Association of an ACSL1 gene variant with polyunsaturated fatty acids in bovine skeletal muscle
© Widmann et al; licensee BioMed Central Ltd. 2011
Received: 6 June 2011
Accepted: 11 November 2011
Published: 11 November 2011
The intramuscular fat deposition and the fatty acid profiles of beef affect meat quality. High proportions of unsaturated fatty acids are related to beef flavor and are beneficial for the nutritional value of meat. Moreover, a variety of clinical and epidemiologic studies showed that particularly long-chain omega-3 fatty acids from animal sources have a positive impact on human health and disease.
To screen for genetic factors affecting fatty acid profiles in beef, we initially performed a microsatellite-based genome scan in a F2 Charolais × German Holstein resource population and identified a quantitative trait locus (QTL) for fatty acid composition in a region on bovine chromosome 27 where previously QTL affecting marbling score had been detected in beef cattle populations. The long-chain acyl-CoA synthetase 1 (ACSL1) gene was identified as the most plausible functional and positional candidate gene in the QTL interval due to its direct impact on fatty acid metabolism and its position in the QTL interval. ACSL1 is necessary for synthesis of long-chain acyl-CoA esters, fatty acid degradation and phospholipid remodeling. We validated the genomic annotation of the bovine ACSL1 gene by in silico comparative sequence analysis and experimental verification. Re-sequencing of the complete coding, exon-flanking intronic sequences, 3' untranslated region (3'UTR) and partial promoter region of the ACSL1 gene revealed three synonymous mutations in exons 6, 7, and 20, six noncoding intronic gene variants, six polymorphisms in the promoter region, and four variants in the 3' UTR region. The association analysis identified the gene variant in intron 5 of the ACSL1 gene (c.481-233A>G) to be significantly associated with the relative content of distinct fractions and ratios of fatty acids (e.g., n-3 fatty acids, polyunsaturated, n-3 long-chain polyunsaturated fatty acids, trans vaccenic acid) in skeletal muscle. A tentative association of the ACSL1 gene variant with intramuscular fat content indicated that an indirect effect on fatty acid composition via modulation of total fat content of skeletal muscle cannot be excluded.
The initial QTL analysis suggested the ACSL1 gene as a positional and functional candidate gene for fatty acid composition in bovine skeletal muscle. The findings of subsequent association analyses indicate that ACSL1 or a separate gene in close proximity might play a functional role in mediating the lipid composition of beef.
In recent decades, the continuing accumulation of knowledge and the increasing number of reports providing evidence regarding the beneficial health effects of polyunsaturated fatty acids (PUFA) have attracted the attention of the medical and public community. Consumers are becoming increasingly aware of the relationships between diet and health and also of the importance of the diet for general physical and mental wellbeing [1, 2]. Many clinical and epidemiologic studies have indicated a positive impact of long-chain omega-3 fatty acids (n-3 long-chain polyunsaturated fatty acids, n-3 LC-PUFA) on human health and disease. Beneficial effects of n-3 LC-PUFA are described in infant development, cancer, and cardiovascular diseases (e.g., [3–6]), lipid and glucose metabolism (e.g., [7–10]), inflammation (e.g., [11, 12]), and more recently, in various mental illnesses including depression, attention-deficit hyperactivity disorder, and dementia (e.g.,). It has been demonstrated that diets containing higher levels of n-3 LC-PUFA [namely DHA (docosahexaenoic acid; C22:6n-3) and EPA (eicosapentaenoic acid; C20:5n-3)], may reduce cardiovascular risk in diabetes by inhibiting platelet aggregation, improving lipid profiles, and reducing cardiovascular mortality. Thus, n-3 LC-PUFA were particularly recommended to people with diabetes and metabolic disorders associated to obesity [5, 14]. Their beneficial health effects may be mediated through multiple distinct mechanisms, including alterations in cell membrane composition and function, gene expression, or eicosanoid biosynthesis [15, 16]. It is known that n-3 LC-PUFA can exert important metabolic effects due to their ability to modulate the transcription of regulatory genes with function in lipid metabolism [17–21].
The n-3 LC-PUFA, like DHA and EPA, are particularly abundant in oily cold-water fish and seafood, however, they are also present in other animal products (e.g., ruminant meat and milk) but in lower concentrations. Increases of n-3 LC-PUFA content in the human diet can be achieved by dietary supplementation, but there is also a potential to alter the natural fatty acid (FA) profile in food from animals. FA composition of meat and milk reflects both, FA biosynthesis in the respective animal tissue and FA composition of ingested nutrients. A recent study showed that cattle and lambs fed grass-diet in the period before slaughter had an increased content of beneficial FAs in meat, and that subsequent moderate consumption of the respective meat had resulted in increased plasma and platelet n-3 LC-PUFA concentrations in healthy human individuals . A ruminant diet on grass, which is rich in α-linolenic acid (C18:3n-3, ALA) compared to cereal-based concentrate diet can influence the FA profile of meat in the desired direction and improve its nutritional value [23–25]. However, the link between nutritional intake of FAs and its subsequent concentration in skeletal muscle is stronger in monogastric animals (pigs, poultry) than in ruminants due to hydrogenation of dietary FAs in the rumen (e.g., ).
In addition to the environmental conditions, genetic factors may also have a substantial effect on the variability of FA composition in animal products, especially for ruminants . Consequently, genetic selection and breeding of animals with favorably enriched n-3 LC-PUFA content in skeletal muscle can provide a rich source of the desired beneficial FAs for the human diet. Therefore, it is necessary to elucidate the molecular-genetic background of fatty acid composition in bovine skeletal muscle for identifying the genes or gene variants favorable for human nutrition.
Numerous quantitative trait loci (QTL) affecting meat quality traits in cattle like marbling and FA composition have been identified on a variety of bovine chromosomes (http://www.animalgenome.org/cgi-bin/gbrowse/bovine/), which enabled subsequent identification of positional candidate genes, which are located in the vicinity of identified QTL and have putative physiological functions regarding FA synthesis in skeletal muscle. These candidate genes for lipid-associated traits have been studied for their possible role regarding phenotypic variation observed between and within breeds. DNA variants in a variety of genes involved in lipid synthesis and FA metabolism have been found to influence FA composition in bovine muscle tissue and carcass (SCD1, [28–34], SREBP-1, FASN[29, 34–37], FABP4 and LXRα, GH, ACACA, myostatin [40, 41], leptin ).
However, the biochemical processes and the molecular background affecting the genetic variability of the complex polygenic trait of FA composition are not yet completely understood, particularly with regard to European cattle breeds, because the majority of recent studies have been performed on the very specific genetic background of Japanese Black cattle.
