Although the quantitative trait locus (QTL) on chromosome 18 (BTA18) associated with paternal calving ease and stillbirth in Holstein Friesian cattle and its cross has been known for over 20 years, to our knowledge, the exact causal genetic sequence has yet escaped identification. The aim of this study was to re-examine the region of the published QTL on BTA18 and to investigate the possible reasons behind this elusiveness. For this purpose, we carried out a combined linkage disequilibrium and linkage analysis using genotyping data of 2,697 German Holstein Friesian (HF) animals and subsequent whole-genome sequencing (WGS) data analyses and genome assembly of HF samples. We confirmed the known QTL in the 95% confidence interval of 1.089 Mbp between 58.34 and 59.43 Mbp on BTA18. Additionally, these 4 SNPs in the near-perfect linkage disequilibrium with the QTL haplotype were identified: rs381577268 (on 57,816,137 bp, C/T), rs381878735 (on 59,574,329 bp, A/T), rs464221818 (on 59,329,176 bp, C/T), and rs472502785 (on 59,345,689 bp, T/C). Search for the causal mutation using short and long-read sequences, and methylation data of the BTA18 QTL region did not reveal any candidates though. The assembly showed problems in the region, as well as an abundance of segmental duplications within and around the region. Taking the QTL of BTA18 in Holstein cattle as an example, the data presented in this study comprehensively characterize the genomic features that could also be relevant for other such elusive QTL in various other cattle breeds and livestock species as well.
Download full-text PDF |
Source |
|---|---|
| http://dx.doi.org/10.3168/jds.2021-21625 | DOI Listing |
Publication Analysis
Top Keywords
Similar Publications
Identification of quantitative trait loci for in vitro plant regeneration from leaf microexplants in cucumber (Cucumis sativus L.).
J Appl Genet
December 2024
Department of Plant Genetics Breeding and Biotechnology, Institute of Biology, Warsaw University of Life Sciences, SGGW, Warsaw, Poland.
Plant regeneration in tissue cultures is crucial for the application of biotechnological methods to plant breeding. However, the genetic basis of in vitro plant regeneration is not fully understood. For cucumber, regeneration protocols from different types of explants have been reported, but thus far, the molecular basis of regeneration from cotyledon explants has only been studied.
View Article and Find Full Text PDFCharacterization of genetic diversity and identification of genetic loci associated with carbon allocation in N fixing soybean.
BMC Genomics
December 2024
Division of Plant Science and Technology, University of Missouri, Columbia, MO, USA.
Background: Efficient capture and use of resources is critical for optimal plant growth and productivity. Both shoot and root growth are essential for resource acquisition, namely light and CO by the shoot and water and mineral nutrients by roots. Soybean [Glycine max (L.
View Article and Find Full Text PDFIdentifying priority conservation areas for threatened amphibian habitats in the Yangtze river Delta region to maintain regional biodiversity.
J Environ Manage
December 2024
School of Geography and Ocean Science, Nanjing University, Xianlin Ave.163, 210023, Nanjing, China.
The complex life cycle traits of amphibians make them especially sensitive to environmental change, and their ongoing conservation requires the maintenance of suitable habitat that accounts for such life cycle characteristics which may impacted by local environmental dynamics arising from climate change and human disturbance. Many existing studies on amphibian habitats disregard this important issue, leading to uncertainty in managing critical habitats. The application of appropriate conservation practices is therefore constrained by the fact that the major factors influencing amphibian habitats, and their spatio-temporal dynamics at different life stages, are poorly understood.
View Article and Find Full Text PDFSingle- and multi-locus genome-wide association study reveals genomic regions of thirteen yield-related traits in common wheat.
BMC Plant Biol
December 2024
College of Agronomy, Anhui Agricultural University, Key Laboratory of Wheat Biology and Genetic Improvement On Southern Yellow & Huai River Valley, Ministry of Agriculture, Hefei, 230036, Anhui, China.
Genetic dissection of yield-related traits can be used to improve wheat yield through molecular design breeding. In this study, we genotyped 245 wheat varieties and measured 13 yield-related plant height-, grain-, and spike-related traits, in seven environments, and identified 778 loci for these traits by genome-wide association study (GWAS) using single- and multi-locus models. Among these loci, nine were major, of which seven were novel, including Qph/lph.
View Article and Find Full Text PDFTrait responsiveness to verbal suggestions predicts nocebo responding: A meta-analysis.
Br J Health Psychol
February 2025
Department of Psychology, Institute of Psychology, Psychiatry, and Neuroscience, King's College London, London, UK.
Background: Nocebo responding involves the experience of adverse health outcomes in response to contextual cues. These deleterious responses impact numerous features of mental and physical health but are characterized by pronounced heterogeneity. Suggestion is widely recognized as a contributing factor to nocebo responding but the moderating role of trait responsiveness to verbal suggestions (suggestibility) in nocebo responding remains poorly understood.
View Article and Find Full Text PDFWant AI Summaries of new PubMed Abstracts delivered to your In-box?
Enter search terms and have AI summaries delivered each week - change queries or unsubscribe any time!