Dataset Information

Analysis of Cow-Calf Microbiome Transfer Routes and Microbiome Diversity in the Newborn Holstein Dairy Calf Hindgut

ABSTRACT: Hindgut microorganisms in newborn calves play an important role in the development of immunity and metabolism, and optimization of performance. However, knowledge of the extent to which microbiome colonization of the calf intestine is dependent on maternal characteristics is limited. In this study, placenta, umbilical cord, amniotic fluid, colostrum, cow feces, and calf meconium samples were collected from 6 Holstein cow-calf pairs. Microbial composition was analyzed by 16S rRNA gene high-throughput sequencing, and maternal transfer characteristics assessed using SourceTracker based on Gibbs sampling to fit the joint distribution using the mean proportions of each sample with meconium as the “sink” and other sample types as different “sources.” Alpha and beta diversity analyses revealed sample type-specific microbiome features: microbial composition of the placenta, umbilical cord, amniotic fluid, colostrum, and calf feces were similar, but differed from cow feces (p < 0.05). Compared with profiles of meconium vs. placenta, meconium vs. umbilical cord, and meconium vs. colostrum, differences between the meconium and amniotic fluid were most obvious. SourceTracker analysis revealed that 23.8 ± 2.21% of the meconium OTUs matched those of umbilical cord samples, followed by the meconium-placenta pair (15.57 ± 2.2%), meconium-colostrum pair (14.4 ± 1.9%), and meconium-amniotic fluid pair (11.2 ± 1.7%). The matching ratio between meconium and cow feces was the smallest (10.5 ± 1%). Overall, our data indicated that the composition of the meconium microflora was similar compared with multiple maternal sites including umbilical cord, placenta, colostrum, and amniotic fluid. The umbilical cord microflora seemed to contribute the most to colonization of the fecal microflora of calves. Bacteria with digestive functions such as cellulose decomposition and rumen fermentation were mainly transmitted during the maternal transfer process.

SUBMITTER: Zhu H

PROVIDER: S-EPMC8573054 | biostudies-literature |

REPOSITORIES: biostudies-literature

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Project description:BACKGROUND:On-farm mortality (unassisted death and euthanasia) is the unwanted loss of animals, and it comes with negative economic consequences. On-farm mortality rates reflect a herd's animal welfare status. The objective of this historical longitudinal single cohort study was to identify the associations between herd characteristics, animal housing conditions and management routines and within-herd calf and cow mortality rates in participating Estonian dairy herds. All farmers enrolled in the voluntary production recording system with a herd size of 20 or greater cow-years in 2015-2017 were contacted by mail or telephone between October 2017 and March 2018. The survey included questions about management routines and housing conditions of calves up to 3 months of age and of cows. In total, 214 completed questionnaires were returned, corresponding to a 63.3% response rate. The within-herd mortality rate of calves (aged 21-90 days) and cows (cattle over 24 months of age) in years 2017-2018 were calculated and used as outcome variables. Negative binomial and linear regression models were applied for risk factor analysis in calf and cow datasets, respectively. RESULTS:The median within-herd mortality rate for calves aged 21 to 90 days was 0.15 per 100 calf-months (quartiles 0.00; 0.36). The median within-herd mortality rate for cattle over 24 months of age was 4.57 per 100 cow-years (quartiles 2.44; 6.86). Factors significantly associated with increased mortality of calves were larger herd size, higher proportion of stillbirths and abortions in a herd, prophylactic administration of vitamins to all calves and housing pre-weaned calves in single pens only compared with housing in both single and group pens. Also, farmers who attended more frequent trainings had higher calf mortality rates. Calving in a group pen or in a tie-stall compared with calving in multiple systems was associated with higher calf mortality rates. Higher cow mortality rates were present in herds that had a higher proportion of stillbirths and on farms where employees handled cows. Housing cows in free-stall barns, grazing cows and more frequent hoof trimming were protective for cow on-farm mortality. CONCLUSIONS:This study identified the importance of housing conditions for on-farm cow and calf mortality rates. Our study results suggest that providing good care might ensure better health and welfare of dairy cows and calves.

Project description:A study of herd-level risk factors for calf mortality in large Swedish dairy herds showed low serum concentrations of α-tocopherol and β-carotene in 1-7 day old calves to be more common in high mortality herds. Therefore, we aimed to investigate if calf mortality risk at herd level is associated with concentrations of α-tocopherol and/or β-carotene at individual level in feed, colostrum, cow and calf serum, while controlling for herd level covariates. Inclusion criteria were affiliation to the Swedish official milk recording scheme, herd size of ≥ 120 milking cows/year, calf mortality risk (day 1-90) of at least 6% (high mortality; HM) or less than 1% (low mortality; LM) and located within one of two regions in southern Sweden. This cross-sectional study was performed in 2010 in 19 (nHM = 9; nLM = 10) dairy herds. Questionnaires were used to collect information about feed and routines for colostrum feeding. Feed (n = 57), colostrum (n = 162), cow serum (n = 189) and calf serum samples (n = 187) were collected and analysed for α-tocopherol and β-carotene. Other analyses e.g. total serum protein, fat content, and total solids in colostrum were also performed. Linear regression models with vitamin concentrations in feed, colostrum, cow and calf serum as outcome were performed.Calves in HM herds had lower concentrations of α-tocopherol in serum than calves in LM herds, but the effect depended on total protein status in serum of the calf (P = 0.036). Calves from herds that fed transition milk for 3 days or more had higher α-tocopherol concentrations in serum than calves from herds feeding transition milk up to 2 days (P = 0.013). Fat percentage in colostrum was positively associated with α-tocopherol (P < 0.001) and β-carotene concentrations in colostrum (P < 0.001). A diet containing ≥ 20% (in kg dry matter) maize silage of the total ration was negatively associated with β-carotene concentration in cow serum (P = 0.001).High calf mortality risks were associated with lower concentrations of α-tocopherol in calf serum for calves with failure of passive transfer. Feeding transition milk longer was associated with higher concentrations of α-tocopherol in calf serum. In HM herds, evaluation of the calves' α-tocopherol status is recommended.

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Analysis of Cow-Calf Microbiome Transfer Routes and Microbiome Diversity in the Newborn Holstein Dairy Calf Hindgut

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