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The aim of this review is to explain fundamentals of DNA microarray technique and indicate possibilities of its use in veterinary sciences. DNA microarray technology is a powerful tool for functional and structural genomics. It allows the analysis of an entire genome expression (transcriptomic profile) on one glass or plastic slide in a short period of time. It gives the opportunity to establish genes expression patterns characteristic for different physiological and pathological conditions and allows its use as a diagnostic tool. The use of expression microarrays gives the possibility to examine the influence of new treatment strategies in particular diseases and enables the assessment of advantages and disadvantages of this type of therapy. It also allows finding new targets (key proteins, enzymes) for newly developed drugs and makes possible the adaptation of a drug therapy to individual patients. By using DNA microarray technique it is possible to make a new hypothesis and to validate current ones. In this review the origin of the DNA microarray technique, its molecular basics, different kinds of microarray slides and analysis platform as well as the methodology of labeling and hybridization were described. This review may be very useful for people who are planning to use or are have already begun using DNA microarray technique.
The aim of the present study was to define the effect of TGF-β1 on C2C12 myoblasts myogenesis. TGF-β1 together with its receptor is a negative auto-paracrine regulator of myogenesis, which influences the proliferation, differentiation, and functions of muscle cells. TGF-β1 exerts highly significant inhibitory effect on differentiation of C2C12 mouse myoblasts manifested by the impairment of cell fusion and very low expression of myosin heavy chain. The study of differentiating C2C12 mouse myoblasts treated with TGF-β1 revealed 502 genes (436 down-regulated and 66 up-regulated) with statistically different expression. TGF-β1-regulated genes were identified to be involved in 29 biological processes, 29 molecular functions groups and 59 pathways. The strongest inhibiting effect of TGF-β1 was observed in the cadherin and Wnt pathways. The key-genes that could play the role of TGF-β1 targets during myoblasts differentiation was identified such as: Max, Creb1, Ccna2, Bax, MdfI, Tef, Tubg1, Cxcl5, Rho, Calca and Lgals4.
Postnatal growth and regeneration capacity of skeletal muscles is dependent mainly on adult muscle stem cells called satellite cells. Satellite cells are quiescent mononucleated cells that are normally located outside the sarcolemma within the basal lamina of the muscle fiber. Their activation, which results from injury, is manifested by mobilization, proliferation, differentiation and, ultimately, fusion into new muscle fibers. The satellite cell pool is responsible for the remarkable regenerative capacity of skeletal muscles. Moreover, these cells are capable of self-renewal and can give rise to myogenic progeny.
MicroRNAs (miRNAs) are small non-coding interfering RNA molecules capable of post-transcriptionally regulating gene expression through sequence-specific base pairing to messenger ribonucleic acid (mRNA). In recent years, hundreds of miRNAs have been identified in humans, various animals and plants. The action of miRNAs has been examined in several biological processes, including tissue morphogenesis, development, cell proliferation and differentiation, apoptosis, immunity, metabolism, and major signaling pathways. Changes in miRNA expression have also been analyzed in the context of various pathological conditions, including different kinds of inflammation, cancer, cardiovascular diseases, etc. Thanks to these investigations, several miRNAs have been identified as potential sensitive diagnostic markers that may be important in monitoring physiological and pathological processes. In human medicine, microarray and real-time PCR-based diagnostic test panels with selected disease-specific miRNAs are increasingly used to predict disease occurrence or progression. In animals, they are mainly used to diagnose canine mammary cancers and infectious diseases, as well as to monitor reproduction. Until now, only few miRNAs of domestic animals have been studied in detail. Moreover, the silencing of selected miRNAs, successfully used in human medicine in diseases related to miRNA over-expression, is also emerging as a promising tool for veterinary medicine and animal breeding. This review presents recent progress in miRNA biology in various domestic animals and shows the current state of knowledge concerning miRNAs and their potential role as a diagnostic factor in veterinary sciences.
The process of skeletal muscle development is regulated by many biologically active factors, which are responsible for stimulating the proliferation and differentiation of muscle cells. Biologically active factors function in paracrine, autocrine and endocrine manner to control myogenesis. The main regulators include hormones, growth and differentiation factors, as well as cytokines. The process of skeletal muscle regeneration associated with the activation of satellite cells for their proliferation and differentiation requires the involvement of many growth factors secreted by the surrounding tissue, including inflammatory cells, blood vessels and damaged muscle fiber, as well as extracellular matrix. A number of trophic factors regulating the activity of satellite cells during muscle regeneration have been identified, e.g. fibroblast growth factors, transforming growth factors-β, insulin-like growth factors, hepatocyte growth factor, tumor necrosis factor-α, interleukin-6. These factors are responsible for maintaining a balance between the processes of proliferation and differentiation of satellite cells in order to restore the proper architecture and functioning of muscle tissue.
