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ANIMAL GENETICS |
Institut für Tierzucht und Haustiergenetik der Justus-Liebig-Universität, 35390 Giessen, Germany
| Abstract |
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/2) were first calculated for both alleles in separate models and then in a joint model. From the joint analysis, CYP11B1V effects on fat content (+0.04%) and protein content (+0.01%) were positive. Effects on milk yield (82 kg), fat yield (0.5 kg), and protein yield (1.9 kg) were negative. Compared with the individual analysis, DGAT1K effects on fat content (+0.28%), protein content (+0.06%), and milk yield (258 kg) were reduced; fat yield (+10.8 kg) was enhanced; and protein yield (3.8 kg) was reduced. In the joint analysis, allele substitution effects of CYP11B1V and DGAT1K together explained more of the variation in milk production traits than DGAT1K alone. Further significant effects were found for CYP11B1V and DGAT1K among 6 reproduction traits and 14 conformational traits. These observations indicate a possible negative influence of DGAT1K on maternal nonreturn rate, and thus, on length of productive life.
Key Words: BTA14 CYP11B1 DGAT1 milk production trait quantitative trait locus
| INTRODUCTION |
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The 11ß-hydroxylase (CYP11B1) is the enzyme (EC:1.14.15.4) that catalyzes both the 11ß- and 18-hydroxylation of corticosteroids in cattle (Ogishima et al., 1989
; Muller, 1998
; Lisurek and Bernhardt, 2004
). Steroid hormones are physiological regulators and cortisol is one of the principal hormones involved in lipogenesis and lipolysis, which control fatty acid concentration in plasma and tissues (Bhathena, 2000
). The CYP11B1 hormones influence fluid volume and electrolyte homeostasis and glucose and lipid metabolism (Kirita et al., 1990
; Bülow and Bernhardt, 2002
).
In some species, the CYP11B1 gene has developed into distinct isoforms (Kawamoto et al., 1992
; Mellon et al., 1995
; Bülow et al., 1996
; Muller, 1998
), whereas in pig, sheep, and cattle functional unity is conserved (Bülow et al., 1996
; Muller, 1998
). In all mammals CYP11B1 pseudogenes exist (Kirita et al., 1990
; Mellon et al., 1995
). Because the CYP11B1 coding gene has been mapped to BTA14q12 (Kaupe et al., 2004a
) and HSA8q21-23 (Wagner et al., 1991
; Taymans et al., 1998
), this gene can be considered as a positional candidate gene. Because CYP11B1 is involved in energy metabolism, this gene can also be considered as a functional candidate gene for milk production.
The objective of this study was to investigate the effect of a CYP11B1 polymorphism on the QTL for milk production traits, which could not be completely resolved with DGAT1 variation.
| MATERIALS AND METHODS |
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Population Structure
The granddaughter design for Holstein cattle of the German Cattle Breeders Association (ADR, Bonn, Germany) has been described by Thomsen et al. (2000)
. Different authors have characterized this granddaughter design for milk production traits (Thomsen et al., 2000
; Bennewitz et al., 2003
, 2004
; Thaller et al., 2003
), functional traits (Kühn et al., 2003
), and conformation and behavioral traits (Hiendleder et al., 2003
). From this population, DNA of 1,291 animals from 18 paternal half-sib families was genotyped. The number of sons per Holstein sire ranged from 19 to 352, with 69.4 sons per family on average. Sons were born between 1986 and 1993. In addition, 202 German Simmental (Fleckvieh) animals were also genotyped.
Molecular Analysis of CYP11B1 Polymorphism
To develop primers, advantage was taken of a deletion of 4 nucleotides (GAGG) in the 5'-region of the CYP11B1 pseudogene sequence (Kirita et al., 1990
; NCBI trace archive: 380062637, 656145983, 884919011), which correspond to positions 263, 264, 265, and 266 in the 5'-sequence of the coding CYP11B1 gene, GenBank mRNA sequence NM_174638 (Morohashi et al., 1987
). Using the actual sequence adjacent to the deletion, 2 primers (245, 251) were designed that had 3 or 4 of the deleted nucleotides (underlined, bold letters), respectively, as their terminal 3'-nucleotides. As a control group, 2 more primers (255, 256) were designed that did not contain the deleted nucleotides and that were meant to anneal to the CYP11B1 pseudogene only. This procedure led to 4 forward primers:
245, 5'-ATACTGGAGGGGGAGGAGG-3';
251, 5'-CATACTGGAGGGGGAGGAG-3';
255, 5'-CATACTGGAGGGGGAGCCTC-3'; and
256, 5'-ACTGGAGGGGGAGCCTCTTG-3'.
