Analysis of SEMA6B gene expression in breast cancer

Identification of a new isoform

Luciana D'Apice, Valerio Costa, Carmen Valente, Maria Trovato, Anna Pagani, Stefania Manera, Lea Regolo, Alberto Zambelli, Alfredo Ciccodicola, Piergiuseppe De Berardinis

Research output: Contribution to journalArticle

6 Citations (Scopus)

Abstract

Background SEMA6B is a member of the semaphorins axon-guidance family. A growing body of evidence has been accumulated describing the role of semaphorin molecules in cancer development and the involvement of SEMA6B in cancer progression has recently been proposed. Methods Our analysis, based on real-time PCR, focused on the expression of SEMA6B in a panel of breast cancer tissues, compared to the normal counterpart. Results In cancer tissues we found a significantly strong down-modulation of this transcript. Moreover we identified and characterized a novel SEMA6B isoform, named SEMA6Ba. This isoform has a novel splice junction, created by the usage of alternative donor and acceptor splice sites internal to the exon 17. By in silico analysis we found that the new transcript 3′ UTR lacks some highly-conserved miRNA binding sites, suggesting possible consequences on both spatial and temporal expression of SEMA6Ba. The translated sequence of SEMA6Ba lacks the cytoplasmic tail, crucial for triggering the reverse signaling described for the transmembrane semaphorins. We also demonstrated, by immunofluorescence analysis of endogenous and overexpressed SEMA6Ba, that the protein clearly localized to the endoplasmic reticulum and plasma membrane. In conclusion, SEMA6B gene products are strongly down modulated in breast cancer tissues and a new isoform named SEMA6Ba has been described and characterized. General significance Our work states a clear relation among breast cancer and SEMA6B expression; moreover we describe for the first time the SEMA6Ba protein and report here the analysis of SEMA6Ba RNA messenger, the protein expression and the cellular localization.

Original languageEnglish
Pages (from-to)4543-4553
Number of pages11
JournalBBA - General Subjects
Volume1830
Issue number10
DOIs
Publication statusPublished - 2013

Fingerprint

Semaphorins
Gene expression
Protein Isoforms
RNA Splice Sites
Tissue
Breast Neoplasms
Gene Expression
Neoplasms
Proteins
3' Untranslated Regions
Cell membranes
MicroRNAs
Endoplasmic Reticulum
Computer Simulation
Fluorescent Antibody Technique
Real-Time Polymerase Chain Reaction
Exons
Genes
Binding Sites
Cell Membrane

Keywords

  • Alternative splicing
  • Breast cancer
  • Semaphorin
  • Subcellular localization

ASJC Scopus subject areas

  • Biochemistry
  • Biophysics
  • Molecular Biology

Cite this

D'Apice, L., Costa, V., Valente, C., Trovato, M., Pagani, A., Manera, S., ... De Berardinis, P. (2013). Analysis of SEMA6B gene expression in breast cancer: Identification of a new isoform. BBA - General Subjects, 1830(10), 4543-4553. https://doi.org/10.1016/j.bbagen.2013.05.003

Analysis of SEMA6B gene expression in breast cancer : Identification of a new isoform. / D'Apice, Luciana; Costa, Valerio; Valente, Carmen; Trovato, Maria; Pagani, Anna; Manera, Stefania; Regolo, Lea; Zambelli, Alberto; Ciccodicola, Alfredo; De Berardinis, Piergiuseppe.

In: BBA - General Subjects, Vol. 1830, No. 10, 2013, p. 4543-4553.

Research output: Contribution to journalArticle

D'Apice, L, Costa, V, Valente, C, Trovato, M, Pagani, A, Manera, S, Regolo, L, Zambelli, A, Ciccodicola, A & De Berardinis, P 2013, 'Analysis of SEMA6B gene expression in breast cancer: Identification of a new isoform', BBA - General Subjects, vol. 1830, no. 10, pp. 4543-4553. https://doi.org/10.1016/j.bbagen.2013.05.003
D'Apice, Luciana ; Costa, Valerio ; Valente, Carmen ; Trovato, Maria ; Pagani, Anna ; Manera, Stefania ; Regolo, Lea ; Zambelli, Alberto ; Ciccodicola, Alfredo ; De Berardinis, Piergiuseppe. / Analysis of SEMA6B gene expression in breast cancer : Identification of a new isoform. In: BBA - General Subjects. 2013 ; Vol. 1830, No. 10. pp. 4543-4553.
@article{66e39d1cb7854e90a7f4dc4e441a0da9,
title = "Analysis of SEMA6B gene expression in breast cancer: Identification of a new isoform",
abstract = "Background SEMA6B is a member of the semaphorins axon-guidance family. A growing body of evidence has been accumulated describing the role of semaphorin molecules in cancer development and the involvement of SEMA6B in cancer progression has recently been proposed. Methods Our analysis, based on real-time PCR, focused on the expression of SEMA6B in a panel of breast cancer tissues, compared to the normal counterpart. Results In cancer tissues we found a significantly strong down-modulation of this transcript. Moreover we identified and characterized a novel SEMA6B isoform, named SEMA6Ba. This isoform has a novel splice junction, created by the usage of alternative donor and acceptor splice sites internal to the exon 17. By in silico analysis we found that the new transcript 3′ UTR lacks some highly-conserved miRNA binding sites, suggesting possible consequences on both spatial and temporal expression of SEMA6Ba. The translated sequence of SEMA6Ba lacks the cytoplasmic tail, crucial for triggering the reverse signaling described for the transmembrane semaphorins. We also demonstrated, by immunofluorescence analysis of endogenous and overexpressed SEMA6Ba, that the protein clearly localized to the endoplasmic reticulum and plasma membrane. In conclusion, SEMA6B gene products are strongly down modulated in breast cancer tissues and a new isoform named SEMA6Ba has been described and characterized. General significance Our work states a clear relation among breast cancer and SEMA6B expression; moreover we describe for the first time the SEMA6Ba protein and report here the analysis of SEMA6Ba RNA messenger, the protein expression and the cellular localization.",
keywords = "Alternative splicing, Breast cancer, Semaphorin, Subcellular localization",
author = "Luciana D'Apice and Valerio Costa and Carmen Valente and Maria Trovato and Anna Pagani and Stefania Manera and Lea Regolo and Alberto Zambelli and Alfredo Ciccodicola and {De Berardinis}, Piergiuseppe",
year = "2013",
doi = "10.1016/j.bbagen.2013.05.003",
language = "English",
volume = "1830",
pages = "4543--4553",
journal = "Biochimica et Biophysica Acta - General Subjects",
issn = "0304-4165",
publisher = "Elsevier",
number = "10",

