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Abstract Background Cattle are bred for, amongst other factors, specific traits, including parasite resistance and adaptation to climate. However, the influence and inheritance of mitochondrial DNA (mtDNA) are not usually considered in breeding programmes. In this study, we analysed the mtDNA profiles of cattle from Victoria (VIC), southern Australia, which is a temperate climate, and the Northern Territory (NT), the northern part of Australia, which has a tropical climate, to determine if the mtDNA profiles of these cattle are indicative of breed and phenotype, and whether these profiles are appropriate for their environments. Results A phylogenetic tree of the full mtDNA sequences of different breeds of cattle, which were obtained from the NCBI database, showed that the mtDNA profiles of cattle do not always reflect their phenotype as some cattle with Bos taurus phenotypes had Bos indicus mtDNA, whilst some cattle with Bos indicus phenotypes had Bos taurus mtDNA. Using D-loop sequencing, we were able to contrast the phenotypes and mtDNA profiles from different species of cattle from the 2 distinct cattle breeding regions of Australia. We found that 67 of the 121 cattle with Bos indicus phenotypes from NT (55.4%) had Bos taurus mtDNA. In VIC, 92 of the 225 cattle with Bos taurus phenotypes (40.9%) possessed Bos indicus mtDNA. When focusing on oocytes from cattle with the Bos taurus phenotype in VIC, their respective oocytes with Bos indicus mtDNA had significantly lower levels of mtDNA copy number compared with oocytes possessing Bos taurus mtDNA (P

Approximately 60% of Australia’s beef cattle are located in the vast rangelands of northern Australia. Despite the often low stocking densities and extensive management practices of the observed herd, animal prevalence of BVDV infection and typical rates of transmission are similar to those observed in intensively managed herds in southern Australia and elsewhere in the world. A recent large three- to four-year study of factors affecting the reproductive performance of breeding herds in this region found that where there was evidence of widespread and/or recent BVDV infection, the percentage of lactating cows that became pregnant within four months of calving was reduced by 23%, and calf wastage was increased by 9%. BVDV is now considered the second most important endemic disease affecting beef cattle in northern Australia, costing the industry an estimated AUD 50.9 million annually. Although an effective killed vaccine was released in Australia in 2003, the adoption of routine whole herd vaccination by commercial beef farmers has been slow. However, routine testing to identify persistently infected replacement breeding bulls and heifers has been more widely adopted.