Heritability estimates and genome-wide association study of methane emission traits in Nellore cattle.

The objectives of the present study were to estimate the heritability for daily methane emission (CH4) and residual daily methane emission (CH4res) in Nellore cattle, as well as to perform genome-wide association studies (GWAS) to identify genomic regions and candidate genes influencing the genetic variation of CH4 and CH4res. Methane emission phenotypes of 743 Nellore animals belonging to three breeding programs were evaluated. CH4 was measured using the sulfur hexafluoride (SF6) tracer technique (which involves an SF6 permeation tube introduced into the rumen, and an appropriate apparatus on each animal), and CH4res was obtained as the difference between observed CH4 and CH4 adjusted for dry matter intake. A total of 6,252 genotyped individuals were used for genomic analyses. Data were analyzed with a univariate animal model by the single-step GBLUP method using the average information restricted maximum likelihood (AIREML) algorithm. The effects of single nucleotide polymorphisms (SNPs) were obtained using a single-step GWAS approach. Candidate genes were identified based on genomic windows associated with quantitative trait loci (QTLs) related to the two traits. Annotation of QTLs and identification of candidate genes were based on the initial and final coordinates of each genomic window considering the bovine genome ARS-UCD1.2 assembly. Heritability estimates were of moderate to high magnitude, being 0.42 ± 0.09 for CH4 and 0.21 ± 0.09 for CH4res, indicating that these traits will respond rapidly to genetic selection. GWAS revealed 11 and 15 SNPs that were significantly associated (P < 10-6) with genetic variation of CH4 and CH4res, respectively. QTLs associated with feed efficiency, residual feed intake, body weight and height overlapped with significant markers for the traits evaluated. Ten candidate genes were present in the regions of significant SNPs; three were associated with CH4 and seven with CH4res. The identified genes are related to different functions such as modulation of the rumen microbiota, fatty acid production, and lipid metabolism. CH4 and CH4res presented sufficient genetic variation and may respond rapidly to selection. Therefore, these traits can be included in animal breeding programs aimed at reducing enteric methane emissions across generations.

Phenotypic association among performance, feed efficiency and methane emission traits in Nellore cattle.

Enteric methane (CH4) emissions are a natural process in ruminants and can result in up to 12% of energy losses. Hence, decreasing enteric CH4 production constitutes an important step towards improving the feed efficiency of Brazilian cattle herds. The aim of this study was to evaluate the relationship between performance, residual feed intake (RFI), and enteric CH4 emission in growing Nellore cattle (Bos indicus). Performance, RFI and CH4 emission data were obtained from 489 animals participating in selection programs (mid-test age and body weight: 414±159 days and 356±135 kg, respectively) that were evaluated in 12 performance tests carried out in individual pens (n = 95) or collective paddocks (n = 394) equipped with electronic feed bunks. The sulfur hexafluoride tracer gas technique was used to measure daily CH4 emissions. The following variables were estimated: CH4 emission rate (g/day), residual methane emission and emission expressed per mid-test body weight, metabolic body weight, dry matter intake (CH4/DMI), average daily gain, and ingested gross energy (CH4/GE). Animals classified as negative RFI (RFI<0), i.e., more efficient animals, consumed less dry matter (P <0.0001) and emitted less g CH4/day (P = 0.0022) than positive RFI animals (RFI>0). Nonetheless, more efficient animals emitted more CH4/DMI and CH4/GE (P < 0.0001), suggesting that the difference in daily intake between animals is a determinant factor for the difference in daily enteric CH4 emissions. In addition, animals classified as negative RFI emitted less CH4 per kg mid-test weight and metabolic weight (P = 0.0096 and P = 0.0033, respectively), i.e., most efficient animals could emit less CH4 per kg of carcass. In conclusion, more efficient animals produced less methane when expressed as g/day and per kg mid-test weight than less efficient animals, suggesting lower emissions per kg of carcass produced. However, it is not possible to state that feed efficiency has a direct effect on enteric CH4 emissions since emissions per kg of consumed dry matter and the percentage of gross energy lost as CH4 are higher for more efficient animals.

Residual feed intake of Nellore calves is not repeatable across pre and post weaning periods / Consumo alimentar residual de bezerros Nelore na pré e pós-desmama tem baixa repetibilidade

ABSTRACT: This study measured milk and solid feed intake in pre- weaning period and feed intake in postweaning period of Nellore calves, and to correlated them with performance traits and ingestive behavior of animals classified as most and least efficient. During pre weaning phase, feed efficiency was evaluated in 51 cow-calf pairs from 21±5 days after calving until weaning. During post-weaning phase, only male calves (n=23) were evaluated. Pre-weaning milk intake of calves was estimated based on cow's milk production. Pre-weaning daily metabolizable energy intake (MEI) of calves was estimated as the sum of MEI from milk and solid diet. There was no difference in ADG between calves with negative and positive pre RFI, with a consequent better feed conversion to more efficient calves. The most efficient calves spent less time at the feed bunk, with a shorter feeding duration and higher rate of intake, compared to the least efficient animals. Correlations between feed intake and metabolic body weight of the animals during pre- and postweaning phases were positive, of medium to high magnitude, and significant, while correlation between ADG values was close to zero. Results suggested that part of the animals ranked based on pre weaning feed intake won't maintain their rank during postweaning phase. In conclusion, calves classified as most efficient during pre-weaning phase have similar weight gain but lower milk intake and MEI than least efficient animals. The estimated pre RFI is weakly correlated with post RFI, showing that RFI is not consistent or repeatable across two periods.

