Melanie K. Hess
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View article: 339 PLF-Derived behavioral and physiological traits as indicators of resilience in rangeland sheep.
339 PLF-Derived behavioral and physiological traits as indicators of resilience in rangeland sheep. Open
This study evaluated precision livestock farming (PLF) tools to quantify resilience in rangeland sheep by assessing behavioral and physiological traits in relation to live body weight. We examined trait correlations, differences between ac…
View article: Rumen metagenome profiles are heritable and rank the New Zealand national sheep flock for enteric methane emissions
Rumen metagenome profiles are heritable and rank the New Zealand national sheep flock for enteric methane emissions Open
View article: Milk fatty acids and rumen composition as proxy measures of enteric methane
Milk fatty acids and rumen composition as proxy measures of enteric methane Open
Genomic selection is a powerful tool to reduce methane emissions in ruminants. However, it requires large-scale on-farm phenotypic measures of methane. Current technologies to measure methane emissions have several limitations and may not …
View article: Puberty classifications in beef heifers are moderately to highly heritable and associated with candidate genes related to cyclicity and timing of puberty
Puberty classifications in beef heifers are moderately to highly heritable and associated with candidate genes related to cyclicity and timing of puberty Open
Introduction: Pubertal attainment is critical to reproductive longevity in heifers. Previously, four heifer pubertal classifications were identified according to attainment of blood plasma progesterone concentrations > 1 ng/ml: 1) Early…
View article: Characterization of the Ruminal Microbiome of Water Buffaloes (Bubalus bubalis) Kept in Different Ecosystems in the Eastern Amazon
Characterization of the Ruminal Microbiome of Water Buffaloes (Bubalus bubalis) Kept in Different Ecosystems in the Eastern Amazon Open
Increasing the efficiency of rumen fermentation is one of the main ways to maximize the production of ruminants. It is therefore important to understand the ruminal microbiome, as well as environmental influences on that community. However…
View article: 39 Developing Precision Agriculture Tools to Capture Behavior and Performance in Extensively Managed Sheep
39 Developing Precision Agriculture Tools to Capture Behavior and Performance in Extensively Managed Sheep Open
Rangeland livestock provide a great opportunity to capture resilience traits due to the significant amount of the year spent grazing a resource-limited environment where they are exposed to extreme weather, predators, and varied terrain. C…
View article: 150 Repeatability of Rangeland Behavioral and Social Traits Derived from Gps Collars
150 Repeatability of Rangeland Behavioral and Social Traits Derived from Gps Collars Open
The ability of an individual to cope with stressors in their environment is going to be paramount in the face of climate change. Rangeland livestock experience harsh conditions including heat and/or cold stress, water and feed restrictions…
View article: Large-scale analysis of sheep rumen metagenome profiles captured by reduced representation sequencing reveals individual profiles are influenced by the environment and genetics of the host
Large-scale analysis of sheep rumen metagenome profiles captured by reduced representation sequencing reveals individual profiles are influenced by the environment and genetics of the host Open
View article: Combining host and rumen metagenome profiling for selection in sheep: prediction of methane, feed efficiency, production, and health traits
Combining host and rumen metagenome profiling for selection in sheep: prediction of methane, feed efficiency, production, and health traits Open
View article: Additional file 3 of Large-scale analysis of sheep rumen metagenome profiles captured by reduced representation sequencing reveals individual profiles are influenced by the environment and genetics of the host
Additional file 3 of Large-scale analysis of sheep rumen metagenome profiles captured by reduced representation sequencing reveals individual profiles are influenced by the environment and genetics of the host Open
Additional file 3: Supplemental Table 5: Summary of the biological and systematic effects, including the variance explained by each effect, with cells coloured by effect size. Supplemental Table 6: Detailed parameters and results of F-test…
