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Association of single nucleotide polymorphism in NLRC3, NLRC5, HIP1, and LRP8 genes with fecal egg counts in goats naturally infected with Haemonchus contortus

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Abstract

Haemonchus contortus is a common, intractably pathogenic and economically important gastrointestinal nematode for goat producers worldwide, especially in tropical and subtropical regions. The objective of this study is to identify single nucleotide polymorphisms (SNPs) of 12 candidate goat genes mainly related to the innate immune response associated with fecal egg counts (FECs) of Haemonchus contortus in goat as an indicator of the level of parasite infection. Phenotypic data including FEC and blood traits were recorded in 189 native goats from China and 191 ones from Bangladesh, respectively. Bangladeshi goats had significantly (P < 0.01) lower FEC compared to that of Chinese goats, suggesting higher susceptible and infection rates in Chinese goat populations. FEC was significantly positive correlated with body weight (r = 0.64, P < 0.01) and hemoglobin (r = 0.49, P < 0.01) value, but negative with pack cell volume (r = − 0.63, P < 0.05) in goats. Genotyping of SNPs was performed using a matrix-assisted laser desorption ionization time of flight mass spectrometry assay and a generalized linear model was used to evaluate the association between each SNP and goat FEC trait. Eleven novel SNPs in the NLRC3, NLRC5, HIP1, and LRP8, out of 46 variants from these 12 genes, were significantly associated with FEC of goats with a nominal significance level of P < 0.05. Of these 11 SNPs, linkage disequilibrium were revealed among SNPs in LRP8 (r2 = 0.87 to 1), between SNPs in NLRC3, NLRC5, and HIP1 (r2 = 0.96 to 0.99), respectively. Further, haplotypes within NLRC3, NLRC5, and HIP1 were significantly associated (P < 0.001) with FEC. In artificial challenge trail, quantitative real-time PCR exposed that the relative expression of mRNA was higher in the resistant group for NLRC3 (P < 0.01), LRP8 and HIP1 (P < 0.001) but lower in the resistant group for NLRC5 (P < 0.0001), compared to the susceptible group. The possible SNP markers and genes identified in this study could be potentially used in marker-assisted selection for breeding local goats breeds resistant to gastrointestinal nematode parasite particularly for Haemonchus contortus, and then for improving health and productivity of goat.

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Funding

This project was supported by the National Nature Science Foundation of China (grant no. 31872978), China National Key R&D Program (grant no. 2018YFD0502004), the Fundamental Research Funds for the Central Universities of China (grant no. 2662015BQ024), and the CRP project from the International Atomic Energy Agency (IAEA) (grant no. 16087 and grant no. 20696).

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  1. Abdullah Ibne Omar and Mahmuda Bilkis Bintee Alam contributed equally to this work.

Authors and Affiliations

  1. Key Lab of Agricultural Animal Genetics, Breeding and Reproduction, Ministry of Education, College of Animal Science and Technology, Huazhong Agricultural University, Wuhan, 430070, People’s Republic of China

    Abdullah Ibne Omar, Mahmuda Bilkis Bintee Alam, Shuhong Zhao, Thuy Nhien Tran Thi, Lilin Yin, Jingjin Li, Syed Ali Azmal & Xiaoyong Du

  2. National Engineering Laboratory for Animal Breeding, Key Laboratory of Animal Genetics, Breeding and Reproduction of Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, China Agricultural University, Beijing, 100193, China

    Abdullah Ibne Omar

  3. Department of Animal and Poultry Sciences, Virginia Tech, Blacksburg, VA, 24061, USA

    David Russell Notter

  4. Department of Animal Breeding and Genetics, Bangladesh Agricultural University, Mymensingh, 2202, Bangladesh

    Md.Omar Faruque

  5. Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, Wuhan, 430070, People’s Republic of China

    Xiaoyong Du

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  1. Abdullah Ibne Omar
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Correspondence to Xiaoyong Du.

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The collection of samples and care of the animals used in this study followed guidelines for experimental animals established by the Animal Care Committee and were approved by the Ethics Committee of Huazhong Agricultural University (Permission number: 4200896859) and also followed the animal care guidelines of Bangladesh.

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Omar, A.I., Alam, M.B.B., Notter, D.R. et al. Association of single nucleotide polymorphism in NLRC3, NLRC5, HIP1, and LRP8 genes with fecal egg counts in goats naturally infected with Haemonchus contortus. Trop Anim Health Prod 52, 1583–1598 (2020). https://doi.org/10.1007/s11250-019-02154-z

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