These forward primers were employed in separate PCR reactions together with the same reverse primer (195):
195, 5'-GGACAGAACGTGAGGGTGTT-3';
which is located at the beginning of the intron 1 sequence. The primer pairs were expected to yield 2 distinct fragments of differing size (245/195, 568 bp; and 251/195, 570 bp) from the coding gene and 2 fragments (255/195, 565 bp; and 256/195, 562 bp) from the pseudogene.
The PCR was performed in a GeneAmp PCR System 9600 (Applied Biosystems, Foster City, CA) using a 20 µL volume containing 50 ng of genomic DNA, 0.5 U of Hotstar Taq (Qiagen, Hilden, Germany), 1 x Hotstar PCR Buffer, 1.5 mM MgCl2, 150 µM each of dNTP, 0.5 pM each of forward and reverse primer, and 5% DMSO because of a GC-rich (66%) PCR product. The PCR pro-file included 1 cycle of 15 min at 95°C, followed by 10 cycles of 30 s at 94°C, 30 s at 72°C to 62°C (1°C less every cycle) and 45 s at 72°C, followed by 30 cycles of 30 s at 94°C, 30 s at 62°C, and 45 s at 72°C, followed by 1 cycle of 10 min at 72°C.
The PCR products were run on a polyacrylamide gel to detect conformational differences in the amplified molecules, at least between those from the coding CYP11B1 gene and the CYP11B1 pseudogene. Therefore, PCR products were denatured for 1 min at 90°C in a 95% formamide dye and subsequently chilled in ice water. Fragments were then separated by electrophoresis on a nondenaturing 10% polyacrylamide gel with 1% glycerol, 0.5 x TBE at 5°C, 650 V for 5 h in a P9DS Penguin system (OWL Separation Systems, Portsmouth, NH). Gels were then fixed in 10% acetic acid:15% ethanol (vol/vol), and silver-stained, essentially following the procedure of Bassam et al. (1991)
, but using 0.04 M EDTA as the stop solution.
As further evidence for selectivity of the primer systems, PCR products were sequenced on an ABI 377 PRISM sequencer (Applied Biosystems, Foster City, CA) after cleanup of the PCR products with a Montage PCR Centrifugal Filter device (Millipore, Eschborn, Germany) and purification of the sequencing reactions with a DyeEx 2.0 Spin Kit (Qiagen, Hilden, Germany).
For genotyping, primer pair 245/195 was selected to amplify the DNA from all 1,291 animals with PCR, as described above. The PCR products of 568 bp were digested with the restriction enzyme PstI (MBI Fermentas, St Leon-Rot, Germany) in 20-µL volumes overnight. Electrophoresis was carried out with 2% agarose gels and 4 V/cm in 0.5 x TBE buffer. After differential migration of digests on the genotyping gel, the fragment set of 442/103/23 bp represented the valine variant (CYP11B1V) and the fragment set of 371/103/71/23 bp represented the alanine variant (CYP11B1A) of the CYP11B1 coding gene.
Molecular Analysis of DGAT1 Polymorphism
A 411-bp fragment of the bovine DGAT1 gene containing the K232A substitution was amplified by PCR and digested with the restriction enzyme CfrI (MBI Fermentas) as reported recently (Kaupe et al., 2004b
). Electrophoretic separation on agarose gels identified phenotypes by differential migration due to fragment size. The uncut 411-bp fragment represented the lysine variant (DGAT1K), whereas digested fragments of 203 and 208 bp represented the alanine variant (DGAT1A) of the DGAT1 gene.
Phenotypic Data
Phenotypic data used in this study included EBV (Liu et al., 2000a
,b
), reliabilities (Liu et al., 2001
), and number of daughters for all German Holstein sires. These were obtained from the United Data Systems for Animal Production (VIT, Verden, Germany) and included EBV for milk yield, fat and protein yield, and fat and protein content. Also included were EBV of somatic cell score (SCS) and 14 conformational traits: dairy character, stature, body depth, strength, rump angle, rump width, rear leg set side view, foot angle, rear udder height, suspensory ligament, teat placement, fore udder attachment, teat length, and udder depth. Six reproduction traits: paternal calving ease, paternal stillbirth, maternal calving ease, maternal stillbirth, paternal nonreturn rate, and maternal non-return rate, were also considered, together with the EBV for functional herd life. Production and conformation data were taken from the national breeding value evaluation of May 2004; fertility data were based on the August 2003 evaluation. Evaluation methods and statistical models of breeding values for milk production traits, SCS, conformation, productive life, and reproduction traits in German Holstein cattle can be consulted online (http://www.vit.de/; last accessed 21 September 2006).
