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| Analysis of Casein Derived Circular RNA Expression Profile During Response to Heat Stress |
| QI Ying, XIE Chun-Yan, XING Jing, LI Qiu-Ling* |
| College of Life Sciences, Langfang Normal University/Hebei Key Laboratory of Animal Diversity/Langfang Key Laboratory of Cell Engineering and Application, Langfang 065000, China |
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Abstract Heat stress leads to casein reduction in milk which adversely affects milk quality. The study was aimed to identify the casein derived circular RNA (circRNA) involved in heat stress response and to provide new insight for further elucidation of the molecular mechanism of heat stress. In the previous study of this research group, we obtained the genome wide circRNA expression data of mammary gland of cows (Bos taurus) by RNA-seq. Four circRNAs were randomly selected and the back splice junction sites were confirmed by Sanger sequencing. The relative expression level of circRNAs were verified by quantitative real-time PCR, and the results were consistent with that of RNA sequencing. The casein coding genes include casein alpha s1 (CSN1S1), CSN1S2, casein beta (CSN2) and casein kappa (CSN3). The host genes of circRNAs were analyzed and casein derived circRNAs were identified. Moreover, the expression patterns of these circRNAs in different samples and groups were shown by clustering heat map and Venn diagram. Finally, the relative expression level of casein derived circRNAs were analyzed according to the transcripts per million (TPM) data obtained from RNA sequencing. 52 casein derived circRNAs were identified, of which 29, 16 and 7 were derived from CSN1S1, CSN1S2 and CSN2, respectively. No circRNA derived from CSN3 was detected. Compared with the non heat stress group, 5 circRNAs were significantly up-regulated, 3 of which were only expressed in heat stress condition. The casein derived circRNAs identified in this study were significantly differentially expressed in heat stress group compared to the non heat stressed group, which may be involved in the regulation of milk protein synthesis in heat stress response. The study identified the differentially expressed casein derived circRNAs in heat stressed cows, which may contribute to the understanding of the mechanism of casein reduction casused by heat stress.
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Received: 08 October 2021
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Corresponding Authors:
* liqiuling@lfnu.edu.cn
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[1] 齐颖, 张一名, 赵梦芸, 等. 2021. 奶牛HSF1基因可变剪接体克隆及生物信息学分析[J]. 农业生物技术学报, 29(9): 1722-1732.
(Qi Y, Zhang Y M, Zhao M Y, et al.2021. Cloning and bioinformatics analysis of alternatively spliced variants of HSF1 gene in dairy cattle (Bos taurus)[J]. Journal of Agricultural Biotechnology, 29(9): 1722-1732.)
[2] Bovnhuis H.1994. Mapping and analysis of dairy cattle quantitative trait loci by maximum likelihood methodology using milk protein genes as genetic markers[J]. Genetics, 137(1): 267-80.
[3] Berman A, Folman Y, Kaim M, et al.1985. Upper critical temperatures and forced ventilation effects for high-yielding dairy cows in a subtropical climate[J]. Journal of Dairy Science, 68(6): 1488-1495.
[4] Dikmen S, Hansen P J.2009. Is the temperature-humidity index the best indicator of heat stress in lactating dairy cows in a subtropical environment[J]. Journal of Dairy Science, 92(1): 109-116.
[5] Deng B, Cheng X, Li H, et al.2017. Microarray expression profiling in the denervated hippocampus identifies long noncoding RNAs functionally involved in neurogenesis[J]. BMC Molecular Biology, 18(1): 15.
[6] Gao Y, Wu M, Fan Y, et al.2018. Identification and characterization of circular RNAs in Qinchuan cattle testis[J]. Royal Society open science, 5(7): 180413.
[7] Hansen T B, Jensen T I, Clausen B H, et al.2013. Natural RNA circles function as efficient microRNA sponges[J]. Nature, 495(7441): 384-388.
[8] Hill D L, Wall E.2015. Dairy cattle in a temperate climate: The effects of weather on milk yield and composition depend on management[J]. Animal, 9(1): 138-149.
