Susceptibility loci revealed for bovine respiratory disease complex in pre-weaned holstein calves.

Holly L Neibergs,Christopher M Seabury,Erik Scraggs,Sharif Aly,Jeremy F Taylor,The Bovine Respiratory Disease Complex Coordinated Agricultural Project Research Team ,Terry W Lehenbauer,Jennifer N Kiser,Zeping Wang,Gerald Hagevoort,Andrzej J Wojtowicz,James E Womack,Jessica Davis,Alison Eenennaam,Mahesh Neupane

doi:10.1186/1471-2164-15-1164

Abstract

BackgroundBovine respiratory disease complex (BRDC) is an infectious disease of cattle that is caused by a combination of viral and/or bacterial pathogens. Selection for cattle with reduced susceptibility to respiratory disease would provide a permanent tool for reducing the prevalence of BRDC. The objective of this study was to identify BRDC susceptibility loci in pre-weaned Holstein calves as a prerequisite to using genetic improvement as a tool for decreasing the prevalence of BRDC. High density SNP genotyping with the Illumina BovineHD BeadChip was conducted on 1257 male and 757 female Holstein calves from California (CA), and 767 calves identified as female from New Mexico (NM). Of these, 1382 were classified as BRDC cases, and 1396 were classified as controls, with all phenotypes assigned using the McGuirk health scoring system. During the acquisition of blood for DNA isolation, two deep pharyngeal and one mid-nasal diagnostic swab were obtained from each calf for the identification of bacterial and viral pathogens. Genome-wide association analyses were conducted using four analytical approaches (EIGENSTRAT, EMMAX-GRM, GBLUP and FvR). The most strongly associated SNPs from each individual analysis were ranked and evaluated for concordance. The heritability of susceptibility to BRDC in pre-weaned Holstein calves was estimated.ResultsThe four statistical approaches produced highly concordant results for 373 top ranked SNPs that defined 126 chromosomal regions for the CA population. Similarly, in NM, 370 SNPs defined 138 genomic regions that were identified by all four approaches. When the two populations were combined (i.e., CA + NM) and analyzed, 324 SNPs defined 116 genomic regions that were associated with BRDC across all analytical methods. Heritability estimates for BRDC were 21% for both CA and NM as individual populations, but declined to 13% when the populations were combined.ConclusionsFour analytical approaches utilizing both single and multi-marker association methods revealed common genomic regions associated with BRDC susceptibility that can be further characterized and used for genomic selection. Moderate heritability estimates were observed for BRDC susceptibility in pre-weaned Holstein calves, thereby supporting the application of genomic selection to reduce the prevalence of BRDC in U.S. Holsteins.Electronic supplementary materialThe online version of this article (doi:10.1186/1471-2164-15-1164) contains supplementary material, which is available to authorized users.

Highlights

Bovine respiratory disease complex (BRDC) is an infectious disease of cattle that is caused by a combination of viral and/or bacterial pathogens
Six percent of the heifers (n = 23) originally classified as matched controls later converted to BRDC case-status but remained in the study, as new diagnostic health scores and swabs were obtained at the time of conversion
The differences between the CA and New Mexico (NM) pathogens detected at sampling likely had an impact on the BRDC susceptibility loci detected in the calves

Summary

Introduction

Bovine respiratory disease complex (BRDC) is an infectious disease of cattle that is caused by a combination of viral and/or bacterial pathogens. Selection for cattle with reduced susceptibility to respiratory disease would provide a permanent tool for reducing the prevalence of BRDC. The objective of this study was to identify BRDC susceptibility loci in pre-weaned Holstein calves as a prerequisite to using genetic improvement as a tool for decreasing the prevalence of BRDC. Bovine respiratory disease complex is commonly observed in beef and dairy calves, with both acute and long term effects on health and performance [3,4,5]. In pre-weaned U.S dairy calves, the prevalence of BRDC over a 20 year period ranged from 3.3 to 23.6% [4]. Cows affected by respiratory disease as a calf were twice as likely to die before calving, and calved at an older age as heifers, than those cows that were not affected by BRDC prior to 90 days of age [12,13]

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