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      Combined purebred and crossbred genetic evaluation of Columbia, Suffolk, and crossbred lamb birth and weaning weights: systematic effects and heterogeneous variances

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          Abstract

          Despite the benefits of crossbreeding on animal performance, genetic evaluation of sheep in the U.S. does not directly incorporate records from crossbred lambs. Crossbred animals may be raised in different environments as compared to purebreds. Systemic factors such as age of dam and birth and rearing type may, therefore, affect purebred and crossbred performance differently. Furthermore, crossbred performance may benefit from heterozygosity, and genetic and environmental variances may be heterogeneous in different breeds and their crosses. Such issues must be accounted for in a combined (purebred and crossbred) genetic evaluation. The objectives of this study were to i) determine the effect of dam age and birth type on birth weight, and dam age and birth-rearing type on weaning weight, in purebred and crossbred lambs, ii) test for heterogeneous genetic and environmental variances in those weights, and iii) assess the impact of including weights on crossbred progeny on sire estimated breeding values ( EBV). Performance records were available on purebred Columbia and Suffolk lambs. Crossbred information was available on lambs sired by Suffolk, Columbia or Texel rams mated to Columbia, Suffolk, or crossbred ewes. A multiple-trait animal model was fitted in which weights from Columbia, Suffolk, or crossbred lambs were considered different traits. At birth, there were 4,160, 2,356, and 5,273 Columbia, Suffolk, and crossbred records, respectively, with means (SD) of 5.14 (1.04), 5.32 (1.14), and 5.43 (1.23) kg, respectively. At weaning, on average at 122 (12) d, there were 2,557, 980, and 3,876 Columbia, Suffolk, and crossbred records, respectively, with corresponding means of 39.8 (7.2), 40.3 (7.9), and 39.6 (8.0) kg. Dam age had a large positive effect on birth and weaning weight in pure and crossbred lambs. At birth, however, the predicted effect was larger in crossbred and Suffolk lambs. While an increase in a number of lambs born and reared had a strong and negative influence on birth and weaning weight, the size of the effect did not differ across-breed types. Environmental variances were similar at birth and weaning, but additive variances differed among breed types for both weights. Combining purebred and crossbred information in the evaluation not only improved predictions of genetic merit in purebred sires but also allowed for direct comparisons of sires of different breeds. Breeders thus can benefit from an additional tool for making selection decisions.

          Abstract

          Dam age, and birth type or birth and rearing type, affected the weights of purebred lambs and their crosses differently. Estimates of these systematic effects, along with estimates of direct and maternal heterosis, can be used to adjust birth and weaning weights in purebred and crossbred lambs to allow their direct comparison in an across-breed genetic evaluation.

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          R: A language and environment for statistical computing

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            Accounting for Inbreeding and Crossbreeding in Genetic Evaluation of Large Populations

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              Stage-independent, single lead EEG sleep spindle detection using the continuous wavelet transform and local weighted smoothing

              Sleep spindles are critical in characterizing sleep and have been associated with cognitive function and pathophysiological assessment. Typically, their detection relies on the subjective and time-consuming visual examination of electroencephalogram (EEG) signal(s) by experts, and has led to large inter-rater variability as a result of poor definition of sleep spindle characteristics. Hitherto, many algorithmic spindle detectors inherently make signal stationarity assumptions (e.g., Fourier transform-based approaches) which are inappropriate for EEG signals, and frequently rely on additional information which may not be readily available in many practical settings (e.g., more than one EEG channels, or prior hypnogram assessment). This study proposes a novel signal processing methodology relying solely on a single EEG channel, and provides objective, accurate means toward probabilistically assessing the presence of sleep spindles in EEG signals. We use the intuitively appealing continuous wavelet transform (CWT) with a Morlet basis function, identifying regions of interest where the power of the CWT coefficients corresponding to the frequencies of spindles (11–16 Hz) is large. The potential for assessing the signal segment as a spindle is refined using local weighted smoothing techniques. We evaluate our findings on two databases: the MASS database comprising 19 healthy controls and the DREAMS sleep spindle database comprising eight participants diagnosed with various sleep pathologies. We demonstrate that we can replicate the experts' sleep spindles assessment accurately in both databases (MASS database: sensitivity: 84%, specificity: 90%, false discovery rate 83%, DREAMS database: sensitivity: 76%, specificity: 92%, false discovery rate: 67%), outperforming six competing automatic sleep spindle detection algorithms in terms of correctly replicating the experts' assessment of detected spindles.
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                Author and article information

                Contributors
                Journal
                J Anim Sci
                J Anim Sci
                jansci
                Journal of Animal Science
                Oxford University Press (US )
                0021-8812
                1525-3163
                2024
                12 December 2023
                12 December 2023
                : 102
                : skad410
                Affiliations
                Department of Animal Science, University of Nebraska–Lincoln , Lincoln, NE 68583, USA
                School of Animal Sciences, Virginia Tech , Blacksburg, VA 24061, USA
                USDA, ARS, Range Sheep Production Efficiency Research Unit, U.S. Sheep Experiment Station , Dubois, ID 83423, USA
                AGBU, a joint venture of NSW Department of Primary Industries and University of New England , 2351 Armidale, Australia
                USDA-ARS Animal Disease Research Unit, Washington State University , Pullman, WA 99164, USA
                Department of Animal Science, University of Nebraska–Lincoln , Lincoln, NE 68583, USA
                Author notes

                Napoleón Vargas Jurado Present address: Natural Resources Institute Finland (Luke), Jokioinen FI-31600, Finland

                Corresponding author: napoleon.vargas@ 123456luke.fi
                Author information
                https://orcid.org/0000-0001-8645-3753
                Article
                skad410
                10.1093/jas/skad410
                10808014
                38085934
                e18e3ffb-c942-44fa-8c96-763ac81a03d7
                © The Author(s) 2023. Published by Oxford University Press on behalf of the American Society of Animal Science.

                This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

                History
                : 23 August 2023
                : 11 December 2023
                : 24 January 2024
                Page count
                Pages: 14
                Categories
                Animal Genetics and Genomics
                AcademicSubjects/SCI00960

                crossbreeding,multiple-trait evaluation,systematic effects,validation

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