Therefore, the aim of this study was to identify genetic factors affecting the variation of FA composition in bovine skeletal muscle. For our study, we took advantage of a unique F2 resource population generated from the major European cattle breeds Charolais and German Holstein by means of embryo transfer and foster mothers . In previous studies, this population had been shown to segregate for two major loci (NCAPG and MSTN) associated with prenatal and pubertal growth, postnatal body composition and general lipid deposition [43, 44].
Results and discussion
The animals from our resource cross population were kept and fed at standardized uniform conditions and slaughtered at the same age. Therefore, we can exclude exogenous factors due to differences in herd, age, feeding and gender. Consequently, differences in skeletal muscle fatness or FA composition should be due to differences in endogenous factors of the animals like the genetic background. The primary focus of our study was to discover phenotypic differences of FA composition in skeletal muscle between the individual animals of the resource population due to genetic variation.
QTL analysis and identification of ACSL1 as a positional and functional candidate gene
Furthermore, QTL for FA composition, myristic acid, (C14:0) and oleic acid (C18:1) content, have been reported in this chromosomal region in a Jersey × Limousin back-cross cattle population . In our study, the QTL interval affecting FA composition in skeletal muscle displayed a peak between 15 and 16 cM on our genetic map of BTA27 corresponding to a genomic position at approximately 16 Mb on the current bovine genome assembly of the chromosome (NCBI mapviewer, build 5.2, http://www.ncbi.nlm.nih.gov/projects/mapview/map_search.cgi?taxid = 9913).
Based on its chromosomal position and integration in biochemical pathways of lipid metabolism, we identified the acyl-CoA synthetase long-chain family member 1 (ACSL1) gene as the most plausible positional and functional candidate gene underlying the QTL with effect on FA composition on BTA27. The ACSL1 gene is located exactly under the peak of the QTL interval. Its protein, the ACSL1 enzyme, is known to catalyze the first step of activation of long-chain (LC) FAs by converting them into LC acyl CoA thioesters for channeling towards chain elongation, triacylglyceride synthesis or FA oxidation . ACSL1 has a key function in both the synthesis of cellular lipids and FA degradation, and is also necessary for phospholipid remodeling . Due to its physiological biochemical function, it can be suggested that ACSL1 plays an important role in lipid metabolism, insulin resistance and obesity. Recently, a study in humans reported that a gene variant located in intron 1 of the ACSL1 gene can influence the metabolic syndrome risk (characterized by insulin resistance, dyslipidaemia, abdominal obesity and hypertension associated to type 2 diabetes), and that this ACSL1 genotype-dependent effect can be modulated by dietary PUFA intake suggesting a gene-nutrient interaction .
Structure analysis and screening for polymorphisms of the ACSL1 gene
Identified SNPs within the ACSL1 locus and positions on the bovine genome assemblies
relative to coding sequence*
Variation relative to reference sequence
Position on NW_001494406.2 (Btau4.2)
Position on NW_003104605.1 (UMD_3.1)
SNP accession number (dbSNP, NCBI ss#)
0.67 (G)/0.33 (A)
0.73 (A)/0.27 (G)
0.57 (C)/0.43 (G)
0.33 (C)/0.67 (G)
0.07 (G)/0.94 (A)
0.75 (T)/0.21 (G)5
0.24 (T)/0.76 (C)
0.75 (T)/0.25 (G)
0.24 (A)/0.76 (G)
Association of ACSL1 gene variants with PUFA profile in skeletal muscle
The association analysis included all exonic and intronic ACSL1 gene variants (except for the one in intron 16) and one SNP in the promoter region, which were identified by re-sequencing and validated by genotyping in the Charolais × German Holstein resource population. The nine SNPs analyzed in the Holstein × Charolais cross bred population showed a minor allele frequency ≥ 0.2 in the analyzed data set (Table 1). Intragenic linkage disequilibrium (LD) analysis revealed a strong LD between the SNPs in intron 20, exon 20, intron 13 and intron 9 (r2 >0.9), whereas there was only a moderate LD (0.5 < r2 <0.6) between these SNPs and the one in intron 5.
Association of the SNP in intron 5 of the ACSL1 gene (c.481-233A>G) with variation in intramuscular fatty acid composition and fat content
Model without IMF as covariate
Model with IMF as covariate
Effect allele A
Effect allele G
Effect allele A
Effect allele G
Total FA [mg]*&
n-3 FA [%]*#
n-3 LC PUFA [%]#
Although the c.481-233A allele tends to be associated with a slightly lower total IMF content, the relative content of the FA fractions, n-3 FA, PUFA, DPA, and n-3 LC-PUFA, known to exert health-beneficial effects in humans is highly increased indicating a higher nutritional value for beef originating from animals with the favorable ACSL1 allele.
The strongest allelic effect of the ACSL1 c.481-233A>G locus was observed for n-3 FA content. This trait also includes the polyunsaturated C18 fatty acids, α-linolenic acid (ALA, C18:3n-3) and stearidonic acid (C18:4n-3). The n-3-FA content is different to the trait n-3 LC-PUFA, which exclusively comprises n-3 FA with a chain length > C18. As an essential FA, ALA cannot be synthesized by mammalian species and must be obtained from the diet. The ALA concentration in skeletal muscle, therefore, could be linked to the dietary absorption. However, the standardized concentrate-based feeding regimen in our study provides uniform feeding conditions for the animals. ALA is the precursor for the n-3 FA pathway  by serving as parent FA for the synthesis of stearidonic acid and n-3 LC-PUFA (EPA, DPA, and DHA) via sequential steps of desaturation and/or chain-elongation. The association of ACSL1 c.481-233A>G with DPA and with n-3 LC-PUFA (containing n-3 FA exceeding a chain length of C18) could suggest that a substantial proportion of their precursor ALA might be activated and channeled to chain elongation processes.
The trait PUFA comprises both FA types, the n-6 and n-3 FA. The ACSL1 c.481-233A>G variant showed no significant impact on n-6 FA content and thus, its association with PUFA could be due to its effect on the trait's component n-3 FA.
Interestingly, the ACSL1 gene variant c.481-233A>G that affected FA profiles in bovine skeletal muscle had no significant influence on the ratio n-6/n-3 FA in this tissue. Considering the standardized uniform feeding regimen in our study, this result could support the findings from other studies, which indicate that the n-6/n-3 FA ratio may be affected more by feeding than by genetics [53, 54]. In contrast, we found the ACSL1 gene variant c.481-233A>G to be associated with the LA/ALA (C18:2 n-6/C18:3 n-3) ratio. Furthermore, we observed significant associations of this gene variant with the ratios PUFA/SFA and P/S in our study, both representing characteristics of meat quality and widely used to evaluate the nutritional value of meat fat content. Again, the c.481-233A allele revealed an increasing effect on these ratios compared to the c.481-233G allele.
