Interleukin-8 haplotype structure from nucleotide sequence variation in commercial populations of US beef cattle
Interleukin-8 haplotype structure from nucleotide sequence variation in commercial populations of US beef cattle
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DOI：
10.1007/s003350010269
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发表时间：
2001-03-01
期刊：
影响因子：
2.5
通讯作者：
Laegreid, WW
中科院分区：
文献类型：
--
作者：
Heaton, MP;Chitko-McKown, CG;Laegreid, WW
本研究的目的有两个：首先，设计一个由 96 个公牛组成的组，反映美国肉牛遗传多样性的广度；其次，利用该组来发现商业群体中白细胞介素 (IL)-8 的核苷酸序列多样性和单倍型结构。后者是流行病学研究的必要条件，该研究旨在测试 IL8 等位基因是否是生产环境中获得或维持细菌感染的危险因素。 IL-8 编码一种促炎细胞因子，通过在宿主防御细菌入侵的早期阶段吸引和激活中性粒细胞，在细胞介导的免疫中发挥核心作用。通过对从 17 个流行牛品种组（MARC 肉牛多样性组，版本 2.1）中扩增的两个 IL8 DNA 片段进行测序，鉴定了 7 个单核苷酸多态性 (SNP) 标记。开发了通过基质辅助激光解吸/电离飞行时间质谱 (MALDI-TOF MS) 进行自动基因型评分的分析，以独立验证来自 MARC 参考群体的 96 头公牛和 313 头牛的 7 个 SNP 等位基因。为七个 IL8 SNP 组明确定义了跨越两个 IL8 DNA 片段的五个单倍型结构。根据牛多样性组中种质的广度，IL8 的 5 个单倍型结构估计代表了美国肉牛商业群体中这些 DNA 片段中存在的 98% 以上的单倍型结构。多样性小组的 8 个安格斯公牛中 5 个各自单倍型的频率 (0.75, 0.25. 0.00, 0.00, 0.00) 与来自中西部四个州 6 个牛群的 150 头纯种安格斯牛的频率 (0.82, 0.18, 0.01, 0.00, 0.00) 相似，表明多样性小组可能也可用于估计商业人群的等位基因频率。
The aim of the present study was twofold: first, to design a panel of 96 sires that reflects the breadth of genetic diversity in U.S. beef cattle, and second, to use this panel to discover nucleotide sequence diversity and haplotype structures of interleukin (IL)-8 in commercial populations. The latter is a requisite for epidemiological studies designed to test whether IL8 alleles are risk factors for acquiring or maintaining bacterial infections in production environments. IL-8 encodes a proinflammatory cytokine that plays a central role in cell-mediated immunity by attracting and activating neutrophils in the early stages of host defense against bacterial invasion. Seven single-nucleotide polymorphism (SNP) markers were identified by sequencing two IL8 DNA segments amplified from the panel of 17 popular cattle breeds (MARC beef cattle diversity panel, version 2.1). Assays for automated genotype scoring by matrix-assisted laser desorption/ ionization time-of-flight mass spectrometry (MALDI-TOF MS) were developed to independently verify the seven SNP alleles in the 96 bulls and 313 cattle from the MARC reference population. Five haplotype structures, spanning the two IL8 DNA segments, were unambiguously defined for the set of seven IL8 SNPs. Based on the breadth of germplasm in bovine diversity panel, the five haplotype structures for IL8 are estimated to represent >98% of those present in these DNA segments in commercial populations of U.S. beef cattle. The frequencies of the five respective haplotypes in the eight Angus sires of the diversity panel (0.75, 0.25. 0.00, 0.00, 0.00) were similar to those scored in 150 purebred Angus cattle from six herds in four Midwestern states (0.82, 0.18, 0.01, 0.00, 0.00), suggesting that the diversity panel may also be useful for estimating allele frequencies in commercial populations.