View article: Additional file 2 of Combining host and rumen metagenome profiling for selection in sheep: prediction of methane, feed efficiency, production, and health traits
Additional file 2 of Combining host and rumen metagenome profiling for selection in sheep: prediction of methane, feed efficiency, production, and health traits Open
Additional file 2: Table S2. Variance components and prediction accuracies for methane-related traits including variance component, accuracy and regression coefficient estimates for the traits related to methane emissions (CH4), methane ra…
View article: Additional file 4 of Large-scale analysis of sheep rumen metagenome profiles captured by reduced representation sequencing reveals individual profiles are influenced by the environment and genetics of the host
Additional file 4 of Large-scale analysis of sheep rumen metagenome profiles captured by reduced representation sequencing reveals individual profiles are influenced by the environment and genetics of the host Open
Additional file 4: Supplemental Table 7: Heritability and repeatability estimates and standard errors for the reference-based approach. Supplemental Table 8: Heritability and repeatability estimates and standard errors for genera from the …
View article: Additional file 1 of Combining host and rumen metagenome profiling for selection in sheep: prediction of methane, feed efficiency, production, and health traits
Additional file 1 of Combining host and rumen metagenome profiling for selection in sheep: prediction of methane, feed efficiency, production, and health traits Open
Additional file 1: Table S1a. Rumen sample information including SRA_number, sample ID, animal ID, flock, year of birth, sample date, diet, age, group, and cohort. Table S1b. Summary of Additional file 1 Table S1a, showing the number of sa…
View article: Additional file 6 of Large-scale analysis of sheep rumen metagenome profiles captured by reduced representation sequencing reveals individual profiles are influenced by the environment and genetics of the host
Additional file 6 of Large-scale analysis of sheep rumen metagenome profiles captured by reduced representation sequencing reveals individual profiles are influenced by the environment and genetics of the host Open
Additional file 6. Supplemental Table 9. The genomic relationship matrix for the New Zealand samples.
View article: Additional file 1 of Large-scale analysis of sheep rumen metagenome profiles captured by reduced representation sequencing reveals individual profiles are influenced by the environment and genetics of the host
Additional file 1 of Large-scale analysis of sheep rumen metagenome profiles captured by reduced representation sequencing reveals individual profiles are influenced by the environment and genetics of the host Open
Additional file 1: Supplemental Table 1. Information for each sample including: SampleID, AnimalID, Flock, Year of Birth (YOB), Sample Date, Diet, Age, Time Off Feed, Feeding, Group, Cohort, Batch, Shelf, Library and Well. Supplemental Tab…
View article: Additional file 4 of Combining host and rumen metagenome profiling for selection in sheep: prediction of methane, feed efficiency, production, and health traits
Additional file 4 of Combining host and rumen metagenome profiling for selection in sheep: prediction of methane, feed efficiency, production, and health traits Open
Additional file 4: Table S4: Proportion of RF profiles (reads) and number of tags attributed to various taxonomies of interest separated by group.
View article: Additional file 3 of Combining host and rumen metagenome profiling for selection in sheep: prediction of methane, feed efficiency, production, and health traits
Additional file 3 of Combining host and rumen metagenome profiling for selection in sheep: prediction of methane, feed efficiency, production, and health traits Open
Additional file 3: Table S3. Variance components and prediction accuracies for selected health and production traits including variance component, accuracy and regression coefficient estimates for the traits of liveweight at 8 months of ag…
View article: Additional file 2 of Large-scale analysis of sheep rumen metagenome profiles captured by reduced representation sequencing reveals individual profiles are influenced by the environment and genetics of the host
Additional file 2 of Large-scale analysis of sheep rumen metagenome profiles captured by reduced representation sequencing reveals individual profiles are influenced by the environment and genetics of the host Open
Additional file 2. Supplemental Table 4. Sequencing statistics for all samples split by Group.
