TITLE

Microgenomic Analysis in Skeletal Muscle: Expression Signatures of Individual Fast and Slow Myofibers

AUTHOR(S)
Chemello, Francesco; Bean, Camilla; Cancellara, Pasqua; Laveder, Paolo; Reggiani, Carlo; Lanfranchi, Gerolamo
PUB. DATE
February 2011
SOURCE
PLoS ONE;2011, Vol. 6 Issue 2, p1
SOURCE TYPE
Academic Journal
DOC. TYPE
Article
ABSTRACT
Background: Skeletal muscle is a complex, versatile tissue composed of a variety of functionally diverse fiber types. Although the biochemical, structural and functional properties of myofibers have been the subject of intense investigation for the last decades, understanding molecular processes regulating fiber type diversity is still complicated by the heterogeneity of cell types present in the whole muscle organ. Methodology/Principal Findings: We have produced a first catalogue of genes expressed in mouse slow-oxidative (type 1) and fast-glycolytic (type 2B) fibers through transcriptome analysis at the single fiber level (microgenomics). Individual fibers were obtained from murine soleus and EDL muscles and initially classified by myosin heavy chain isoform content. Gene expression profiling on high density DNA oligonucleotide microarrays showed that both qualitative and quantitative improvements were achieved, compared to results with standard muscle homogenate. First, myofiber profiles were virtually free from non-muscle transcriptional activity. Second, thousands of muscle-specific genes were identified, leading to a better definition of gene signatures in the two fiber types as well as the detection of metabolic and signaling pathways that are differentially activated in specific fiber types. Several regulatory proteins showed preferential expression in slow myofibers. Discriminant analysis revealed novel genes that could be useful for fiber type functional classification. Conclusions/Significance: As gene expression analyses at the single fiber level significantly increased the resolution power, this innovative approach would allow a better understanding of the adaptive transcriptomic transitions occurring in myofibers under physiological and pathological conditions.
ACCESSION #
73937340

 

Related Articles

  • Combined analysis of genome-wide expression and copy number profiles to identify key altered genomic regions in cancer. Fontanillo, Celia; Aibar, Sara; Sanchez-Santos, Jose Manuel; De Las Rivas, Javier // BMC Genomics;2012, Vol. 13 Issue Suppl 5, p1 

    Background: Analysis of DNA copy number alterations and gene expression changes in human samples have been used to find potential target genes in complex diseases. Recent studies have combined these two types of data using different strategies, but focusing on finding gene-based relationships....

  • The long and the short of RNA maps. Ponjavic, Jasmina; Ponting, Chris P. // BioEssays;Nov2007, Vol. 29 Issue 11, p1077 

    The article offers a report on long and short RNA, ribonucleic acid, maps. The section reflects on the study conducted by P. Kapranov and colleagues, which describes three potentially novel classes of RNAs located at the very edges of protein-coding genes. According to the report, the presence...

  • Transcriptome dynamics and molecular cross-talk between bovine oocyte and its companion cumulus cells. Regassa, A.; Rings, F.; Hoelker, M.; Cinar, U.; Tholen, E.; Looft, C.; Schellander, K.; Tesfaye, D. // BMC Genomics;2011, Vol. 12 Issue 1, p57 

    Background: The bi-directional communication between the oocyte and its companion cumulus cells (CCs) is crucial for development and functions of both cell types. Transcripts that are exclusively expressed either in oocytes or CCs and molecular mechanisms affected due to removal of the...

  • Statistical modeling for differential transcriptome analysis using RNA-Seq technology. Miecznikowski, Jeffrey Charles; Song Liu; Xing Ren // Journal of Solid Tumors;Oct2012, Vol. 2 Issue 5, p33 

    RNA-Seq is a recently developed technology for transcriptome profiling. Numerous advantages of RNA-Seq suggest that it will be the platform of choice for genome-wide expression studies. RNA-Seq generates large volumes of data which require statistical methods for data processing and accurate...

  • FGX: a frequentist gene expression index for Affymetrix arrays. Ernst Wit // Biostatistics;Apr2007, Vol. 8 Issue 2, p433 

    We consider a new frequentist gene expression index for Affymetrix oligonucleotide DNA arrays, using a similar probe intensity model as suggested by Hein and others (2005), called the Bayesian gene expression index (BGX). According to this model, the perfect match and mismatch values are assumed...

  • Median-of-Subsets Normalization of Intensities for cDNA Array Data. Delongchamp, Robert R.; Velasco, Cruz; Razzaghi, Mehdi; Harris, Angela; Casciano, Dan // DNA & Cell Biology;Oct2004, Vol. 23 Issue 10, p653 

    cDNA arrays allow quantitative measurement of expression levels for thousands of genes simultaneously. The measurements are affected by many sources of variation, and substantial improvements in the precision of estimated effects accompany adjustments for these effects. Two generic nuisance...

  • Transcriptional profiling of Marek’s disease virus genes during cytolytic and latent infection. Mohammad Heidari; Marianne Huebner; Dmitry Kireev; Robert Silva // Virus Genes;Apr2008, Vol. 36 Issue 2, p383 

    Abstract  Marek’s disease (MD), a lymphoproliferative disease of chicken is caused by a highly cell-associated α-herpesvirus, Marek’s disease virus (MDV). MDV replicates in chicken lymphocytes and establishes a latent infection within CD4 T cells....

  • Exon-Specific QTLs Skew the Inferred Distribution of Expression QTLs Detected Using Gene Expression Array Data. Veyrieras, Jean-Baptiste; Gaffney, Daniel J.; Pickrell, Joseph K.; Gilad, Yoav; Stephens, Matthew; Pritchard, Jonathan K. // PLoS ONE;Feb2012, Vol. 7 Issue 2, p1 

    Mapping of expression quantitative trait loci (eQTLs) is an important technique for studying how genetic variation affects gene regulation in natural populations. In a previous study using Illumina expression data from human lymphoblastoid cell lines, we reported that cis-eQTLs are especially...

  • Exon-Specific QTLs Skew the Inferred Distribution of Expression QTLs Detected Using Gene Expression Array Data. Veyrieras, Jean-Baptiste; Gaffney, Daniel J.; Pickrell, Joseph K.; Gilad, Yoav; Stephens, Matthew; Pritchard, Jonathan K. // PLoS ONE;Feb2012, Vol. 7 Issue 2, p1 

    Mapping of expression quantitative trait loci (eQTLs) is an important technique for studying how genetic variation affects gene regulation in natural populations. In a previous study using Illumina expression data from human lymphoblastoid cell lines, we reported that cis-eQTLs are especially...

Share

Read the Article

Courtesy of THE LIBRARY OF VIRGINIA

Sorry, but this item is not currently available from your library.

Try another library?
Sign out of this library

Other Topics