GDF8 (myostatin) is a unique cytokine strongly affecting the skeletal muscle phenotype in human and animals. The aim of the present study was to elucidate the molecular mechanism of myostatin influence on the differentiation of mouse C2C12 myoblasts, using the global-transcriptome analysis with the DNA microarray technique. Treatment with exogenous GDF8 strongly affected the growth and development of C2C12 mouse myoblasts. This was manifested by the inhibition of proliferation and differentiation as well as the impairment of cell fusion. DNA microarray analysis revealed 778 genes regulated by GDF8 in differentiating myoblasts (436 down-regulated and 235 up-regulated). Ontological analysis revealed their involvement in 17 types of biological processes, 10 types of molecular functions and 68 different signalling pathways. The effect of GDF8 was mainly mediated by the disruption of the cell cycle, calcium and insulin signalling pathways and expression of cytoskeletal and muscle specific proteins. The identified key-genes that could play a role as GDF8 targets in differentiating myoblasts are: Mef2, Hgf, Ilb1, Itgb1, Edn1, Ppargc1a.
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Age-dependent changes in bovine skeletal muscle transcriptomic profile

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The postnatal growth of muscle tissue occurs by hypertrophy comprising satellite cells proliferation, differentiation and protein turnover. The highest rate of skeletal muscle gains and protein synthesis in bulls occurs in the period between 180 and 360 days of postnatal life. However, genes which are responsible for quantitative and qualitative changes in skeletal muscle during this period are not identified up to date. The aim of our study was to compare the changes in transcriptomic profile of skeletal muscle (m. semitendinosus) in 12 Polish Black and White bulls between 6 and 12 month of life. For experimental purposes we used bovine cDNA microarray (the NBFGC EST collection) which contains 18,263 unique genes, derived from many different tissue types and various physiologically important states within these tissues. Our results revealed 53 genes which expression changed in the same manner depending on age of all examined pairs of animals. Thirty two of these genes showed at least 2-fold difference in expression between two analyzed age points. Age-dependent up-regulation was the most pronounced in the case of following genes: similar to MAD2L1 binding protein, similar to thymocyte potein thy28 isoform 1, similar to type I inositol-1,4,5-triphosphate 5-phosphatase, similar to nucleoside diphosphate kinase 6, proline rich 14, similar to transcription factor E2-alpha and phospholipase C gamma 1. The highest age-dependent decrease of the transcript was observed in the case of: similar to ubiquitin carboxy-terminal hydrolase L1, similar to latent TGF-beta binding protein 3 precursor, phospho-mannomutase 2, CD74 antigen, simlar to BCL6 co-represor-like 1, plateled/endothelial cell adhesion molecule (PECAM1), necdin, zygin, tight junction protein 3, ankyrin and apolipoprotein-L3. Although the role of the most of above genes and interactions between products of their expression is not clear at the moment, the significance of their response between 6 and 12 month of age may indicate their involvement in growth, development and metabolic changes in bovine skeletal muscle during the first year of postnatal life.
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Recent studies have shown that naturally occurring substances found in the food of the daily human diet are important for preventing chronic non-communicable diseases. One of them is beta-glucan, which is a natural polysaccharide, occurring in plant cell walls, mainly oats, barley and wheat. It is also present in baker’s yeast cells, fungal cell walls, and some microorganisms. Beta-glucan belongs to one of the dietary fiber fractions, which are attributed a number of beneficial health properties, including the prevention and treatment of certain digestive diseases and supporting the immune system. This compound has biological activity that depends on the size, molecular weight, conformation, frequency of bonds, solubility and changes in structure. Beta-glucan reduces cholesterol and glucose concentrations in the blood, which reduces the risk of cardiovascular disease and diabetes. In addition to its effects on lipid levels and glucose metabolism, beta-glucan also exhibits antioxidant properties by scavenging reactive oxygen species, thereby reducing the risk of diseases, including atherosclerosis, cardiovascular diseases, neurodegenerative diseases, diabetes, and cancer. Immunostimulatory and antitumor effects have also been reported. The immunostimulatory activity of beta-glucan occurs as a result of its attachment to specific receptors present on the immune cell surface. Beta-glucan belongs to the group of prebiotics which stimulate the growth and activity of the desired natural intestinal microbiota, while inhibiting the growth of pathogens. It plays an important role in the proper functioning of the gastrointestinal tract and preventing inflammation as well as colon cancer. Such a number of health benefits resulting from the properties of beta-glucan may play a key role in improving health and preventing chronic non-communicable diseases, such as diabetes, hypercholesterolemia, obesity, cardiovascular diseases, and cancer.