Statistical Analysis
Allele frequencies of CYP11B1V+A and DGAT1K+A were estimated from alleles of maternal descent. With progeny of homozygous sires, frequencies were directly deduced from the genotypes of the sons. With offspring from heterozygous sires, alleles of maternal descent could only be determined unequivocally if the sons were homozygous. Therefore, a maximum likelihood procedure was applied for estimating allele frequencies:
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where
represents the allelic frequency of CYP11B1V (V = 1, A = 2) or DGAT1K (K = 1, A = 2); n'11 and n'22 are the number of homozygous (11/22) sons within heterozygous sires, respectively; and n12 and n22 are the numbers of heterozygous (12) and homozygous (22) sons within homozygous (22) sires, respectively. The total number of sons with alternative genotypes across all homozygous and all heterozygous sires, respectively, was used for estimating allele frequencies.
The de-regressions of estimated breeding values (DRBV) for all traits were calculated by applying an iterative procedure, as described by Jairath et al. (1998)
, which is currently used by Interbull (Uppsala, Sweden). The differing number of daughters per sire contributing to the calculation of DRBV was accounted for by a weighting factor, W:
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in which the number of effective daughters of each sire contributing to the calculation of the DRBV equals n, and h2 corresponds to the heritability of the respective trait. For reproduction traits, the number of daughters was not available. De-regressed proofs for these traits were calculated applying the formula described by Kühn et al. (2003)
, together with an unweighted analysis.
Data were analyzed using the GLM procedure (SAS Inst., Inc., Cary, NC). The gene substitution effects (
/ 2), as defined in Falconer and MacKay (1996)
, for CYP11B1V and DGAT1K were estimated with the following fixed models:
Fixed model for an individual analysis of CYP11B1 effects, yij = µ + sirei + b1 · xij + eij;
Fixed model for an individual analysis of DGAT1 effects, yij = µ + sirei + b2 · zij + eij; and
Fixed model for a joint analysis of both CYP11B1 and DGAT1 effects, yij = µ + sirei + b1 · xij + b2 · zij + eij;
where yij is the DRBV of son j within sire i, µ is the overall mean, sirei is the fixed effect of sire i, xij is the number of CYP11B1V alleles (0, 1, or 2 for CYP11B1V), zij is the number of DGAT1K alleles (0, 1, or 2 for DGAT1K) of son j within sire i, b1 and b2 are the regression coefficients representing half of the gene substitution effect (
/2), and eij is the random residual effect including polygenic and environmental effects. Sires were included as fixed effects because they represent highly selected animals from the sire population and cannot be considered as a random sample.
| RESULTS |
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Table 1
includes all nucleotide substitutions found in coding and pseudo sequences. The digestion of PCR products of the CYP11B1 gene with restriction enzyme PstI, and the DGAT1 gene with restriction enzyme CfrI showed a clear separation of the 3 genotypes (AA, AB, BB).
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/2) of CYP11B1V and DGAT1K with their respective standard errors for milk production and fertility traits. Effects of CYP11B1V and DGAT1K on milk production traits were all highly significant (P < 0.01). The CYP11B1V was significant (P < 0.05) for SCS when calculating regression coefficients for each gene separately. However, in a joint analysis, uniting both alleles in 1 model, results changed for CYP11B1V, whereas DGAT1K remained highly significant (P < 0.01) for all 5 production traits. The CYP11B1V effects on milk yield (P < 0.01), fat content (P < 0.01), and protein yield (P < 0.01) again were highly significant, whereas effects on protein content (P < 0.05) were significant. The effect on fat yield lost significance.
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Analysis of conformational traits (Table 5
) using separate models for CYP11B1V and DGAT1K showed no significant values for CYP11B1V. The DGAT1K allele had highly significant effects on strength (P < 0.01) and significant effects on rump width (P < 0.05). Repeating the estimation in the joint model yielded similar
/2 values for DGAT1K. The CYP11B1V effects remained without significance in this model.