In contrast to the increasing effect associated with the c.481-233A allele on the relative content of the FA fractions, n-3 FA, PUFA, DPA, and n-3 LC-PUFA, and the PUFA/SFA and P/S ratios, we observed a decreasing effect of this allele on the absolute content of the trans vaccenic acid C18:1trans- 11 in skeletal muscle in our study. This effect was in concert with the associated parallel decrease in total FA and MUFA content in the tissue. The effect on C18:1trans-11 is of particular interest, because trans vaccenic acid is a precursor of conjugated linoleic acid (CLAcis-9, trans-11) generation. CLAs are believed to have several important physiological functions, including anti-carcinogenic, anti-atherogenic, immunomodulating, growth and lean body mass promoting effects . Thus, targeted selection of cattle carrying the homozygous c.481-233A/c.481-233A genotype in the ACSL1 gene would possibly be accompanied by detrimental effects on the CLA profile in skeletal muscle.
There is the open question, whether the significant effects of the ACSL1 gene variant c.481-233A>G on FA composition were due to general fatness differences in skeletal muscle, which is supported by several QTL for marbling in the targeted chromosomal region, or whether the effects were associated with the ACSL1 gene variant c.481-233A>G. Alternatively, the effects of this gene variant might modulate the accumulation of specific FAs in skeletal muscle. To address this issue, we extended our association analysis and fitted IMF as a covariate in the model. When adjusting for IMF (Table 2), the association of the ACSL1 gene variant c.481-233A>G with absolute content of trans vaccenic acid in skeletal muscle remained significant, whereas the other associations dropped below a stringent threshold of statistical significance (Bonferroni q < 0.1) and were only tentatively significant (e.g., for relative content of n-3 FA and DPA). Thus, we cannot exclude that variants in the bovine ACSL1 gene may exert a substantial effect on total intramuscular fat content, which indirectly affects intramuscular composition of specific FA fractions. However, as the results for trans vaccenic acid demonstrate, it is suggested that there are also direct effects associated with the ACSL1 gene variant c.481-233A>G on intramuscular content of specific FAs.
Due to our observation that the c.481-233A>G SNP in intron 5 of the ACSL1 gene cannot fully explain the QTL variance (Figure 1), we conclude that this gene variant is presumably not causal, but in LD to another not yet detected polymorphism in its close vicinity affecting FA composition in bovine skeletal muscle. Presumably, these effects are not exclusively the consequence of variation in intramuscular fat content, but due to effects on specific FA. Prior to selective breeding of cattle carrying the desired genotype of the ACSL1 gene variant c.481-233A>G in order to produce meat with specific FA profiles, the association between c.481-233A>G and FA composition has to be confirmed in the particular target cattle population.
Nevertheless, our results indicate that the ACSL1 gene might play a functional role in mediating the FA composition in bovine skeletal muscle and provide a basis to further elucidate the function of the ACSL1 gene and its coordinated network with genes integrated in FA metabolism to dissect the molecular background of lipid composition of beef.
Animals and phenotypes
The generation of the Charolais × German Holstein resource cross population (SEGFAM), details regarding feeding and housing of the animals analyzed in our study, have been previously described [43, 44]. The animals were kept under standardized environmental and feeding conditions in barn facilities at the Leibniz Institute for Farm Animal Biology (FBN). After birth, the calves were fed a milk/replacer/hay/concentrate diet ad libitum until day 121. Thereafter, the animals received a feed ration of concentrates and chaffed hay with a hay to concentrate ratio of 1:3 and an energy content of 12.7 MJ ME/kg dry matter fed ad libitum until slaughter. The animals were kept in a tight stall barn with individual daily feed recording. At the age of 18 months (547 days of age), the male animals were slaughtered, and a detailed dissection of the carcass was performed. A wide range of phenotypic data related to beef production and beef quality including FA composition were recorded including FA composition of selected skeletal muscles.
Phenotypic traits characterizing fatty acid composition in skeletal muscle
Mean of absolute
content (mg/100 g)
Mean of relative
trans Vaccenic acid
Linoleic acid (LA)
Conjugated linoleic acid
α-Linolenic acid (ALA)
Stearidonic acid (SDA)
Eisosatrienoic acid (ETE)
Arachidonic acid (AA)
Timnodonic acid, EPA
Clupadonic acid, DPA
Cervonic acid, DHA
∑ Saturated fatty acids
∑ Unsaturated fatty acids
∑ Polyunsaturated fatty acids
∑ Monounsaturated fatty acids
∑ trans fatty acids
∑ n-3 fatty acids
∑ n-3 long-chain PUFA
∑ n-6 fatty acids
∑ n-6 long-chain PUFA
∑ Total fatty acids
Δ9-desaturase index MUFA
Δ9-desaturase index C14
Δ9-desaturase index C16
Δ9-desaturase index C18
Intramuscular fat content
An initial QTL scan comprising 244 microsatellite markers  for variation of FA composition in skeletal muscle had pinpointed a region on bovine chromosome 27 (BTA27) with effect on n-3 PUFA content in skeletal muscle. Five microsatellite markers located on BTA27 (BM3507, RM209, BMS689, BM1857, BM203) had been genotyped in all 733 P0, F1, and F2 individuals of the Charolais × German Holstein resource population.
where y is a vector of phenotypes, b is a vector of the fixed effects (slaughter year, NCAPG I442M genotype), u is the vector of individual infinitesimal polygenic effects, g is a vector of the additive QTL effects not fixed within founder breeds; F, Z and Q represent the incidence matrices for the fixed, polygenic and the QTL effect, respectively, and e is the vector of random residuals. An MCMC algorithm was used to calculate identity-by-descent probabilities as implemented in Qxpak. The NCAPG I442M mutation was included in the model, because previous analyses had shown a major effect of the mutation on carcass lipid deposition and growth in the resource population .
Statistical significance of the QTL analyses was tested by a likelihood-ratio test (LRT). Significance thresholds for the LRT were determined according to , considering one chromosome with a length of 0.6 M and an average marker density of 0.1 M. The significance thresholds for false positive results with α = 0.05 and α = 0.01 correspond to LRT values > 7.2 and LRT > 10.2, respectively.
Structural analysis of the ACSL1 gene
The coding sequence of the bovine ACSL1 gene is represented by the reference mRNA sequence NM_001076085.1, which spans 3690 bp and is located on BTA27.
