Analysis of structure and gene expression of bovine CCDC3 gene indicates a function in fat metabolism

Eberlein, Annett; Kalbe, Claudia; Goldammer, Tom; Brunner, Ronald M.; Kühn, Christa; Weikard, Rosemarie

doi:10.1016/j.cbpb.2010.01.013

Cited by 10 publications

(19 citation statements)

References 19 publications

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“…The biological functions of ccdc89 and abi3 bp are unclear, but Eberlein et al . () reported that ccdc3 may be involved in the metabolism of fat deposition in cattle. Hodgkinson et al .…”

Section: Discussionmentioning

confidence: 99%

Genetic basis for variation in salinity tolerance between stickleback ecotypes

et al. 2016

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Adaptation to different salinities can drive and maintain divergence between populations of aquatic organisms. Anadromous and stream ecotypes of threespine stickleback (Gasterosteus aculeatus) are an excellent model to explore the genetic mechanisms underlying osmoregulation divergence. Using a parapatric pair of anadromous and stream stickleback ecotypes, we employed an integrated genomic approach to identify candidate genes important for adaptation to different salinity environments. Quantitative trait loci (QTL) mapping of plasma sodium concentrations under a seawater challenge experiment identified a significant QTL on chromosome 16. To identify candidate genes within this QTL, we first conducted RNA-seq and microarray analysis on gill tissue to find ecotypic differences in gene expression that were associated with plasma Na levels. This resulted in the identification of ten candidate genes. Quantitative PCR analysis on gill tissue of additional Japanese stickleback populations revealed that the majority of the candidate genes showed parallel divergence in expression levels. Second, we conducted whole-genome sequencing and found five genes that are predicted to have functionally important amino acid substitutions. Finally, we conducted genome scan analysis and found that eight of these candidate genes were located in genomic islands of high differentiation, suggesting that they may be under divergent selection. The candidate genes included those involved in ATP synthesis and hormonal signalling, whose expression or amino acid changes may underlie the variation in salinity tolerance. Further functional molecular analysis of these genes will reveal the causative genetic and genomic changes underlying divergent adaptation.

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“…The biological functions of ccdc89 and abi3 bp are unclear, but Eberlein et al . () reported that ccdc3 may be involved in the metabolism of fat deposition in cattle. Hodgkinson et al .…”

Section: Discussionmentioning

confidence: 99%

Genetic basis for variation in salinity tolerance between stickleback ecotypes

et al. 2016

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“…The expression of many genes or their products in muscle has been reported to be positively correlated with IMF% or marbling in cattle: ADIPOQ, SCD, and THRSP (Wang et al, 2009b), G6PD and leptin (LEP; Graugnard et al, 2009), FABP4 (Lee et al, 2008;Pickworth et al, 2011), ADAM metallopeptidase with thrombospondin type 1 motif, 4 (ADAMTS4), and transforming growth factor, β 1 (TGFB1; Lee et al, 2010), coiled-coil domain containing 3 (CCDC3; Eberlein et al, 2010), IL-1 receptor-associated kinase 1 (IRAK1; Eberlein et al, 2011), CEBPA and PPARG (Kim et al, 2011;, delta-like 1 homolog (DLK1; Pickworth et al, 2011), runt-related transcription factor 1; translocated to 1 (cyclin D-related; RUNX1T1; Lim et al, 2011), GPAM, ACACA, FASN, LPL, CD36 molecule (thrombospondin receptor), solute carrier family 27 (fatty acid transporter) member 1 [SLC27A1, also known as (aka) FATP1], 1-acylglycerol-3-phosphate O-acyltransferase 1 (lysophosphatidic acid acyltransferase, α; AGPAT1), diacylglycerol O-acyltransferase 1 (DGAT1), and DGAT2 (Jeong et al, 2012). An additional set of genes has been shown to be negatively correlated with IMF% or marbling, including titin (TTN), nebulin (NEB; Lee et al, 2008), calcium/calmodulin-dependent protein kinase II α (CAMK2A; Lee et al, 2008;Lim et al, 2011), retinoid X receptor α (RXRA; Lim et al, 2011), heat shock 27 kDa protein 1 (HSPB1), TNF receptor superfamily member 6 (FAS), angiotensinogen [serpin peptidase inhibitor clade A member 8 (AGT); Kim et al, 2011], patatin-like phospholipase domain containing 2 (PNPLA2, aka ATGL), monoglyceride lipase (MGLL, aka MGL), acyl-CoA dehydrogenase very long chain (ACADVL, aka VLCAD), and acyl-CoA dehydrogenase C-4 to C-12 straight chain (ACADM, aka MCAD; Jeong et al, 2012).…”