}

TY - JOUR

T1 - Analysis of SEMA6B gene expression in breast cancer

T2 - Identification of a new isoform

AU - D'Apice, Luciana

AU - Costa, Valerio

AU - Valente, Carmen

AU - Trovato, Maria

AU - Pagani, Anna

AU - Manera, Stefania

AU - Regolo, Lea

AU - Zambelli, Alberto

AU - Ciccodicola, Alfredo

AU - De Berardinis, Piergiuseppe

PY - 2013

Y1 - 2013

N2 - Background SEMA6B is a member of the semaphorins axon-guidance family. A growing body of evidence has been accumulated describing the role of semaphorin molecules in cancer development and the involvement of SEMA6B in cancer progression has recently been proposed. Methods Our analysis, based on real-time PCR, focused on the expression of SEMA6B in a panel of breast cancer tissues, compared to the normal counterpart. Results In cancer tissues we found a significantly strong down-modulation of this transcript. Moreover we identified and characterized a novel SEMA6B isoform, named SEMA6Ba. This isoform has a novel splice junction, created by the usage of alternative donor and acceptor splice sites internal to the exon 17. By in silico analysis we found that the new transcript 3′ UTR lacks some highly-conserved miRNA binding sites, suggesting possible consequences on both spatial and temporal expression of SEMA6Ba. The translated sequence of SEMA6Ba lacks the cytoplasmic tail, crucial for triggering the reverse signaling described for the transmembrane semaphorins. We also demonstrated, by immunofluorescence analysis of endogenous and overexpressed SEMA6Ba, that the protein clearly localized to the endoplasmic reticulum and plasma membrane. In conclusion, SEMA6B gene products are strongly down modulated in breast cancer tissues and a new isoform named SEMA6Ba has been described and characterized. General significance Our work states a clear relation among breast cancer and SEMA6B expression; moreover we describe for the first time the SEMA6Ba protein and report here the analysis of SEMA6Ba RNA messenger, the protein expression and the cellular localization.

AB - Background SEMA6B is a member of the semaphorins axon-guidance family. A growing body of evidence has been accumulated describing the role of semaphorin molecules in cancer development and the involvement of SEMA6B in cancer progression has recently been proposed. Methods Our analysis, based on real-time PCR, focused on the expression of SEMA6B in a panel of breast cancer tissues, compared to the normal counterpart. Results In cancer tissues we found a significantly strong down-modulation of this transcript. Moreover we identified and characterized a novel SEMA6B isoform, named SEMA6Ba. This isoform has a novel splice junction, created by the usage of alternative donor and acceptor splice sites internal to the exon 17. By in silico analysis we found that the new transcript 3′ UTR lacks some highly-conserved miRNA binding sites, suggesting possible consequences on both spatial and temporal expression of SEMA6Ba. The translated sequence of SEMA6Ba lacks the cytoplasmic tail, crucial for triggering the reverse signaling described for the transmembrane semaphorins. We also demonstrated, by immunofluorescence analysis of endogenous and overexpressed SEMA6Ba, that the protein clearly localized to the endoplasmic reticulum and plasma membrane. In conclusion, SEMA6B gene products are strongly down modulated in breast cancer tissues and a new isoform named SEMA6Ba has been described and characterized. General significance Our work states a clear relation among breast cancer and SEMA6B expression; moreover we describe for the first time the SEMA6Ba protein and report here the analysis of SEMA6Ba RNA messenger, the protein expression and the cellular localization.

KW - Alternative splicing

KW - Breast cancer

KW - Semaphorin

KW - Subcellular localization

UR - http://www.scopus.com/inward/record.url?scp=84879486317&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84879486317&partnerID=8YFLogxK

U2 - 10.1016/j.bbagen.2013.05.003

DO - 10.1016/j.bbagen.2013.05.003

M3 - Article

VL - 1830

SP - 4543

EP - 4553

JO - Biochimica et Biophysica Acta - General Subjects

JF - Biochimica et Biophysica Acta - General Subjects

SN - 0304-4165

IS - 10

ER -