At the beginning of our study, the previous bovine genome assembly Btau4.0 and the current reference assembly Btau4.2 available at NCBI (http://blast.ncbi.nlm.nih.gov/Blast.cgi?PAGE_TYPE=BlastSearch&PROG_DEF=blastn&BLAST_PROG_DEF=megaBlast&SHOW_DEFAULTS=on&BLAST_SPEC=OGP__9913__10708, ) annotated the bovine ACSL1 gene with a total of 19 protein-coding exons. In silico sequence analysis of the respective mRNA and protein sequences (NM_001076085.1 and NP_001069553) revealed that parts of the sequences could not be aligned to the bovine genome reference assembly Btau4.2. This indicated an incomplete annotation of the bovine ACSL1 gene. However, in the alternative bovine genome assembly Bos_taurus_UMD3.1 (ftp://ftp.cbcb.umd.edu/pub/data/assembly/Bos_taurus/Bos_taurus_UMD_3.1/, ) integrated into the recent bovine genome assembly, Build 5.2, at NCBI (http://www.ncbi.nlm.nih.gov/projects/mapview/map_search.cgi?taxid=9913), the bovine ACSL1 gene was annotated with a total of 21 protein-coding exons, which is also in agreement with the earlier bovine genome assembly, version Btau3.1. Comparative sequence analysis between gene and protein sequences of the bovine ACSL1 gene and those of the orthologous human counterparts (NM_001995.2 and NP_001986.2) and the current human genome assembly Hsa37.2 (http://blast.ncbi.nlm.nih.gov/Blast.cgi?PAGE_TYPE=BlastSearch&PROG_DEF=blastn&BLAST_PROG_DEF=megaBlast&SHOW_DEFAULTS=on&SHOW_DEFAULTS=on&BLAST_SPEC=OGP__9606__9558) showed that the mRNA and amino acid sequences of both species display a high similarity (88% and 91% identity, respectively), which supported the annotation of the current Bos_taurus_UMD3.1 and the earlier Btau3.1 assemblies.
Primer sequences for the bovine ACSL1 gene applied for annotation confirmation, screening for polymorphisms and genotyping
Sequence (5' → 3')
Position in reference sequence
AccNo. of reference sequence
intron 1 -promoter
1918181 - 1918198
1919003 - 1919024
intron 1 -promoter
1918178 - 1918196
1918674 - 1918653
1918612 - 1918633
1919003 - 1919024
1897290 - 1897310
1897770 - 1897790
1882758 - 1882777
1883120 - 1883141
1881998 - 1882018
1882320 - 1882342
1878288 - 1878309
1878724 - 1878744
1875840 - 1875860
1876392 - 1876413
1875542 - 1875561
1876122 - 1876141
1872567 - 1872588
1873294 - 1873316
1871656 - 1871678
1871923 - 1871942
1869171 - 1869190
1869466 - 1869484
1866801 - 1866821
1867153 - 1867171
1864669 - 1864690
1865164 - 1865184
1863888 - 1863907
1864384 - 1864403
1862774 - 1862795
1863278 - 1863297
1860135 - 1860155
1860361 - 1860381
1859039 - 1859056
1859445 - 1859465
1857386 - 1857406
1857877 - 1857897
139425 - 139443
139919 - 139941
138819 - 138836
139345 - 139366
138633 - 138653
139016 - 139036
137966 - 137988
138595 - 138615
137530 - 137552
138032 - 138056
1918178 - 1918196
1918379 - 1918397
1875542 - 1875561
1876122 - 1876141
1918052 - 1918070
1918485 - 1918502
1918328 - 1918348
1918348 - 1918368
38 - 58
521 - 543
519 - 541
1148 - 1168
1761 - 1781
1665 - 1686
2042 - 2064
2185 - 2205
2454 - 2476
Screening for polymorphisms in the ACSL1 gene
Screening for polymorphisms was carried out by re-sequencing and covered the complete coding sequence, exon-flanking intronic regions, the 5' and 3' UTRs and 724 bp of the promoter of the ACSL1 gene. DNA primer pairs for PCR amplification and sequencing were designed based on genomic contig sequences (NW_001494406.2 and NW_930554.1) and the mRNA sequence (NM_001076085.1), respectively (Table 4).
Four genomic DNA pools consisting of selected animals from the Charolais × Holstein resource population differing in their intramuscular fat content and index of delta 9-desaturase were established and subjected to screening for gene variants by comparative re-sequencing. The IMF pools contained DNA from sampling time- and pedigree-matched animals with high (n = 5, 4.93 ± 1.73%) and low (n = 7, 1.78 ± 0.21%) IMF. The Δ9 desaturase index pools consisted of DNA from sampling time- and pedigree-matched animals with a high (n = 7; 50.87 ± 0.89) or low (n = 6, 43.86 ± 0.95) Δ9 desaturase index. Furthermore, two genomic DNA samples from control individuals and two individual DNA samples originating from extreme animals displaying the lowest (1.63%) and highest (6.09%) IMF were included to validate the results received from the pools.
Genomic DNA was isolated from blood leucocytes using standard methods. PCR with exon-flanking primers (Table 4) was performed with a total of 60 ng genomic DNA as described above. The generated PCR products were purified using the peqGOLD Cycle-Pure Kit (PEQLAB) according to the manufacturer's instructions and sequenced. Sequencing was performed on a capillary sequencer (MEGABACE, GE Healthcare) with primers used for targeted PCR amplification. To identify variable DNA positions, the sequences were analyzed meticulously by visual inspection of the sequencing profiles from DNA-pools and individuals' DNA and by sequence alignment to the reference cDNA sequence (NM_001076085.1) as well as to the respective bovine genome sequences. All SNPs identified by sequencing of DNA pools were verified by single sample re-sequencing.
Out of the identified 19 ACSL1 SNPs (see Table 3, Figure 1), nine were genotyped in the Charolais × German Holstein resource population: Two exonic SNPs (c.516C>G, c.1938T>G) and five intronic SNPs (c.481-233A>G, c.580+114C>G, c.845-58T>G, c.1267-100C>T, c.1959+56G>A) were genotyped on an Illumina Beadstation  as part of a targeted 384 SNP GoldenGate assay. The SNP in exon 7 (c.584A>G) was analyzed using a PCR-RFLP assay with primers for amplification of the targeted region (Table 4) and the restriction enzyme SacI (Fermentas). The promoter SNP c.-122G>A was genotyped by a Tetra-ARMS PCR assay  and validated by direct sequencing. The respective primers are given in Table 4. The NCAPG I442M mutation was genotyped by PCR-RFLP .
Prior to association analysis, we tested whether the phenotypic data of the individual traits were normally distributed using the Shapiro Wilk test. For those data displaying distributions significantly different from normality (P < 0.01), we performed natural log (ln) transformation, and the log- transformed data were subjected to association analysis. The respective data are indicated in Tables 2 and 3.