Section: Evaluating Published Correlations Of Gene Expression With Immentioning

confidence: 99%

Gene expression phenotypes for lipid metabolism and intramuscular fat in skeletal muscle of cattle1

Jager

Hudson

Reverter

et al. 2013

Journal of Animal Science

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Gene expression phenotypes were evaluated for intramuscular fat (IMF) in bovine skeletal muscle as an alternative to traditional estimates of IMF%. Gene expression data from a time course of LM development in high- and low-marbling Bos taurus cattle crosses were compared to identify genes involved in intramuscular adipocyte lipid metabolism with developmentally similar gene expression profiles. Three sets of genes were identified: triacylglyceride (TAG) synthesis and storage, fatty acid (FA) synthesis, and PPARγ-related genes. In an independent analysis in the LM of 48 Bos indicus cattle, TAG and FA gene sets were enriched in the top 100 genes of which expression was most correlated with IMF% (P = 1.2 × 10(-24) and 3.5 × 10(-9), respectively). In general, genes encoding enzymes involved in the synthesis of FA and TAG in the intramuscular adipocytes were present in the top 100 genes. In B. indicus, effects of a steroid hormone growth promotant (HGP), 2 experimental sites [New South Wales (NSW) and Western Australia (WA)], and 3 tenderness genotypes on the expression levels of genes in the TAG gene set and the correlation of gene expression with IMF% were investigated. Although correlation between expression of 12 individual TAG genes and IMF% was observed in HGP-treated animals in both experimental sites (mean r = 0.43), correlation was not observed for untreated animals at the NSW site (mean r = -0.07, P < 3 × 10(-6)). However, TAG genes showed an average 1.6-fold (P < 0.0004) reduction in expression in the LM of HGP-treated cattle relative to untreated cattle, an effect consistent across both experimental sites. Cattle possessing the favored tenderness calpain 1 and 3 and calpastatin alleles exhibited a greater (P = 0.008) reduction in expression in NSW (1.8-fold reduction, P = 0.0002) compared with WA (1.2-fold reduction, P = 0.03). Tenderness genotype had no impact (P > 0.05) on the correlation of TAG genes with IMF%. In general, the interactions among genotype, treatment and location, and TAG gene set gene expression were consistent with the interactions among the same factors and IMF% detected using 255 animals, of which the 48 in this study were a subset. Thus, the TAG gene set constitutes a gene expression phenotype able to predict effects of different genotypes and treatments on IMF% using much smaller groups than current approaches, even in animals with very low IMF%.

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“…Eberlein et al reported a significant correlation between intramuscular fat content and Ccdc3 mRNA expression in bovine skeletal muscle, suggesting that bovine Ccdc3 protein may be involved in the metabolism of fat deposition. In this study, we also demonstrated that CCDC3 proteins were secreted from cells overexpressing CCDC3 , and that Ccdc3 expression increased during differentiation of murine 3T3‐L1 cells into mature adipocytes.…”

Section: Discussionmentioning

confidence: 99%

CCDC3 is specifically upregulated in omental adipose tissue in subjects with abdominal obesity

Ugi

Maeda

Kawamura

et al. 2013

Obesity

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Objective: The aim of this study was to search for novel markers of visceral adiposity. Methods: Visceral (omental) and subcutaneous adipose tissues were obtained from 43 Japanese men. Microarray analysis using total RNA from visceral and subcutaneous adipose tissues obtained from five men with abdominal obesity and five nonobese men was first conducted. Then the expression pattern of candidate genes identified in the human study in mouse models of adiposity was examined. Results: Among 30,500 genes evaluated, the mRNA expression of CCDC3 (encoding coiled-coil domaincontaining protein 3) was upregulated in omental adipose tissues from abdominally obese subjects (3.07-fold) but not in subcutaneous adipose tissues (0.89-fold). Similar expression patterns were found in two distinct mouse models of obesity. In the analysis of all 43 men, CCDC3 mRNA levels in omental, but not in subcutaneous adipose tissue, were positively correlated with waist circumference and body mass index. CCDC3 was predicted to be a secretory protein, which was confirmed by western blotting, as overexpressed CCDC3 was secreted into the culture media. Conclusions: The expression of CCDC3 is specifically increased in visceral adipose tissues in abdominally obese subjects. These results suggest that CCDC3 is a potential biomarker for estimating visceral adiposity.

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Analysis of structure and gene expression of bovine CCDC3 gene indicates a function in fat metabolism

Cited by 10 publications

References 19 publications

Genetic basis for variation in salinity tolerance between stickleback ecotypes

Genetic basis for variation in salinity tolerance between stickleback ecotypes

Gene expression phenotypes for lipid metabolism and intramuscular fat in skeletal muscle of cattle1

CCDC3 is specifically upregulated in omental adipose tissue in subjects with abdominal obesity

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