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Transcriptomic index of skeletal muscle of beef breeds bulls

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In the present study cDNA microarray (18263 probes) were used for analysis of bovine skeletal muscle (m.semitendinosus) transcriptome in 12-month-old bulls of four cattle breeds: Holstein-Friesian (HF), Limousine (LIM), Hereford (HER) and Polish Red (PR), aiming to identify the genes, which expression is common for beef breed bulls. The number of transcripts significantly different from HF bulls muscle amounted to 393, 462 and 638 for LIM, HER and PR, respectively. As a result of this study the transcriptomic index was proposed, being the set of 48 genes expressed similarly in beef breed bulls in comparison to HF bulls. Classification of genes according to molecular function of their protein products has shown the highest number of genes encoding proteins involved in nucleic acid binding (10), regulatory proteins (6), kinases (4) and signaling molecules (3). Classification according to biological processes revealed the highest number of genes involved in protein metabolism i modification (14), signal transduction (5), cell cycle (4), intracellular protein traffic (4), nucleoside, nucleotide and nucleic acid metabolism (4), apoptosis (3), cell structure and motility (3), and cellular transport (3). Since the role of the most genes included to the transcriptomic index has not been described yet in bovine skeletal muscle, obtained results may be very useful in revealing new candidate genes to search a new criteria of animal selection in beef production.
Myostatin (GDF-8) is a key protein responsible for skeletal muscle growth and development so mutations in the mstn gene can have major economic and breeding consequences. The aim of the present study was to investigate polymorphism in the 5’flanking region of the mstn gene and its possible influence on the myostatin level in skeletal muscles of Polish Black-and-White bulls. The relation between expression of myostatin and another member of the TGF-β superfamily, TGF-β1, was also examined. We uncovered polymorphism in the 5’flanking region of the mstn gene: G/C substitution at position -7828 (relative to translation start codon ATG). The most frequent genotype was GC (43.6%), followed by genotypes CC (34.2%) and GG (22.2%). The concentration of the active form of myostatin (26 kDa) in M. semitendinosus of homozygotes (CC) was the lowest, whereas the expression of this cytokine in heterozygotes was the highest. The changes in mstn expression did not, however, influence average carcass traits (weight of valuable cuts and weight of lean in valuable cuts). The pattern of differences in the TGF-β1 concentration corresponded to that observed for myostatin.
Myostatin (GDF-8) is a key protein responsible for skeletal muscle growth and development, thus mutations in the mstn gene can have major economic and breeding consequences. The aim of the present study was to investigate myostatin gene expression and transcriptional profile in skeletal muscle of Holstein-Friesian (Black-and-White) bulls carrying a polymorphism in the 5 '-flanking region of the mstn gene (G/C transversion at position -7828). Real-time qRT-PCR and cDNA microarray revealed significantly lower mstn expression in muscle of bulls with the CC genotype, as compared to GG and GC genotypes. The direct comparison of skeletal muscle transcriptional profiles between the CC genotype and GG and GC genotypes resulted in identification of genes, of which at least some can be putative targets for myostatin. Using cDNA microarray, we identified 43 common genes (including mstn) with significantly different expression in skeletal muscle of bulls with the CC genotype, as compared to GG and GC genotypes, 15 of which were upregulated and 28 were downregulated in the CC genotype. Classification of molecular function of differentially expressed genes revealed the highest number of genes involved in the expression of cytoskeleton proteins (9), extracellular matrix proteins (4), nucleic acid-binding proteins (4), calcium-binding proteins (4), and transcription factors (4). The biological functions of the largest number of genes involved: protein metabolism and modification (10), signal transduction (10), cell structure (8), and developmental processes (8). The main identified signaling pathways were: Wnt (4), chemokines and cytokines (4), integrin (4), nicotine receptor for acetylocholinę (3), TGF-beta (2), and cytoskeleton regulation by Rho GTPase (2). We identified previously unrecognized putatively myostatin-dependent genes, encoding transcription factors (EGR1, Nf1b, ILF1), components of the proteasomal complex (PSMB7, PSMD13) and proteins with some other molecular function in skeletal muscle (ITGB1BP3, Pla2glb, ISYNA 1, TNFAIP6, MSTI, TNNT1, CALB3, CACYBP, and CTNNA1).
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