RESUMO: Este estudo teve como objetivo mensurar o consumo de leite e sólidos no período pré-desmama e o consumo alimentar no período pós-desmama, e relacioná-los com características de desempenho e comportamento ingestivo de animais classificados como mais eficientes e menos eficientes. Na fase pré-desmama foram avaliados 51 pares vaca-bezerro da raça Nelore quanto à eficiência alimentar dos 21±5 dias após o parto até a desmama. Na fase pós-desmama, apenas os bezerros machos (n=23) foram avaliados. O consumo de leite dos bezerros na pré-desmama foi estimado pela produção de leite das vacas. O consumo diário de energia metabolizável do bezerro na pré-desmama (CEM), foi estimado pela soma do consumo de energia metabolizável do leite e do consumo diário de energia metabolizável da dieta. Bezerros CARpre negativo não diferiram dos bezerros CARpre positivo quanto ao GMD, resultando em melhor CA dos bezerros mais eficientes. Bezerros mais eficientes ficaram menos tempo no cocho, com menor duração da refeição e com maior taxa de alimentação comparativamente aos animais menos eficientes. As correlações entre o consumo alimentar e peso corporal metabólico dos animais na pré e pós-desmama foram positivas, de média a alta magnitudes e significativas, enquanto que a correlação entre ganho médio diário foi próxima de zero. Os resultados sugerem que parte dos animais classificados pelo consumo alimentar na pré-desmama manterão a classificação na pós-desmama. Na fase pré-desmama bezerros classificados como mais eficientes tem ganho de peso similar, porém com menor consumo de leite e consumo de energia metabolizável do que bezerros menos eficientes. A estimativa do consumo alimentar residual na fase pré-desmama é fracamente relacionada à estimativa do consumo alimentar residual na fase pós-desmama, mostrando que o consumo alimentar residual não é consistente e repetível nos dois períodos.

Genetic association among feeding behavior, feed efficiency, and growth traits in growing indicine cattle.

This study aimed to estimate genetic parameters, including genomic data, for feeding behavior, feed efficiency, and growth traits in Nellore cattle. The following feeding behavior traits were studied (861 animals with records): time spent at the feed bunk (TF), duration of one feeding event (FD), frequency of visits to the bunk (FF), feeding rate (FR), and dry matter intake (DMI) per visit (DMIv). The feed efficiency traits (1,543 animals with records) included residual feed intake (RFI), residual weight gain (RWG), and feed conversion (FC). The growth traits studied were average daily gain (ADG, n = 1,543 animals) and selection (postweaning) weight (WSel, n = 9,549 animals). The (co)variance components were estimated by the maximum restricted likelihood method, fitting animal models that did (single-step genomic best linear unbiased prediction) or did not include (best linear unbiased prediction) genomic information in two-trait analyses. The direct responses to selection were calculated for the feed efficiency traits, ADG, and WSel, as well as the correlated responses in feed efficiency and growth by direct selection for shorter TF. The estimated heritabilities were 0.51 ± 0.06, 0.35 ± 0.06, 0.27 ± 0.07, 0.34 ± 0.06, and 0.33 ± 0.06 for TF, FD, FF, FR, and DMIv, respectively. In general, TF and FD showed positive genetic correlations with all feed efficiency traits (RFI, RWG, and FC), ADG, DMI, and WSel. Additionally, TF showed high and positive genetic and phenotypic correlations with RFI (0.71 ± 0.10 and 0.46 ± 0.02, respectively) and DMI (0.56 ± 0.09 and 0.48 ± 0.03), and medium to weak genetic correlations with growth (0.32 ± 0.11 with ADG and 0.14 ± 0.09 with WSel). The results suggest that TF is a strong indicator trait of feed efficiency, which exhibits high heritability and a weak positive genetic correlation with growth. In a context of a selection index, the inclusion of TF to select animals for shorter TF may accelerate the genetic gain in feed efficiency by reducing RFI but with zero or slightly negative genetic gain in growth traits.

Evaluation of test duration for feed efficiency in growing beef cattle.

The aim of this study was to determine the shortest test duration necessary for the evaluation of feed efficiency traits, i.e., dry matter intake (DMI), average daily gain (ADG), mid-test metabolic body weight, residual feed intake (RFI), feed conversion ratio (DMI/ADG), and feed conversion efficiency (ADG/DMI). A total of 313 Nellore bulls with an initial age of 283 ± 23.6 days were evaluated by automated feed intake measurement. The tests were divided into six durations (15, 29, 43, 57, 71, and 84 days), with at least one body weight recording at the beginning and one at the end of each period. Residual variances were estimated per period and correlation coefficients (Pearson and Spearman) were calculated between the 5 test durations and the 84-day test. The results indicated a minimum test duration of 15 days (two weight recordings without fasting) for the measurement of mid-test metabolic body weight, a minimum of 43 days for automated DMI measurement, and a minimum of 71 days for the determination of ADG, RFI, feed conversion ratio, and feed conversion efficiency. Individual analysis of the DMI records obtained with the GrowSafe® and Intergado® automated feeders showed that a test duration of 57 days is sufficient for measurement of this trait. We therefore recommend a test duration of 71 days after a minimum adaptation period of 21 days for the determination of feed efficiency in growing Nellore cattle, with weight recordings without fasting every 15 days.