Development and application of a bovine cDNA microarray for expression profiling of muscle and adipose tissue

Lehnert, S. A.; Wang, Y. H.; Byrne, Keren

doi:10.1071/ea03238

Cited by 40 publications

(29 citation statements)

References 16 publications

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“…Total RNA samples were not pooled, and each of the 48 RNA samples was labeled with Cy3 (green) fluorescent dye label and separately hybridized to an Agilent bovine expression microarray platform following a previously published protocol (32). The Agilent platform contains ϳ21,475 probes, printed in duplicate.…”

Section: Methodsmentioning

confidence: 99%

Chronic exposure to anabolic steroids induces the muscle expression of oxytocin and a more than fiftyfold increase in circulating oxytocin in cattle

Jager

Hudson

Reverter

et al. 2011

Physiological Genomics

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Chronic exposure to anabolic steroids induces the muscle expression of oxytocin and a more than fiftyfold increase in circulating oxytocin in cattle. Physiol Genomics 43: 467-478, 2011. First published February 15, 2011 doi:10.1152/physiolgenomics.00226.2010.-Molecular mechanisms in skeletal muscle associated with anabolic steroid treatment of cattle are unclear and we aimed to characterize transcriptional changes. Cattle were chronically exposed (68 Ϯ 20 days) to a steroid hormone implant containing 200 mg trenbolone acetate and 20 mg estradiol (Revalor-H). Biopsy samples from 48 cattle (half treated) from longissimus dorsi (LD) muscle under local anesthesia were collected. Gene expression levels were profiled by microarray, covering 16,944 unique bovine genes: 121 genes were differentially expressed (DE) due to the implant (99.99% posterior probability of not being false positives). Among DE genes, a decrease in expression of a number of fat metabolism-associated genes, likely reflecting the lipid storage activity of intramuscular adipocytes, was observed. The expression of IGF1 and genes related to the extracellular matrix, slow twitch fibers, and cell cycle (including SOX8, a satellite cell marker) was increased in the treated muscle. Unexpectedly, a very large 21-(microarray) to 97 (real time quantitative PCR)-fold higher expression of the mRNA encoding the neuropeptide hormone oxytocin was observed in treated muscle. We also observed an ϳ50-fold higher level of circulating oxytocin in the plasma of treated animals at the time of biopsy. Using a coexpression network strategy OXTR was identified as more likely than IGF1R to be a major mediator of the muscle response to Revalor-H. A re-investigation of in vivo cattle LD muscle samples during early to mid-fetal development identified a Ͼ128-fold increased expression of OXT, coincident with myofiber differentiation and fusion. We propose that oxytocin may be involved in mediating the anabolic effects of Revalor-H treatment.

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Section: Methodsmentioning

confidence: 99%

Chronic exposure to anabolic steroids induces the muscle expression of oxytocin and a more than fiftyfold increase in circulating oxytocin in cattle

Jager

Hudson

Reverter

et al. 2011

Physiological Genomics

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“…None of these molecular tools is specifically tailored for functional genomics studies of beef quality. Therefore, arrays have been constructed from cDNA libraries derived from bovine muscles or muscle and adipose tissue (Cho et al, 2002;Lehnert et al, 2004). The number of array elements printed on these tissue-specific arrays was generally lower than that derived from multiple tissues (Suchyta et al, 2003).…”

Section: Available Molecular Tools For Transcriptomic Studiesmentioning

confidence: 99%

“…2 000 EST and ca. 7 300 anonymous cDNA clones from muscle and fat-derived cDNA libraries (Lehnert et al, 2004). The microarray also includes a collection of 'candidate genes' from the adipogenesis and protein turn-over literature.…”

Section: Available Molecular Tools For Transcriptomic Studiesmentioning

confidence: 99%

“…Three consecutive biopsies from LM tissue were taken and RNA isolated from three JB (Tajima strain) and three Holstein (HOL) animals at age 11 to 20 months. The gene expression changes in these samples were analysed using a bovine fat/muscle cDNA microarray (Lehnert et al, 2004). A mixed-ANOVA model was fitted to the intensity signals.…”

Section: Comparison Of Gene Expression Between Muscle Typesmentioning

confidence: 99%

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Recent advances in cattle functional genomics and their application to beef quality

Hocquette

Lehnert

Barendse

et al. 2007

Animal

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The advent of high-throughput DNA sequencing techniques, array technology and protein analysis has increased the efficiency of research in bovine muscle physiology, with the ultimate objective of improving beef quality either by breeding or rearing factors. For genetic purposes, polymorphisms in some key genes have been reported for their association with beef quality traits. The sequencing of the bovine genome has dramatically increased the number of available gene polymorphisms. The association of these new polymorphisms with the variability in beef quality (e.g. tenderness, marbling) for different breeds in different rearing systems will be a very important issue. For rearing purposes, global gene expression profiling at the mRNA or protein level has already shown that previously unsuspected genes may be associated either with muscle development or growth, and may lead to the development of new molecular indicators of tenderness or marbling. Some of these genes are specifically regulated by genetic and nutritional factors or differ between different beef cuts. In recognition of the potential economic benefits of genomics, public institutions in association with the beef industry are developing livestock genomics projects around the world. From the scientific, technical and economical points of view, genomics is thus reshaping research on beef quality.

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“…IN RECENT YEARS, gene expression profiling has become part of the suite of technologies used by animal geneticists investigating livestock traits (7,12,16,28). While some progress has been made in the identification of differentially expressed genes between two (or more) experimental conditions, it is also thought that the analysis of large data sets generated from expression profiles may allow the development of predictive models of the systems underpinning the genetics of complex traits (1,36).…”

mentioning

confidence: 99%

A gene coexpression network for bovine skeletal muscle inferred from microarray data

Reverter

Hudson

Wang

et al. 2006

Physiological Genomics

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We present the application of large-scale multivariate mixed-model equations to the joint analysis of nine gene expression experiments in beef cattle muscle and fat tissues with a total of 147 hybridizations, and we explore 47 experimental conditions or treatments. Using a correlationbased method, we constructed a gene network for 822 genes. Modules of muscle structural proteins and enzymes, extracellular matrix, fat metabolism, and protein synthesis were clearly evident. Detailed analysis of the network identified groupings of proteins on the basis of physical association. For example, expression of three components of the z-disk, MYOZ1, TCAP, and PDLIM3, was significantly correlated. In contrast, expression of these z-disk proteins was not highly correlated with the expression of a cluster of thick (myosins) and thin (actin and tropomyosins) filament proteins or of titin, the third major filament system. However, expression of titin was itself not significantly correlated with the cluster of thick and thin filament proteins and enzymes. Correlation in expression of many fast-twitch muscle structural proteins and enzymes was observed, but slow-twitch-specific proteins were not correlated with the fast-twitch proteins or with each other. In addition, a number of significant associations between genes and transcription factors were also identified. Our results not only recapitulate the known biology of muscle but have also started to reveal some of the underlying associations between and within the structural components of skeletal muscle.

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Development and application of a bovine cDNA microarray for expression profiling of muscle and adipose tissue

Cited by 40 publications

References 16 publications

Chronic exposure to anabolic steroids induces the muscle expression of oxytocin and a more than fiftyfold increase in circulating oxytocin in cattle

Chronic exposure to anabolic steroids induces the muscle expression of oxytocin and a more than fiftyfold increase in circulating oxytocin in cattle

Recent advances in cattle functional genomics and their application to beef quality

A gene coexpression network for bovine skeletal muscle inferred from microarray data

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