Genome-wide single nucleotide polymorphism (SNP) data reveal potential candidate genes for litter traits in a Yorkshire pig population
-
Published:2023-11-23
Issue:4
Volume:66
Page:357-368
-
ISSN:2363-9822
-
Container-title:Archives Animal Breeding
-
language:en
-
Short-container-title:Arch. Anim. Breed.
Author:
Zhang Yu,Lai Jinhua,Wang Xiaoyi,Li Mingli,Zhang Yanlin,Ji Chunlv,Chen Qiang,Lu Shaoxiong
Abstract
Abstract. The litter trait is one of the most important economic traits, and increasing litter size is of great economic value in the pig industry. However, the molecular mechanisms underlying pig litter traits remain elusive. To identify molecular markers and candidate genes for pig litter traits, a genome-wide association study (GWAS) and selection signature analysis were conducted in a Yorkshire pig population. A total of 518 producing sows were genotyped with Illumina Porcine SNP 50 BeadChip, and 1969 farrowing records for the total number born (TNB), the number born alive (NBA), piglets born dead (PBD), and litter weight born alive (LWB) were collected. Then, a GWAS was performed for the four litter traits using a repeatability model. Based on the estimated breeding values (EBVs) of TNB, 15 high- and 15 low-prolificacy individuals were selected from the 518 sows to implement selection signature analysis. Subsequently, the selection signatures affecting the litter traits of sows were detected by using two methods including the fixation index (FST) and θπ. Combining the results of the GWAS and selection signature analysis, 20 promising candidate genes (NKAIN2, IGF1R, KISS1R, TYRO3, SPINT1, ADGRF5, APC2, PTBP1, CLCN3, CBR4, HPF1, FAM174A, SCP2, CLIC1, ZFYVE9, SPATA33, KIF5C, EPC2, GABRA2, and GABRA4) were identified. These findings provide novel insights into the genetic basis of pig litter traits and will be helpful for improving the reproductive performances of sows in pig breeding.
Funder
Major Science and Technology Projects in Yunnan Province
Publisher
Copernicus GmbH
Reference68 articles.
1. Almuriekhi, M., Shintani, T., Fahiminiya, S., Fujikawa, A., Kuboyama, K., Takeuchi, Y., Nawaz, Z., Nadaf, J., Kamel, H., Kitam, A. K., Samiha, Z., Mahmoud, L., Ben-Omran, T., Majewski, J., and Noda, M.: Loss-of-function mutation in APC2 causes sotos syndrome features, Cell Rep., 10, 1585–1598, https://doi.org/10.1016/j.celrep.2015.02.011, 2015. 2. Averaimo, S., Milton, R. H., Duchen, M. R., and Mazzanti, M.: Chloride intracellular channel 1 (CLIC1): Sensor and effector during oxidative stress, FEBS Lett., 584, 2076–2084, https://doi.org/10.1016/j.febslet.2010.02.073, 2010. 3. Basini, G., Grasselli, F., Bussolati, S., Ciccimarra, R., Maranesi, M., Bufalari, A., Parillo, F., and Zerani, M.: Presence and function of kisspeptin/KISS1R system in swine ovarian follicles, Theriogenology, 115, 1–8, https://doi.org/10.1016/j.theriogenology.2018.04.006, 2018. 4. Beharier, O., Kajiwara, K., and Sadovsky, Y.: Ferroptosis, trophoblast lipotoxic damage, and adverse pregnancy outcome, Placenta, 108, 32–38, https://doi.org/10.1016/j.placenta.2021.03.007, 2021. 5. Bilokapic, S., Suskiewicz, M. J., Ahel, I., and Halic, M.: Bridging of DNA breaks activates PARP2-HPF1 to modify chromatin, Nature, 585, 609–613, https://doi.org/10.1038/s41586-020-2725-7, 2020.
Cited by
1 articles.
订阅此论文施引文献
订阅此论文施引文献,注册后可以免费订阅5篇论文的施引文献,订阅后可以查看论文全部施引文献
|
|