The BTA27 marker haplotypes of the individuals of the resource population were estimated by a Markov chain Monte Carlo (MCMC) algorithm implemented in Qxpak . The corresponding haplotypes were submitted to pairwise LD analysis calculating r2 values using PowerMarker V3.25 .
where yi is the record of individual i, ap is the fixed effect of slaughter year p, λihk is an indicator variable for the NCAPG I442M locus, which is 1 when the allele at the hth haplotype (1 or 2) of the ith individual is 1 and otherwise 0, λimn is a respective indicator variable for the specific ACSL1 SNP, ui is the infinitesimal genetic effect of individual i, gk and gm are the respective allelic effects for NCAPG I442M and the ACSL1 SNP, and eihkmnp is the residual. Analogous to the QTL analyses, the NCAPG I442M mutation was included in the model, because previous analyses had shown a major effect of the mutation on carcass lipid deposition and growth in the resource population . A likelihood-ratio test (likelihood of model with both loci vs. likelihood of model with NCAPG I442M) was applied to test for statistical significance. In order to dissect whether the association of the respective ACSL1 variant with intramuscular FA composition is solely due to indirect effects on IMF or a consequence of direct effects on the specific FA accumulation, we extended the model and fitted IMF as an additional covariate. A Bonferroni correction was calculated (q-value) to account for testing several SNPs in order to avoid false positive associations. The q-values thresholds of 0.05 and 0.1, respectively, indicate an experiment-wise significant or suggestive association, respectively. Finally, an additive fixed effect of the SNP in intron 5 was added in the QTL model described above to test whether this SNP might explain the QTL variance at the identified position on BTA27.
stearoyl-Coenzyme A desaturase 1
sterol regulatory element binding protein 1
fatty acid synthase
fatty acid binding protein 4
- (LXRα) :
liver X receptor alpha
- (ACACA) :
acetyl-CoA carboxylase alpha
non-SMC condensin I complex
- subunit G:
Acknowledgements and Funding
Skillful technical assistance of Annett Eberlein, Astrid Kühl, Marlies Fuchs, Birgit Jentz, Maria Dahm, Antje Lehmann and Simone Wöhl is thankfully acknowledged. We thank the German Federal Ministry of Education and Research (BMBF) for the financial support of this work within the scope of the FUGATO QUALIPID project (FKZ 0313391C). Also, we thank our colleagues at the FBN Dummerstorf involved in the generation and care of the SEGFAM F2 resource population for their continuous support of our work and Jill Maddox (University of Melbourne, Australia) for providing the modified CRIMAP version 2.50.
- Scollan N, Hocquette JF, Nuernberg K, Dannenberger D, Richardson I, Moloney A: Innovations in beef production systems that enhance the nutritional and health value of beef lipids and their relationship with meat quality. Meat Sci. 2006, 74: 17-33. 10.1016/j.meatsci.2006.05.002.View ArticlePubMed
- Ward OP, Singh A: Omega-3/6 fatty acids: Alternative sources of production. Process Biochem. 2005, 40: 3627-3652. 10.1016/j.procbio.2005.02.020.View Article
- Nettleton JA, Katz R: n-3 long-chain polyunsaturated fatty acids in type 2 diabetes: A review. J Am Diet Assoc. 2005, 105: 428-440. 10.1016/j.jada.2004.11.029.View ArticlePubMed
- Cicero AFG, Ertek S, Borghi C: Omega-3 Polyunsaturated Fatty Acids: Their Potential Role in Blood Pressure Prevention and Management. Curr Vasc Pharmacol. 2009, 7: 330-337. 10.2174/157016109788340659.View ArticlePubMed
- Griffin BA: How relevant is the ratio of dietary n-6 to n-3 polyunsaturated fatty acids to cardiovascular disease risk? Evidence from the OPTILIP study. Curr Opin Lipidol. 2008, 19: 57-62. 10.1097/MOL.0b013e3282f2e2a8.View ArticlePubMed
- Russo GL: Dietary n-6 and n-3 polyunsaturated fatty acids: From biochemistry to clinical implications in cardiovascular prevention. Biochem Pharmacol. 2009, 77: 937-946. 10.1016/j.bcp.2008.10.020.View ArticlePubMed
- Harris WS, Miller M, Tighe AP, Davidson MH, Schaefer EJ: Omega-3 fatty acids and coronary heart disease risk: Clinical and mechanistic perspectives. Atherosclerosis. 2008, 197: 12-24. 10.1016/j.atherosclerosis.2007.11.008.View ArticlePubMed
- Flachs P, Rossmeisl M, Bryhn M, Kopecky J: Cellular and molecular effects of n-3 polyunsaturated fatty acids on adipose tissue biology and metabolism. Clin Sci. 2009, 116: 1-16. 10.1042/CS20070456.View ArticlePubMed
- Lombardo YB, Hein G, Chicco A: Metabolic syndrome: Effects of n-3 PUFAs on a model of dyslipidemia, insulin resistance and adiposity. Lipids. 2007, 42: 427-437. 10.1007/s11745-007-3039-3.View ArticlePubMed
- Delarue J, Magnan C: Free fatty acids and insulin resistance. Curr Opin Clin Nutr Metab Care. 2007, 10: 142-148. 10.1097/MCO.0b013e328042ba90.View ArticlePubMed
- Browning LM, Krebs JD, Moore CS, Mishra GD, O'Connell MA, Jebb SA: The impact of long chain n-3 polyunsaturated fatty acid supplementation on inflammation, insulin sensitivity and CVD risk in a group of overweight women with an inflammatory phenotype. Diabetes Obes Metab. 2007, 9: 70-80. 10.1111/j.1463-1326.2006.00576.x.View ArticlePubMed
- Yusof HM, Miles EA, Calder P: Influence of very long-chain n-3 fatty acids on plasma markers of inflammation in middle-aged men. Prostaglandins Leukot Essent Fatty Acids. 2008, 78: 219-228. 10.1016/j.plefa.2008.02.002.View ArticlePubMed
- Riediger ND, Othman RA, Suh M, Moghadasian MH: A Systemic Review of the Roles of n-3 Fatty Acids in Health and Disease. J Am Diet Assoc. 2009, 109: 668-679. 10.1016/j.jada.2008.12.022.View ArticlePubMed
- McEwen B, Morel-Kopp MC, Tofler G, Ward C: Effect of Omega-3 Fish Oil on Cardiovascular Risk in Diabetes. Diabetes Educator. 2010, 36: 565-584. 10.1177/0145721710372675.View ArticlePubMed
- Pachikian B, Neyrinck A, Cani P, Portois L, Deldicque L, Backer F, Bindels L, Sohet F, Malaisse W, Francaux M, Carpentier Y, Delzenne N: Hepatic steatosis in n-3 fatty acid depleted mice: focus on metabolic alterations related to tissue fatty acid composition. BMC Physiol. 2008, 8: 21-10.1186/1472-6793-8-21.PubMed CentralView ArticlePubMed
- Calder PC, Yaqoob P: Omega-3 polyunsaturated fatty acids and human health outcomes. Biofactors. 2009, 35: 266-272. 10.1002/biof.42.View ArticlePubMed
- Jump DB: Dietary polyunsaturated fatty acids and regulation of gene transcription. Curr Opin Lipidol. 2002, 13: 155-164. 10.1097/00041433-200204000-00007.View ArticlePubMed