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| DISCUSSION |
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Molecular Aspects
There are indications of a gene duplication event of the CYP11B1 ancestral gene before the mammalian radiation (Bülow and Bernhardt, 2002
), leading to different sets of CYP11B1 genes in different species, not all of which retained functionality. Some apparently have an altered substrate range of action. Rats are known to have 3 (Mellon et al., 1995
); humans are known to have 2 (Zhang and Miller, 1996
); and cattle, sheep, and pigs are known to harbor only 1 functional CYP11B1 gene (Kirita et al., 1990
; Okamoto et al., 1995
; Sun et al., 1995
; Bülow et al., 1996
; Boon et al., 1997
; Muller, 1998
). Nonfunctional CYP11B1 genes (Kirita et al., 1990
; Bülow and Bernhardt, 2002
), resulting from an initial duplication or a secondary duplication event, have been found in many species, including cattle. Because of this, PCR amplification can be hampered by mixed amplifications from more than the targeted gene. Therefore, it is crucial to develop primer systems that selectively amplify only the coding gene. This is not easily accomplished because sequence similarities between the actual gene and the pseudogene can impair selectivity. In this study a deletion of 4 nucleotides in the 5'-region of the pseudogene compared with the coding gene presented the opportunity to amplify selectively from the coding CYP11B1 gene genomic DNA, which was confirmed by DNA sequencing and single strand conformation polymorphisms.
Allelic Frequencies of CYP11B1V and DGAT1K
The estimated frequency of maternally descended CYP11B1V alleles in German Holsteins was 0.78. An additional typing of 202 German Simmental (Fleckvieh) cattle showed a frequency of 0.73. Nearly identical frequency values of CYP11B1V in 2 distinct breeds could point to a physiological basis. As the gene product of CYP11B1 acts as a bipotent enzyme in cattle, sheep, and pigs (Bülow and Bernhardt, 2002
), both alleles (CYP11B1V, CYP11B1A) are involved in the interconversion of biologically active cortisol to inactive cortisone and vice versa, catalyzing reactions at positions 11 and 18 of the steroid molecule.
In recent publications DGAT1K allelic frequencies in Holstein cattle ranged from 0.30 (Bovenhuis and Schrooten, 2002
) through 0.35 (Winter et al., 2002
), and from 0.42 (Kaupe et al., 2004b
) to 0.63 (Grisart et al., 2002
). Spelman et al. (2002)
found frequencies of 0.24 to 0.71 depending on degree of influence of US/Canadian or Dutch sires. In the current study the frequency of maternally descended DGAT1K alleles in sons of the German Holstein granddaughter-design equaled 0.549, a value almost identical to the 0.548 reported by Thaller et al. (2003)
, despite differences in family numbers and total population size.
Individual Effects of CYP11B1V and DGAT1K on Milk Production Traits
In order to attain comparability between previously published results (Thaller et al., 2003
; Bennewitz et al., 2004
) and results presented in this publication, despite differences in family numbers and population size, effects of CYP11B1V and DGAT1K on milk production traits were first estimated separately in fixed models, well aware that effects of linkage could not be differentiated between genes in this way. Results of Thaller et al. (2003)
and Bennewitz et al. (2004)
were based on daughter yield deviations (DYD) as dependent variables. For the current study, DYD were not available for all traits under consideration; therefore, DRBV were utilized (Table 2
). Using DRBV is a recommended alternative where DYD are missing (Thomsen et al., 2001
). The DYD by definition represent only half of the breeding value of sires, whereas de-regressed proofs represent complete breeding values; therefore, standard deviations of DYD are likewise only half the standard deviations of de-regressed proofs. Taking into account that estimated
/2 effects of recent publications are half those presented herein, very similar values for DGAT1 effects on milk production traits were found.
Comparing results on the basis of DYD with the above-mentioned publications, DGAT1K
/2 for milk yield differed from 2 to 9 kg, and
/2 for fat content and protein content were nearly identical. The
/2 mean value for fat yield differed by 0.51 to 1.18 kg, and
/2 for protein yield differed from 0.27 to 0.22 kg. Effects of all 5 milk production traits were highly significant for DGAT1K as well as for CYP11B1V, as could be expected because of linkage effects. The CYP11B1V was significant for SCS, which was attributed to possible linkage to a QTL (ILSTS011-BM302) further away on the chromosome (Zhang et al., 1998
).
Joint Effects of CYP11B1V and DGAT1K on Milk Production Traits
In order to distinguish CYP11B1V from DGAT1K substitution effects, both alleles were included as independent variables in 1 fixed model. As a result, substitution effects of each allele, as well as respective significances for milk production, fertility, and conformational traits, clearly changed values. The substitution effect for 1 CYP11B1V allele showed milk yield to decrease, together with a highly significant increase in fat content but led to no change in fat yield because milk volume and fat yield or protein yield are closely correlated. For every substituted CYP11B1V allele, protein content showed significant increase but in total led to significant reduction in protein yield because milk yield was reduced as well. Whereas CYP11B1V had significant effects on SCS in the individual analysis, no significant effects were found in the joint analysis.
