| Literature DB >> 31905734 |
Fan Yang1,2, Manling Zhang1,2, Yuewen Rong3, Zaiqun Liu2, Shuai Yang2, Wei Zhang1, Jun Li2, Yafei Cai1.
Abstract
Alpha-lactalbumin (α-LA) is a major whey protein in bovine and other mammalian milk, which regulates synthesis of lactose. Little is known about its genetic polymorphism and whether can be used as a potential marker for dairy ingredients, milk yield traits, and milk properties. To investigate its polymorphisms and their relationship with milk lactation traits in Chinese Holstein dairy cows, single-strand conformation polymorphism method (PCR-SSCP) and direct sequencing method were used to mark the α-LA gene SNPs. AA (0.7402) and AB (0.2598) genotypes were screened out by PCR-SSCP bands analysis in two independent populations. Direct sequencing revealed that there is one SNP at 1847th (T/C) bp in noncoding region of α-LA gene with highly polymorphic (0.5 < PIC = 0.5623 or 0.5822), of which T is in AA genotype while C in AB. Association analysis also showed that lactose content (p < 0.05) was negatively correlated with fat and protein contents within subgroup, indicating that the SNPs (1847th, T/C) in α-LA gene could be used as a novel potential molecular marker for lactation traits in Chinese Holstein dairy cows.Entities:
Keywords: Alpha-lactalbumin (α-LA); Chinese Holstein dairy cows; PCR-SSCP; SNPs; lactose
Year: 2019 PMID: 31905734 PMCID: PMC7023285 DOI: 10.3390/ani10010060
Source DB: PubMed Journal: Animals (Basel) ISSN: 2076-2615 Impact factor: 2.752
Conventional PCR amplification primers for the four CDS and their adjacent regions of the α-LA gene (AF249896).
| Region | Primer Name | Sequence (5′–3′) | Base Number (bp) | CDS Region (bp) | Annealing Temperature (°C) |
|---|---|---|---|---|---|
| CDS1 | primer1F | GAGCAGTGTGGTGACCCC | 237 (706–942) | 751–883 | 58.7 |
| CDS2 | primer2F | GGTCTGGGAATACAGGTCC | 295 (1129–1423) | 1205–1363 | 58.9 |
| CDS3 | primer3F | GGCAACAGGCATAAGCCTC | 240 (1727–1965) | 1837–1912 | 58.7 |
| CDS4 | primer4F | CCTCAGCCTTCCTGGGGA | 255 (2332–2586) | 2417–2477 | 58.8 |
Figure 1Amplified fragment and SSCP analysis of α-LA gene CDS and their adjacent regions in Chinese Holstein dairy cows. (A) 2% agarose gel electrophoresis of PCR amplification products (four pairs of primers) for CDS and their adjacent regions of α-LA gene. (B–E) SSCP analysis of PCR products for CDS and their adjacent regions of α-LA gene: (1) the primer 1, primer 2, and primer 3 PCR products had no difference in the SSCP analysis bands; (2) the primer 4 PCR products had two different bands, named AA and AB.
SSCP studied the genotype and allele frequency of the α-LA gene in two subgroups of Chinese Holstein cows.
| Items | Genotypic Frequencies | Allele Frequencies | ||||
|---|---|---|---|---|---|---|
| AA | AB | A | B | |||
| Group 1 | Number | 115 | 37 | |||
| Rates | 0.7566 | 0.2434 | 0.8783 | 0.1217 | ||
| Group 2 | Number | 281 | 102 | |||
| Rates | 0.7337 | 0.2663 | 0.8468 | 0.1332 | ||
| Total | Number | 396 | 139 | |||
| Rates | 0.7402 | 0.2598 | 0.8701 | 0.1299 | ||
Figure 2The 4th pair of primer products were directly sequenced and aligned in the NCBI database. (A) The α-LA gene polymorphism locus (black arrow mark) and its nearby sequences in Chinese Holstein cows. (B) The sequence near the LA gene polymorphism site of Chinese Holstein cows aligned with the three bovine sequences (AF249896 (Bos Taurus), AB052166 (Holstein) and AB052163 (Jersey)) in the NCBI library. One locus (red frame marker, 1847th) was the polymorphism of α-LA gene in Chinese Holstein cows. Another site (red frame marker, 1858th) was the differential locus of α-LA gene between Jersey and Holstein.
Figure 3Bovine α-LA amino acid residue sequence alignment between Holstein (AB052166) and Bos Taurus (AF249896). Potential SNPs (562th, A/G) in the CDS2 region affects amino acid sequence changes (Ala/Thr) between Holstein and Bos Taurus (red marker).
Figure 4Bovine α-LA spatial structure (secondary and tertiary structure) analysis and alignment between Holstein and Bos Taurus. (A) Secondary structure of bovine α-LA between Holstein (left) and Bos Taurus (right) were changed, including α-helices and β corners; (B) Tertiary spatial structure of the α-LA changes significantly (box mark) between Holstein (left) and Bos Taurus (right).
Population Genetic Analysis of α-LA Protein Genes (1847th) in Chinese Holstein Dairy Cows.
| Groups | Sample Size | Na | Ne | H | PIC | Obs.F | Min F | Max F | L95 | U95 |
|---|---|---|---|---|---|---|---|---|---|---|
| Group 1 | 152 | 2 | 1.600 | 0.3750 | 0.5623 | 0.6250 | 0.50 | 0.9869 | 0.5022 | 0.9869 |
| Group 2 | 383 | 2 | 1.648 | 0.3932 | 0.5822 | 0.6098 | 0.50 | 0.9948 | 0.5052 | 0.9948 |
| Mean | 2 | 1.624 | 0.3841 | 0.5723 | 0.6174 | 0.50 | 0.9908 | 0.5037 | 0.9908 | |
| SD | 0 | 0.024 | 0.0091 | 0.00995 | 0.0076 | 0 | 0.00395 | 0.0015 | 0.00395 |
Note: Na: Observed number of alleles; Ne: Effective number of alleles; H: Gene diversity; PIC: polymorphism information content; Obs.F: F-statistics; L95-U95: 95% confidence interval of F-statistics.
Statistical analysis the milk components (mean fat and protein contents, Lactose) and 305D yield of different genotypes in Chinese Holstein dairy cows.
| Items | Genotype/Base | Mean Fat Content (%) | Mean Protein Content (%) | Lactose (%) | 305D (kg) |
|---|---|---|---|---|---|
| Group 1 | AA/T | 3.545 ± 0.3215 | 3.280 ± 0.3050 | 4.668 ± 0.232 ** | 10058.68 ± 822.96 |
| AB/C | 3.602 ± 0.3426 | 3.125 ± 0.3062 | 4.732 ± 0.233 * | 9723.01 ± 1033.12 | |
| Group 2 | AA/T | 3.574 ± 0.3968 | 3.155 ± 0.3040 | 4.793 ± 0.1821 ** | 10187.31 ± 940.89 |
| AB/C | 3.520 ± 0.4747 | 3.200 ± 0.3008 | 4.837 ± 0.2077 ** | 10051.50 ± 1135.12 | |
| Mean ± SD | 3.560 ± 0.3839 | 3.191 ± 0.3058 | 4.757 ± 0.2139 | 10005.27 ± 983.03 |
Note: * Correlation is significant at the 0.05 level; ** Correlation is significant at the 0.01 level.