- Benatti P, Peluso G, Nicolai R, Calvani M: Polyunsaturated fatty acids: Biochemical, nutritional and epigenetic properties. J Am Coll Nutr. 2004, 23: 281-302.View ArticlePubMed
- Xu J, Nakamura MT, Cho HP, Clarke SD: Sterol regulatory element binding protein-1 expression is suppressed by dietary polyunsaturated fatty acids - A mechanism for the coordinate suppression of lipogenic genes by polyunsaturated fats. J Biol Chem. 1999, 274: 23577-23583. 10.1074/jbc.274.33.23577.View ArticlePubMed
- Davidson MH: Mechanisms for the hypotriglyceridemic effect of marine omega-3 fatty acids. Am J Cardiol. 2006, 98: 27I-33I.View ArticlePubMed
- Hiller R, Herdmann A, Nuernberg K: Dietary n-3 fatty acids significantly suppress lipogenesis in bovine muscle and adipose tissue: A functional genomics approach. Lipids. 2011, 557-67. 46:
- McAffee AJ, McSorley EM, Cuskelly GJ, Fearon AM, Moss BW, Beattie JAM, Wallace JMW, Bonham MP, Strain JJ: Red meat from animals offered a grass diet increases plasma and platelet n-3 PUFA in healthy consumers. Br J Nutr. 2011, 105: 80-89. 10.1017/S0007114510003090.View Article
- Dewhurst RJ, Scollan ND, Lee MRF, Ougham HJ, Humphreys MO: Forage breeding and management to increase the beneficial fatty acid content of ruminant products. Proc Nutr Soc. 2003, 62: 329-336. 10.1079/PNS2003241.View ArticlePubMed
- Nuernberg K, Dannenberger D, Nuernberg G, Ender K, Voigt J, Scollan ND, Wood JD, Nute GR, Richardson RI: Effect of a grass-based and a concentrate feeding system on meat quality characteristics and fatty acid composition of longissimus muscle in different cattle breeds. Livestock Prod Sci. 2005, 94: 137-147. 10.1016/j.livprodsci.2004.11.036.View Article
- Leheska JM, Thompson LD, Howe JC, Hentges E, Boyce J, Brooks JC, Shriver B, Hoover L, Miller MF: Effects of conventional and grass-feeding systems on the nutrient composition of beef. J Anim Sci. 2008, 86: 3575-3585. 10.2527/jas.2007-0565.View ArticlePubMed
- Lee MRF, Tweed JKS, Dewhurst RJ, Scollan ND: Effect of forage: concentrate ratio on ruminal metabolism and duodenal flow of fatty acids in beef steers. Anim Sci. 2006, 82: 31-40.View Article
- De Smet S, Raes K, Demeyer D: Meat fatty acid composition as affected by fatness and genetic factors: a review. Anim Res. 2004, 53: 81-98. 10.1051/animres:2004003.View Article
- Barton L, Kott T, Bures D, Rehak D, Zahradkova R, Kottova B: The polymorphisms of stearoyl-CoA desaturase (SCD1) and sterol regulatory element binding protein-1 (SREBP-1) genes and their association with the fatty acid profile of muscle and subcutaneous fat in Fleckvieh bulls. Meat Sci. 2010, 85: 15-20. 10.1016/j.meatsci.2009.11.016.View ArticlePubMed
- Matsuhashi T, Maruyama S, Uemoto Y, Kobayashi N, Mannen H, Abe T, Sakaguchi S, Kobayashi E: Effectsof bovine fatty acid synthase, stearoyl-coenzyme A desaturase, sterol regulatory element-binding protein 1, and growth hormone gene polymorphisms on fatty acid composition and carcass traits in Japanese Black cattle. J Anim Sci. 2011, 89: 12-22. 10.2527/jas.2010-3121.View ArticlePubMed
- Taniguchi M, Utsugi T, Oyama K, Mannen H, Kobayashi M, Tanabe Y, Ogino A, Tsuji S: Genotype of stearoyl-CoA desaturase is associated with fatty acid composition in Japanese Black cattle. Mamm Genome. 2004, 15: 142-148. 10.1007/s00335-003-2286-8.View ArticlePubMed
- Ohsaki H, Tanaka A, Hoashi S, Sasazaki S, Oyama K, Taniguchi M, Mukai F, Mannen H: Effect of SCD and SREBP genotypes on fatty acid composition in adipose tissue of Japanese Black cattle herds. Anim Sci J. 2009, 80: 225-232. 10.1111/j.1740-0929.2009.00638.x.View ArticlePubMed
- Jiang Z, Tobey DJ, Daniels TF, Rule DC, MacNeil MD: Significant associations of stearoyl-CoA desaturase (SCD1) gene with fat deposition and composition in skeletal muscle. Int J Biol Sci. 2008, 4: 345-351.PubMed CentralView ArticlePubMed
- Orru L, Cifuni G, Piasentier E, Corazzin M, Bovolenta S, Moioli B: Association analyses of single nucleotide polymorphisms in the LEP and SCD1 genes on the fatty acid profile of muscle fat in Simmental bulls. Meat Sci. 2011, 87: 344-348. 10.1016/j.meatsci.2010.11.009.View ArticlePubMed
- Li C, Aldai N, Vinsky M, Dugan MER, McAllister TA: Association analyses of single nucleotide polymorphisms in bovine stearoyl-CoA desaturase and fatty acid synthetase genes with fatty acid composition in commercial cross-bred beef steers. Anim Genet. 2011
- Zhang S, Knight TJ, Reecy JM, Beitz DC: DNA polymorphisms in bovine fatty acid synthase are associated with beef fatty acid composition. Anim Genet. 2008, 39: 62-70. 10.1111/j.1365-2052.2007.01681.x.View ArticlePubMed
- Uemoto Y, Abe T, Tameoka N, Hasebe H, Inoue K, Nakajima H, Shoji M, Kobayashi M, Kobayashi E: Whole-genome association study for fatty acid composition of oleic acid in Japanese Black cattle. Anim Genet. 2011, 42: 141-148. 10.1111/j.1365-2052.2010.02088.x.View ArticlePubMed
- Abe T, Saburi J, Hasebe H, Nakagawa T, Misumi S, Nade T, Nakajima H, Shoji M, Kobayashi M, Kobayashi E: Novel mutations in the FASN gene and their effects on fatty acid composition in Japanese Black beef. Biochem Genet. 2009, 47: 397-411. 10.1007/s10528-009-9235-5.View ArticlePubMed
- Hoashi S, Hinenoya T, Tanaka A, Ohsaki H, Sasazaki S, Taniguchi M, Oyama K, Mukai F, Mannen H: Association between fatty acid compositions and genotypes of FABP4 and LXR-alpha in Japanese Black cattle. BMC Genet. 2008, 9: 84-PubMed CentralView ArticlePubMed
- Zhang S, Knight TJ, Reecy JM, Wheeler TL, Shackelford SD, Cundiff LV, Beitz DC: Associations of polymorphisms in the promoter I of bovine acetyl-CoA carboxylase-alpha gene with beef fatty acid composition. Anim Genet. 2010, 41: 417-420.View ArticlePubMed
- Alexander LJ, Kuehn LA, Smith TPL, Matukumalli LK, Mote B, Koltes JE, Reecy J, Geary TW, Rule DC, MacNeil MD: A Limousin specific myostatin allele effects longissimus dorsi muscle area and fatty acid profiles in a Wagyu-Limousin F(2) population. J Anim Sci. 2009, 87: 1576-1581. 10.2527/jas.2008-1531.View ArticlePubMed
- Wiener P, Wooliams JA, Frank-Lawale A, Ryan M, Richardson RI, Nute GR, Wood JD, Homer D, Williams JL: The effects of a mutation in the myostatin gene on meat and carcass quality. Meat Sci. 2009, 83: 127-134. 10.1016/j.meatsci.2009.04.010.View ArticlePubMed
- Kühn Ch, Bellmann O, Voigt J, Wegner J, Guiard V, Ender K: An experimental approach for studying the genetic and physiological background of nutrient transformation in cattle with respect to nutrient secretion and accretion type. Arch Anim Breed. 2002, 45: 317-330.