View article: Combining host and rumen metagenome profiling for selection in sheep: prediction of methane, feed efficiency, production, and health traits
Combining host and rumen metagenome profiling for selection in sheep: prediction of methane, feed efficiency, production, and health traits Open
Background Rumen microbes break down complex dietary carbohydrates into energy sources for the host and are increasingly shown to be a key aspect of animal performance. Host genotypes can be combined with microbial DNA sequencing to predic…
View article: Large-scale analysis of sheep rumen metagenome profiles captured by reduced representation sequencing reveals individual profiles are influenced by the environment and genetics of the host
Large-scale analysis of sheep rumen metagenome profiles captured by reduced representation sequencing reveals individual profiles are influenced by the environment and genetics of the host Open
Background Producing animal protein while reducing the animal’s impact on the environment, e.g., through improved feed efficiency and lowered methane emissions, has gained interest in recent years. Genetic selection is one possible path to…
View article: Low-cost sample preservation methods for high-throughput processing of rumen microbiomes
Low-cost sample preservation methods for high-throughput processing of rumen microbiomes Open
View article: Low-cost sample preservation methods for high-throughput processing of rumen microbiomes
Low-cost sample preservation methods for high-throughput processing of rumen microbiomes Open
Background The use of rumen microbial community (RMC) profiles to predict methane emissions has driven interest in ruminal DNA preservation and extraction protocols that can be processed cheaply while also maintaining or improving DNA qual…
View article: Additional file 1 of Low-cost sample preservation methods for high-throughput processing of rumen microbiomes
Additional file 1 of Low-cost sample preservation methods for high-throughput processing of rumen microbiomes Open
Additional file1. Supplementary tables and figures. Table S1. Dry matter (DM) of the GRC method samples using the freeze dryer. Table S2. DNA yield and DNA quality for rumen samples preserved using the GRC method, TNx2, GHx2 and EtOH. Tabl…
View article: Additional file 4 of Low-cost sample preservation methods for high-throughput processing of rumen microbiomes
Additional file 4 of Low-cost sample preservation methods for high-throughput processing of rumen microbiomes Open
Additional file4. Supplementary Code. R code used to produce the analysis.
View article: Additional file 2 of Low-cost sample preservation methods for high-throughput processing of rumen microbiomes
Additional file 2 of Low-cost sample preservation methods for high-throughput processing of rumen microbiomes Open
Additional file2. Supplementary data. Data S1. Sample and library information of 1208 samples preserved using the four preservation methods and 32 positive controls sequenced using RE-RRS. Data S2. Number of reads generated from RE-RRS for…
View article: Inherent population structure determines the importance of filtering parameters for reduced representation sequencing analyses
Inherent population structure determines the importance of filtering parameters for reduced representation sequencing analyses Open
As technological advancements enhance our ability to study population genetics, we must understand how the intrinsic properties of our datasets influence the decisions we make when designing experiments. Filtering parameter thresholds, suc…
View article: Breeding Low Emitting Ruminants: Predicting Methane from Microbes
Breeding Low Emitting Ruminants: Predicting Methane from Microbes Open
The greatest source of global anthropogenic methane (CH4) emissions is from ruminant livestock. Multiple mitigation strategies in livestock are currently being explored. Of these breeding for lower CH4 emitting rumina…
View article: A restriction enzyme reduced representation sequencing approach for low-cost, high-throughput metagenome profiling
A restriction enzyme reduced representation sequencing approach for low-cost, high-throughput metagenome profiling Open
Microbial community profiles have been associated with a variety of traits, including methane emissions in livestock. These profiles can be difficult and expensive to obtain for thousands of samples (e.g. for accurate association of microb…
View article: A restriction enzyme reduced representation sequencing approach for low-cost, high-throughput metagenome profiling
A restriction enzyme reduced representation sequencing approach for low-cost, high-throughput metagenome profiling Open
Microbial community profiles have been associated with a variety of traits, including methane emissions in livestock, however, these profiles can be difficult and expensive to obtain for thousands of samples. The objective of this work was…
View article: Identification of factors associated with virus level in tonsils of pigs experimentally infected with porcine reproductive and respiratory syndrome virus1
Identification of factors associated with virus level in tonsils of pigs experimentally infected with porcine reproductive and respiratory syndrome virus1 Open
Porcine reproductive and respiratory syndrome (PRRS) is one of the most important global swine diseases from both an economic and animal welfare standpoint. PRRS has plagued the US swine industry for over 25 yr, and containment of PRRS vir…