Using focus groups with dairy cattle veterinarians to explore learning about calf welfare.

Dairy calf welfare is a growing interest within the veterinary field. However, a limited understanding of the conception of calf welfare by dairy cattle veterinarians can hinder efforts to promote welfare improvements on farms. The aim of this study was to explore how focus groups can promote learning about dairy calf welfare issues among cattle veterinarians. Focus groups (n = 5), that collectively had 33 participants representing five Canadian provinces and different geographical regions, were conducted as part of a continuing education workshop for Canadian cattle veterinarians. Two trained individuals undertook exploratory data analyses using applied thematic analysis and adult learning theory to develop a codebook of the data and identify the main themes. There were three main themes about learning that emerged from guided peer-discussion: (i) defining a shared concept of animal welfare from the veterinary perspective to diagnose the problem; (ii) understanding the problems of calf welfare by self-examination and group reflection; and (iii) negotiating the best approach to address the problems through sharing of ideas on improving calf welfare, including strategies for addressing welfare problems. In conclusion, focus groups can facilitate animal welfare learning within the veterinary profession.

The Implications of Policies on the Welfare of Free-Roaming Cats in New Zealand.

A lack of national legislation for cat management in New Zealand poses challenges for ensuring that practices are consistently humane and effective. In this paper, we review the current cat management policies in New Zealand and the implications they have on the welfare of free-roaming cats (from here on, referred to as 'cats'). Our review demonstrates that there are multiple policy mechanisms used to manage cats in New Zealand for a variety of reasons, including animal welfare, pest management, and nuisance, and that these different policies have both positive and negative implications for cat welfare. We provide context pertaining to New Zealanders' acceptance of current or future laws and regulations and compare the New Zealand policy landscape with other countries, with a particular emphasis on Australia, to identify potential directions and outcomes of increased regulation. We discuss the future of the regulatory environment in New Zealand, including the need to better understand the impact of policies on cats, people, and other animals in urban, rural, and wild spaces. We further discuss the need to better understand the cat-human relationship for future policy decisions and offer a solution based on national cat legislation.

Dairy farmers' perspectives on providing cow-calf contact in the pasture-based systems of New Zealand.

Separation of the cow and calf shortly after birth is a common practice on commercial dairy farms around the world, but there are emerging concerns about this practice among citizens and other stakeholders. Continuous improvement of on-farm management practices in collaboration with dairy sector stakeholders increases the likelihood that farming systems evolve in a way that is consistent with societal expectations. Few commercial dairy farms provide extended cow-calf contact, and there is little understanding of how dairy farmers view this practice. This study examined the views of New Zealand dairy farmers toward providing cow-calf contact, particularly the barriers to adopting such a system in a seasonal-calving pasture-based dairy system. Standard farm practice in New Zealand is to remove the calf from the cow around 24 h (but could be up to 48 h) after birth. These conventional farmers (n = 63) were randomly selected from the database of all dairy farmers in New Zealand and telephone-interviewed using a semistructured interview format. Their responses to questions about providing cow-calf contact (defined as contact beyond the standard practice of 48 h) were analyzed using thematic analysis. Three major themes of concern were identified by these farmers about providing cow-calf contact as follows: (1) poor animal welfare, especially the risk of mastitis in the dam, inadequate colostrum for the calf, increased stress from delayed separation, and lack of shelter for calves while outdoors with the cow; (2) increased labor and stress on staff; and (3) system-level changes required, including infrastructure and herd management. Many of these concerns stemmed from challenges related to the nature of large-scale seasonal-calving pasture-based dairy systems, where a large number of calves are born in a short period of time and may be exposed to inclement weather in late winter in some areas. Several small-scale farmers (n = 4) providing cow-calf contact for longer than standard practice of 48 h were also interviewed; all permitted contact for at least 4 wk. These farmers also felt that animal welfare and health were important, and that this was promoted in their cow-calf contact systems. Concerns about colostrum and mastitis, for example, were not raised by these farmers, but they did agree that additional infrastructure and shelter were important considerations for cow-calf contact systems. Some conventional farmers expressed cognitive dissonance in that they theoretically preferred cow-calf contact but could not see it being realistic or practical to implement. Farmers currently providing longer cow-calf contact may be a useful resource for better understanding of how practical and economical cow-calf contact systems could be adopted on commercial pastoral dairy farms.