- Eberlein A, Takasuga A, Setoguchi K, Pfuhl R, Flisikowski K, Fries R, Klopp N, Furbass R, Weikard R, Kuhn C: Dissection of Genetic Factors Modulating Fetal Growth in Cattle Indicates a Substantial Role of the Non-SMC Condensin I Complex, Subunit G (NCAPG) Gene. Genetics. 2009, 183: 951-964. 10.1534/genetics.109.106476.PubMed CentralView ArticlePubMed
- Weikard R, Altmaier E, Suhre K, Weinberger KM, Hammon HM, Albrecht E, Setoguchi K, Takasuga A, Kuehn C: Metabolomic profiles indicate distinct physiological pathways affected by two loci with major divergent effect on Bos taurus growth and lipid deposition. Physiol Genomics. 2010, 42A: 79-88. 10.1152/physiolgenomics.00120.2010.View ArticlePubMed
- Casas E, Shackelford SD, Keele JW, Koohmaraie M, Smith TPL, Stone RT: Detection of quantitative trait loci for growth and carcass composition in cattle. J Anim Sci. 2003, 81: 2976-2983.PubMed
- McClure MC, Morsci NS, Schnabel RD, Kim JW, Yao P, Rolf MM, Mckay SD, Gregg SJ, Chapple RH, Northcutt SL, Taylor JF: A genome scan for quantitative trait loci influencing carcass, post-natal growth and reproductive traits in commercial Angus cattle. Anim Genet. 2010, 41: 597-607. 10.1111/j.1365-2052.2010.02063.x.View ArticlePubMed
- Knott SA, Elsen JM, Haley CS: Methods for multiple-marker mapping of quantitative trait loci in half-sib populations. Theor Appl Genet. 1996, 93: 71-80. 10.1007/BF00225729.View ArticlePubMed
- Morris CA, Bottema CDK, Cullen NG, Hickey SM, Esmailizadeh AK, Siebert BD, Pitchford WS: Quantitative trait loci for organ weights and adipose fat composition in Jersey and Limousin back-cross cattle finished on pasture or feedlot. Anim Genet. 2010, 41: 589-596. 10.1111/j.1365-2052.2010.02058.x.View ArticlePubMed
- Mashek DG, Li LO, Coleman RA: Long-chain acyl-CoA synthetases and fatty acid channeling. Future Lipidol. 2007, 2: 465-476. 10.2217/174608188.8.131.525.PubMed CentralView ArticlePubMed
- Li LO, Ellis JM, Paich HA, Wang SL, Gong N, Altshuller G, Thresher RJ, Koves TR, Watkins SM, Muoio DM, Cline GW, Shulman GI, Coleman RA: Liver-specific Loss of Long Chain Acyl-CoA Synthetase-1 Decreases Triacylglycerol Synthesis and beta-Oxidation and Alters Phospholipid Fatty Acid Composition. J Biol Chem. 2009, 284: 27816-27826. 10.1074/jbc.M109.022467.PubMed CentralView ArticlePubMed
- Phillips CM, Goumidi L, Bertrais S, Field MR, Cupples LA, Ordovas JM, Defoort C, Lovegrove JA, Drevon CA, Gibney MJ, Blaak EE, Kiec-Wilk B, Karlstrom B, Lopez-Miranda J, McManus R, Hercberg S, Lairon D, Planells R, Roche HM: Gene-nutrient interactions with dietary fat modulate the association between genetic variation of the ACSL1 gene and metabolic syndrome. J Lipid Res. 2010, 51: 1793-1800. 10.1194/jlr.M003046.PubMed CentralView ArticlePubMed
- Simopoulos AP: Genetic variants in the metabolism of omega-6 and omega-3 fatty acids: their role in the determination of nutritional requirements and chronic disease risk. Exp Biol Med. 2010, 235: 785-795. 10.1258/ebm.2010.009298.View Article
- Itoh M, Johnson CB, Cosgrove GP, Muir PD, Purchas RW: Intramuscular fatty acid composition of neutral and polar lipids for heavy-weight Angus and Simmental steers finished on pasture or grain. J Sci Food Agric. 1999, 79: 821-827. 10.1002/(SICI)1097-0010(19990501)79:6<821::AID-JSFA291>3.0.CO;2-N.View Article
- Choi NJ, Enser M, Wood JD, Scollan ND: Effect of breed on the deposition in beef muscle and adipose tissue of dietary n-3 polyunsaturated fatty acids. Anim Sci. 2000, 71: 509-519.
