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      Maternal nutrient restriction in mid-to-late gestation influences fetal mRNA expression in muscle tissues in beef cattle

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          Abstract

          Background

          Manipulating maternal nutrition during specific periods of gestation can result in re-programming of fetal and post-natal development. In this experiment we investigated how a feed restriction of 85% compared with 140% of total metabolizable energy requirements, fed to cows during mid-to-late gestation, influences phenotypic development of fetuses and mRNA expression of growth (Insulin-Like Growth Factor family and Insulin Receptor ( INSR)), myogenic (Myogenic Differentiation 1 ( MYOD1), Myogenin ( MYOG), Myocyte Enhancer Factor 2A ( MEF2A), Serum Response Factor ( SRF)) and adipogenic (Peroxisome Proliferator Activated Receptor Gamma ( PPARG)) genes in fetal longissimus dorsi (LD) and semitendinosus (ST) muscle. DNA methylation of imprinted genes, Insulin Like Growth Factor 2 ( IGF2) and Insulin Like Growth Factor 2 Receptor ( IGF2R), and micro RNA (miRNA) expression, were also examined as potential consequences of poor maternal nutrition, but also potential regulators of altered gene expression patterns.

          Results

          While the nutrient restriction impacted dam body weight, no differences were observed in phenotypic fetal measurements (weight, crown-rump length, or thorax circumference). Interestingly, LD and ST muscles responded differently to the differential pre-natal nutrient levels. While LD muscle of restricted fetal calves had greater mRNA abundances for Insulin Like Growth Factor 1 and its receptor ( IGF1 and IGF1R), IGF2R, INSR, MYOD1, MYOG, and PPARG, no significant differences were observed for gene expression in ST muscle. Similarly, feed restriction had a greater impact on the methylation level of IGF2 Differentially Methylated Region 2 (DMR2) in LD muscle as compared to ST muscle between treatment groups. A negative correlation existed between IGF2 mRNA expression and IGF2 DMR2 methylation level in both LD and ST muscles. Differential expression of miRNAs 1 and 133a were also detected in LD muscle.

          Conclusions

          Our data suggests that a nutrient restriction of 85% as compared to 140% of total metabolizable energy requirements during the 2nd half of gestation can alter the expression of growth, myogenic and adipogenic genes in fetal muscle without apparent differences in fetal phenotype. It also appears that the impact of feed restriction varies between muscles suggesting a priority for nutrient partitioning depending on muscle function and/or fiber composition. Differences in the methylation level in IGF2, a well-known imprinted gene, as well as differences in miRNA expression, may be functional mechanisms that precede the differences in gene expression observed, and could lead to trans-generational epigenetic programming.

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          Most cited references33

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          MicroRNA control of muscle development and disease.

          Cardiac and skeletal muscle development are controlled by evolutionarily conserved networks of transcription factors that coordinate the expression of genes involved in muscle growth, morphogenesis, differentiation, and contractility. In addition to regulating the expression of protein-coding genes, recent studies have revealed that myogenic transcription factors control the expression of a collection of microRNAs, which act through multiple mechanisms to modulate muscle development and function. In some cases, microRNAs fine-tune the expression of target mRNAs, whereas in other cases they function as 'on-off' switches. MicroRNA control of gene expression appears to be especially important during cardiovascular and skeletal muscle diseases, in which microRNAs participate in stress-dependent remodeling of striated muscle tissues. We review findings that point to the importance of microRNA-mediated control of gene expression during muscle development and disease, and consider the potential of microRNAs as therapeutic targets.
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            Maternal nutrient restriction affects properties of skeletal muscle in offspring.