How benchmarking motivates farmers to improve dairy calf management.

Dairy calves often receive inadequate colostrum for successful transfer of passive immunity and inadequate milk to achieve their potential for growth and avoid hunger, but little is known about what motivates farmers to improve calf management around these concerns. Our aim was to assess if and how access to benchmarking reports, providing data on calf performance and peer comparison, would change the ways in which farmers think about calves and their management. During our study, 18 dairy farmers in the lower Fraser Valley (British Columbia, Canada) each received 2 benchmark reports that conveyed information on transfer of immunity and calf growth for their own calves and for other farms in the region. Farmers were interviewed before and after receiving their benchmarking reports to gain an understanding of how they perceived access to information in the reports. We conducted qualitative analysis to identify major themes. Respondents generally saw having access to these data and peer comparisons favorably, in part because the reports provided evidence of how their calves were performing. Benchmarking encouraged farmers to make changes in their calf management by identifying areas needing attention and promoting discussion about best practices. We conclude that some management problems can be addressed by providing farmers better access to data that they can use to judge their success and inform changes.

A Microbiome DNA Enrichment Method for Next-Generation Sequencing Sample Preparation.

"Microbiome" is used to describe the communities of microorganisms and their genes in a particular environment, including communities in association with a eukaryotic host or part of a host. One challenge in microbiome analysis concerns the presence of host DNA in samples. Removal of host DNA before sequencing results in greater sequence depth of the intended microbiome target population. This unit describes a novel method of microbial DNA enrichment in which methylated host DNA such as human genomic DNA is selectively bound and separated from microbial DNA before next-generation sequencing (NGS) library construction. This microbiome enrichment technique yields a higher fraction of microbial sequencing reads and improved read quality resulting in a reduced cost of downstream data generation and analysis. © 2016 by John Wiley & Sons, Inc.

Selective Depletion of Abundant RNAs to Enable Transcriptome Analysis of Low-Input and Highly Degraded Human RNA.

Ribosomal RNAs (rRNAs) are extremely abundant, often constituting 80% to 90% of total RNA. Since rRNA sequences are often not of interest in genomic RNA sequencing experiments, rRNAs can be removed from the sample before the library preparation step, in order to prevent the majority of the library and the majority of sequencing reads from being rRNA. Removal of rRNA can be especially challenging for low quality and formalin-fixed paraffin-embedded (FFPE) RNA samples due to the fragmented nature of these RNA molecules. The NEBNext rRNA Depletion Kit (Human/Mouse/Rat) depletes both cytoplasmic (5 S rRNA, 5.8 S rRNA, 18 S rRNA, and 28 S rRNA) and mitochondrial rRNA (12 S rRNA and 16 S rRNA) from total RNA preparations from human, mouse, and rat samples. Due to the high similarity among mammalian rRNA sequences, it is likely that rRNA depletion can also be achieved for other mammals but has not been empirically tested. This product is compatible with both intact and degraded RNA (e.g., FFPE RNA). The resulting rRNA-depleted RNA is suitable for RNA-seq, random-primed cDNA synthesis, or other downstream RNA analysis applications. Regardless of the quality or amount of input RNA, this method efficiently removes rRNA, while retaining non-coding and other non-poly(A) RNAs. The NEBNext rRNA Depletion Kit thus provides a more complete picture of the transcript repertoire than oligo d(T) poly(A) mRNA enrichment methods. © 2016 by John Wiley & Sons, Inc.