and transcribed as a single polycistron. The mirn23a cluster consists of three miRNAs: miR-23a, miR-24-2, and miR-27a. Although these miRNAs are transcribed together, they often exist at varying levels in the cell. Despite the fact that the mirn23a cluster is known to play a role in a number of diseases and developmental processes, few direct targets have been identified. In this study, we examined the effects of miR-23a, miR-24-2, miR-27a, or the mirn23a cluster overexpression on the proteome of 70Z/3 pre-B lymphoblast cells. Quantitative mass spectrometry using isobaric tags for relative and absolute quantification (iTRAQ) allowed for the global profiling of cell lines after miRNA overexpression. We identified a number of targets of each miRNA that contained predicted miRNA seed sequences and are likely direct targets. In addition, we discovered a cohort of shared miRNA targets and cluster targets, demonstrating the importance of studying miRNA clusters in their entirety.",
keywords = "cluster, iTRAQ, microRNA, miR-23a, miR-24, miR-27a",
author = "Ludwig, {Katelyn R.} and Richard Dahl and Hummon, {Amanda B.}",
year = "2016",
month = "5",
day = "6",
doi = "10.1021/acs.jproteome.5b01101",
language = "English (US)",
volume = "15",
pages = "1497--1505",
journal = "Journal of Proteome Research",
issn = "1535-3893",
publisher = "American Chemical Society",
number = "5",

}

TY - JOUR

T1 - Evaluation of the mirn23a cluster through an iTRAQ-based quantitative proteomic approach

AU - Ludwig, Katelyn R.

AU - Dahl, Richard

AU - Hummon, Amanda B.

PY - 2016/5/6

Y1 - 2016/5/6

N2 - MicroRNAs (miRNAs) are post-transcriptional regulators of gene expression that are implicated in a number of disease states. MiRNAs can exist as individual entities or may be clustered and transcribed as a single polycistron. The mirn23a cluster consists of three miRNAs: miR-23a, miR-24-2, and miR-27a. Although these miRNAs are transcribed together, they often exist at varying levels in the cell. Despite the fact that the mirn23a cluster is known to play a role in a number of diseases and developmental processes, few direct targets have been identified. In this study, we examined the effects of miR-23a, miR-24-2, miR-27a, or the mirn23a cluster overexpression on the proteome of 70Z/3 pre-B lymphoblast cells. Quantitative mass spectrometry using isobaric tags for relative and absolute quantification (iTRAQ) allowed for the global profiling of cell lines after miRNA overexpression. We identified a number of targets of each miRNA that contained predicted miRNA seed sequences and are likely direct targets. In addition, we discovered a cohort of shared miRNA targets and cluster targets, demonstrating the importance of studying miRNA clusters in their entirety.

AB - MicroRNAs (miRNAs) are post-transcriptional regulators of gene expression that are implicated in a number of disease states. MiRNAs can exist as individual entities or may be clustered and transcribed as a single polycistron. The mirn23a cluster consists of three miRNAs: miR-23a, miR-24-2, and miR-27a. Although these miRNAs are transcribed together, they often exist at varying levels in the cell. Despite the fact that the mirn23a cluster is known to play a role in a number of diseases and developmental processes, few direct targets have been identified. In this study, we examined the effects of miR-23a, miR-24-2, miR-27a, or the mirn23a cluster overexpression on the proteome of 70Z/3 pre-B lymphoblast cells. Quantitative mass spectrometry using isobaric tags for relative and absolute quantification (iTRAQ) allowed for the global profiling of cell lines after miRNA overexpression. We identified a number of targets of each miRNA that contained predicted miRNA seed sequences and are likely direct targets. In addition, we discovered a cohort of shared miRNA targets and cluster targets, demonstrating the importance of studying miRNA clusters in their entirety.

KW - cluster

KW - iTRAQ

KW - microRNA

KW - miR-23a

KW - miR-24

KW - miR-27a

UR - http://www.scopus.com/inward/record.url?scp=84969136102&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84969136102&partnerID=8YFLogxK

U2 - 10.1021/acs.jproteome.5b01101

DO - 10.1021/acs.jproteome.5b01101

M3 - Article

C2 - 27028342

AN - SCOPUS:84969136102

VL - 15

SP - 1497

EP - 1505

JO - Journal of Proteome Research

JF - Journal of Proteome Research

SN - 1535-3893

IS - 5

ER -