            Maternal nutrient restriction (NR) affects fetal development with long-term consequences on postnatal health of offspring, including predisposition to obesity and diabetes. Most studies have been conducted in fetuses in late gestation, and little information is available on the persistent impact of NR from early to mid-gestation on properties of offspring skeletal muscle, which was the aim of this study. Pregnant ewes were subjected to 50% NR from day 28-78 of gestation and allowed to deliver. The longissimus dorsi muscle was sampled from 8-month-old offspring. Maternal NR during early to mid-gestation decreased the number of myofibres in the offspring and increased the ratio of myosin IIb to other isoforms by 17.6 +/- 4.9% (P < 0.05) compared with offspring of ad libitum fed ewes. Activity of carnitine palmitoyltransferase-1, a key enzyme controlling fatty acid oxidation, was reduced by 24.7 +/- 4.5% (P < 0.05) in skeletal muscle of offspring of NR ewes and would contribute to increased fat accumulation observed in offspring of NR ewes. Intramuscular triglyceride content (IMTG) was increased in skeletal muscle of NR lambs, a finding which may be linked to predisposition to diabetes in offspring of NR mothers, since enhanced IMTG predisposes to insulin resistance in skeletal muscle. Proteomic analysis by two-dimensional gel electrophoresis demonstrated downregulation of several catabolic enzymes in 8-month-old offspring of NR ewes. These data demonstrate that the early to mid-gestation period is important for skeletal muscle development. Impaired muscle development during this stage of gestation affects the number and composition of fibres in offspring which may lead to long-term physiological consequences, including predisposition to obesity and diabetes.
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              Estimating transcription factor bindability on DNA.

              Precise analysis of the genetic network, gene function and transcription regulation requires accurate prediction of transcription factor (TF) bindability on DNA. For calculating the matching score between an input sequence and a set of known TF binding sites, we use positional weight matrices (PWMs) and Bucher's calculating method (Bucher, J. Mol. Biol., 212, 563-578, 1990). Since estimating TF binding sites requires cut-off values, we propose a robust cut-off value determining algorithm. We generalize the concept of local overrepresentation with statistics, and propose a new algorithm for determining the cut-off value using the background rate estimated on non-promoters. The algorithm iteratively determines parameters separating instances into phenomena-dependent and phenomena-independent subsets. Our system includes the method of re-estimating cut-off values of TFs that mis-recognize other TF preferred regions. Our data source comprised 433 non-redundant vertebrate promoters including viral promoters, from Eukaryotic Promoter Database (EPD) R.50. The method is applied to 205 vertebrate TFs that have frequency matrices in TRANSFAC Ver.3. 4 and the cut-off values of all of them can be determined. The cut-off values and TF binding site predicting tool are available at http://www.hgc.ims.u-tokyo.ac. jp/service/tooldoc/TFBIND. We also provide the cut-off value estimating programs.
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                Author and article information

                Contributors
                fparadis@ualberta.ca
                kwood@uoguelph.ca
                kendall.swanson@ndsu.edu
                smiller@angus.org
                bmcbride@uoguelph.ca
                1-780-248-1700 , cfitzsim@ualberta.ca
                Journal
                BMC Genomics
                BMC Genomics
                BMC Genomics
                BioMed Central (London )
                1471-2164
                18 August 2017
                18 August 2017
                2017
                : 18
                : 632
                Affiliations
                [1 ]GRID grid.17089.37, Department of Agriculture, Food, and Nutritional Science, , University of Alberta, ; 4-10 Agriculture-Forestry Centre, Edmonton, AB T6G 2P5 Canada
                [2 ]ISNI 0000 0004 1936 8198, GRID grid.34429.38, Department of Animal Biosciences, , University of Guelph, ; Guelph, ON N1G 2W1 Canada
                [3 ]ISNI 0000 0001 2293 4611, GRID grid.261055.5, Department of Animal Science, , North Dakota State University, ; Fargo, ND 58102 USA
                [4 ]Angus Genetic Inc., St. Joseph, MO 64506 USA
                [5 ]Agriculture and Agri-Food Canada, Edmonton, AB T6G 2C8 Canada
                Author information
                http://orcid.org/0000-0001-5506-4309
                Article
                4051
                10.1186/s12864-017-4051-5
                5562975
                28821223
                7cbafeb6-f9b0-47c6-af58-39da3aeecf5b
                © The Author(s). 2017

                Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License ( http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver ( http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

                History
                : 29 August 2016
                : 10 August 2017
                Funding
                Funded by: FundRef http://dx.doi.org/10.13039/501100005019, Beef Cattle Research Council;
                Award ID: FDE.07.09
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/501100000094, Ontario Ministry of Agriculture, Food and Rural Affairs;
                Funded by: Beef Farmers of Ontario
                Categories
                Research Article
                Custom metadata
                © The Author(s) 2017

                Genetics
                beef cattle,fetal programming,nutrient restriction,liver,muscle,igf2,methylation,microrna
                Genetics
                beef cattle, fetal programming, nutrient restriction, liver, muscle, igf2, methylation, microrna

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