- Tanaka K: Occurrence of conjugated linoleic acid in ruminant products and its physiological functions. Anim Sci J. 2005, 76: 291-303. 10.1111/j.1740-0929.2005.00268.x.View Article
- Herdmann A, Nuernberg K, Martin J, Nuernberg G, Doran O: Effect of dietary fatty acids on expression of lipogenic enzymes and fatty acid profile in tissues of bulls. Animal. 2010, 4: 755-762. 10.1017/S1751731110000431.View ArticlePubMed
- Malau-Aduli AEO, Siebert BD, Bottema CDK, Pitchford WS: A comparison of the fatty acid composition of triacylglycerols in adipose tissue from Limousin and Jersey cattle. Aust J Agric Res. 1997, 48: 715-722. 10.1071/A96083.View Article
- Kuehn C, Weikard R: An investigation into the genetic background of coat colour dilution in a Charolais × German Holstein F-2 resource population. Anim Genet. 2007, 38: 109-113. 10.1111/j.1365-2052.2007.01569.x.View Article
- Green P, Falls K, Crooks S: Documentation for CRIMAP. Version 2 4 (3/26/90). 1990
- Perez-Enciso M, Misztal I: Qxpak: a versatile mixed model application for genetical genomics and QTL analyses. Bioinformatics. 2004, 20: 2792-2798. 10.1093/bioinformatics/bth331.View ArticlePubMed
- Nezer C, Moreau L, Wagenaar D, Georges M: Results of a whole genome scan targeting QTL for growth and carcass traits in a Pietrain × Large White intercross. Genet Sel Evol. 2002, 34: 371-387. 10.1186/1297-9686-34-3-371.PubMed CentralView ArticlePubMed
- Elsik CG, Tellam RL, Worley KC, Gibbs RA, Abatepaulo ARR, Abbey CA, Adelson DL, Aerts J, Ahola V, Alexander L, Alioto T, Almeida IG, Amadio AF, Anatriello E, Antonarakis SE, Anzola JM, Astashyn A, Bahadue SM, Baldwin CL, Barris W, Baxter R, Bell SN, Bennett AK, Bennett GL, Biase FH, Boldt CR, Bradley DG, Brinkman FSL, Brinkmeyer-Langford CL, Brown WC, Brownstein MJ, Buhay C, Caetano AR, Camara F, Carroll JA, Carvalho WA, Casey T, Cervelatti EP, Chack J, Chacko E, Chandrabose MM, Chapin JE, Chapple CE, Chen HC, Chen L, Cheng Y, Cheng Z, Childers CP, Chitko-McKown CG, Chiu R, Choi JW, Chrast J, Colley AJ, Connelley T, Cree A, Curry S, Dalrymple B, ep Dao M, Davis C, de Oliveira CJF, de Miranda Santos IKF, de Campos TA, Deobald H, Devinoy E, Dickens CM, Ding Y, Dinh HH, De Donato M, Donohue KE, Donthu R, Dovc P, Dugan-Rocha S, Durbin KJ, Eberlein A, Edgar RC, Egan A, Eggen A, Eichler EE, Elhaik E, Ellis SA, Elnitski L, Ermolaeva O, Eyras E, Fitzsimmons CJ, Fowler GR, Franzin AM, Fritz K, Gabisi RA, Garcia GR, Garcia JF, Genini S, Gerlach D, German JB, Gilbert JGR, Gill CA, Gladney CJ, Glass EJ, Goodell J, Grant JR, Graur D, Greaser ML, Green JA, Green RD, Guan L, Guigo R, Hadsell DL, Hagen DE, Hakimov HA, Halgren R, Hamernik DL, Hamilton C, Harhay GP, Harrow JL, Hart EA, Hastings N, Havlak P, Henrichsen CN, Hernandez J, Hernandez M, Herzig CTA, Hiendleder SG, Hines S, Hitchens ME, Hlavina W, Hobbs M, Holder M, Holt RA, Hu ZL, Hume J, Iivanainen A, Ingham A, Iso-Touru T, Jamis C, Jann O, Jensen K, Jhangiani SN, Jiang HY, Johnson AJ, Jones SJM, Joshi V, Junier T, Kapetis D, Kappes SM, Kapustin Y, Keele JW, Kent MP, Kerr T, Khalil SS, Khatib H, Kiryutin B, Kitts P, Kokocinski F, Kolbehdari D, Kovar CL, Kriventseva EV, Kumar CG, Kumar D, Lahmers KK, Landrum M, Larkin DM, Lau LPL, Leach R, Lee JCM, Lee S, Lemay DG, Lewin HA, Lewis LR, Li CX, Lien S, Liu GE, Liu YS, Liu Y, Logan KM, Lopez J, Lozado RJ, Lutzow YS, Lynn DJ, MacNeil MD, Maglott D, Malinverni R, Maqbool NJ, Marques E, Marra MA, Martin WF, Martins NF, Maruyama SR, Matukumalli LK, Mazza R, Mcewan JC, Mckay SD, Mclean KL, McWilliam S, Medrano JF, Memili E, Moen C, Molenaar AL, Moore SS, Moore R, More DD, Moreno BT, Morgan MB, Muntean CT, Muzny DM, Nandakumar HP, Nazareth LV, Nguyen NB, Nicholas FW, Nogueira MFG, Okwuonu GO, Olsaker I, Pant SD, Panzitta F, Pastor RCP, Patel BM, Payne GM, Plass M, Poli MA, Poslusny N, Pruitt K, Pu LL, Qin X, Rachagani S, Raison JM, Ranganathan S, Ratnakumar A, Razpet A, Reecy J, Reese JT, Ren Y, Reymond A, Riggs PK, Rijnkels M, Rincon G, Roberts A, Rodriguez-Osorio N, Rodriguez-Zas SL, Romero NE, Rosenwald A, Ruiz SJ, Sabo A, Salih H, Sando L, Santibanez J, Sapojnikov V, Schein JE, Schmutz SM, Schnabel RD, Schook L, Searle SM, Seo SW, Shen YF, Shen LB, Sherman L, Skow LC, Sonstegard TS: The Genome Sequence of Taurine Cattle: A Window to Ruminant Biology and Evolution. Science. 2009, 324: 522-528.PubMed CentralView ArticlePubMed
- Zimin A, Delcher A, Florea L, Kelley D, Schatz M, Puiu D, Hanrahan F, Pertea G, Tassell C, Sonstegard T, Marcais G, Roberts M, Subramanian P, Yorke J, Salzberg S: A whole-genome assembly of the domestic cow, Bos taurus. Genome Biol. 2009, 10: R42-10.1186/gb-2009-10-4-r42.PubMed CentralView ArticlePubMed
- Oliphant A, Barker DL, Stuelpnagel JR, Chee MS: BeadArrayTM technology: Enabling an accurate, cost-effective approach to high-throughput genotyping. Biotechniques. 2002, S56-S61.
- Ye S, Dhillon S, Ke XY, Collins AR, Day INM: An efficient procedure for genotyping single nucleotide polymorphisms. Nucl Acids Res. 2001, 29: art-e88.View Article
- Liu KJ, Muse SV: PowerMarker: an integrated analysis environment for genetic marker analysis. Bioinformatics. 2005, 21: 2128-2129. 10.1093/bioinformatics/bti282.View ArticlePubMed
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