Bennewitz et al. (2004)
revisited the BTA14 QTL, in order to test for additional variation in DGAT1K substitution effects. A further conditional QTL showed a highly significant effect for fat and protein yield and content, but no effect for milk yield. As results in the present publication confirm only additional positive effects in fat and protein content, further sources of variation for milk characteristics would be expected in the BTA14 QTL-region.
Individual and Joint Effects of CYP11B1V and DGAT1K on Conformation
Estimation of effects on conformational traits (Table 5
), separately for each allele, produced no significant effects for CYP11B1V. Spelman et al. (2002)
typed New Zealand Holsteins for effects of DGAT1 on conformational traits but found no significant effects. In the current study, German Holsteins showed high significance for strength and significant response for rump width with respect to DGAT1K, when typed individually. In the joint analysis CYP11B1V again was without effect, but DGAT1K retained significance for strength and rump width, suggesting differences in body build between German Holsteins of the 2 DGAT1 genotypes. In recent publications of genome wide QTL mapping, no conformation effects were reported for BTA14. However, marker density was lacking (Schrooten et al., 2000
), with large interval size (Hiendleder et al., 2003
) and low information content (Boichard et al., 2003
) on proximal BTA14.
Individual and Joint Effects of CYP11B1V and DGAT1K on Fertility
Paternal calving ease was significantly affected by CYP11B1V in the separate, as in the joint model, where the effect was intensified (Table 4
).
Because the breeding value of paternal calving ease describes the tendency of calves from a particular sire to be born more easily (or with more difficulty) than an average calf, the significant positive effect of CYP11B1V might be attributable to variation of growth dynamics in the unborn calf. However, this hypothesis remains to be tested, and in light of very low heritabilities of fertility traits and the significant effects of many nongenetic factors, attributing such effects to specific alleles could be misleading.
The DGAT1K allele showed a significant negative effect on maternal nonreturn rate. Because follicular dynamics are altered by negative energy balance (Lucy et al., 1992
), potential exists for variation in maternal nonreturn rate through variation in DGAT1K frequencies. As a consequence of higher energy expenditure of the cow to produce more milk fat, the ovulation rate could be reduced.
Correlations Among Production, Health, and Fertility Traits
The most important culling reasons of Holstein dairy cattle in Germany in 2002 were fertility problems (20.6%), lack of udder health (15.2%), and leg problems (9.1%) (Bünger et al., 2002
). The relative breeding value (BV) for SCS was most closely correlated to BV for length of productive life (0.42), followed by the combined BV for feet and legs (0.33). To validate putative effects of a high-energy expenditure of the cow for an increased fat yield on fertility and udder health, Pearsons correlation coefficients were calculated between DRBV of production traits, fertility traits, and SCS, as shown in Table 6
. Functional and fertility traits have rather low heritabilities, generally leading to limited reliabilities for young sires. Holstein bulls considered in this analysis were born between 1986 and 1993 so that reliabilities were assumed to be of reasonable strength in order to attain plausible results (Table 2
). This level of average reliabilities of bull proofs indicates an elevated number of daughters used for genetic evaluation.
Estimated correlations between de-regressed proofs were rather weak except for one (between SCS and length of productive life) but significant in some cases, which is probably attributable to the number of sires. Correlations between DRBV for fat percent and all fertility traits under consideration tended to be negative, even if values were not pronounced. Among others, the strongest negative correlation was found between DRBV for fat yield/protein yield and maternal nonreturn rate, with DRBV for milk yield showing significance as well. The DRBV for fat yield likewise was negatively correlated with paternal calving ease. Gregory et al. (1979)
found reduced paternal calving ease to be a disadvantage in crosses with Bos indicus cattle, which are known as high milk fat producing cattle and are homozygous for DGAT1K (Kaupe et al., 2004b
).
Negative correlations of DRBV for length of productive life with fat yield, fat content, and SCS were among the strongest found in this survey. A high correlation between length of productive life and SCS, as found in this study, seems to confirm results of Nash et al. (2000)
, who found daughters of sires that transmit longer productive life having fewer and less severe clinical mastitis incidences. Because the extent of negative energy balance and the rate of recovery from energy imbalance appear to be important factors in the animal (De Vries and Veerkamp, 2000
; Roche et al., 2000
; Westwood et al., 2002
), the possibility of a negative impact on reproductive traits through rising fat yield, and thereby on length of productive life of milking cows, seems plausible.
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| Footnotes |
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2 Corresponding author: Georg.Erhardt{at}agrar.uni-giessen.de
Received for publication December 22, 2005. Accepted for publication September 4, 2006.
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