[9] Huang W, Penagaricano F, Ahman K R, et al.2012. Association between milk protein gene variants and protein composition traits in dairy cattle[J]. Journal of Dairy Science, 95(1): 440-449.
[10] Khan I T, Nadeem M, Imran M, et al.2019. Antioxidant properties of milk and dairy products: A comprehensive review of the current knowledge[J]. Lipids in Health and Disease, 18(1): 41.
[11] Kristensen L S, Andersen M S, Stagsted L V W, et al.2019. The biogenesis, biology and characterization of circular RNAs[J]. Nature Reviews Genetics, 20(11): 675-691.
[12] Li H, Yang J, Wei X, et al.2018a. CircFUT10 reduces proliferation and facilitates differentiation of myoblasts by sponging miR-133a[J]. Journal of Cellular Physiology, 233(6): 4643-4651.
[13] Li H, Wei X, Yang J, et al.2018b. CircFGFR4 promotes differentiation of myoblasts via binding miR-107 to relieve its inhibition of Wnt3a[J]. Molecular Therapy Nucleic Acids, 11: 272-283.
[14] Li Q, Yang C, Du J, et al.2018c. Characterization of miRNA profiles in the mammary tissue of dairy cattle in response to heat stress[J]. BMC Genomics, 19(1): 975.
[15] Li Z, Huang C, Bao C, et al.2015. Exon-intron circular RNAs regulate transcription in the nucleus[J]. Nature Structural & Molecular Biology, 22(3): 256-264.
[16] Liao X D, Zhou C H, Zhang J, et al.2020. Effect of all-trans retinoic acid on casein and fatty acid synthesis in MAC-T cells[J]. Asian Australasian Journal of Animal Sciences, 33(6): 1012-1022.
[17] Liu J, Zhang M, Li D, et al.2020. Prolactin-responsive circular RNA circHIPK3 promotes proliferation of mammary epithelial cells from dairy cow[J]. Genes (Basel), 11(3): 336.
[18] Liu Y, Hou J, Zhang M, et al.2020. circ-016910 sponges miR-574-5p to regulate cell physiology and milk synthesis via MAPK and PI3K/AKT-mTOR pathways in GMECs[J]. Journal of cellular physiology, 235(5): 4198-4216.
[19] Madende M, Osthoff G.2019. Comparative genomics of casein genes[J]. Journal of Dairy Research, 86(3): 323-330.
[20] Memczak S, Jens M, Elefsinioti A, et al.2013. Circular RNAs are a large class of animal RNAs with regulatory potency[J]. Nature, 495(7441): 333-338.
[21] Polsky L, Keyserlingk M V.2017. Invited review: Effects of heat stress on dairy cattle welfare[J]. Journal of Dairy Science, 100(11): 8645-8657.
[22] Qi Y, Zhang L, Guo Y M, et al.2021b. Genome-wide identification and functional prediction of circular RNAs in response to heat stress in Chinese Holstein cows[J]. Animal Biotechnology, 1-11.
[23] Rehan F, Ahemad N, Gupta, et al.2019. Casein nanomicelle as an emerging biomaterial-A comprehensive review[J]. Colloids and Surfaces B: Biointerfaces, 179: 280-292.
[24] Sigdel A, Liu L, Abdollahi-Arpanahi R, et al.2020. Genetic dissection of reproductive performance of dairy cows under heat stress[J]. Animal Genetics, 51(4): 511-520.
[25] Su X, Gao G, Wang S, et al.2019. CircRNA expression profile of bovine placentas in late gestation with aberrant SCNT fetus[J]. Journal of Clinical Laboratory Analysis, 33(6): e22918.
[26] Sun J, Zhang H, Hu B, et al.2019. Emerging roles of heatinduced circRNAs related to lactogenesis in lactating sows[J]. Frontiers in Genetics, 10: 1347.
[27] Tao S, Orellana Rivas R M, Marins T N, et al.2020. Impact of heat stress on lactational performance of dairy cows[J]. Theriogenology, 150: 437-444.
[28] Wang D, Chen Z, Zhuang X, et al.2020. Identification of circRNA-associated-ceRNA networks involved in milk fat metabolism under heat stress[J]. International Journal of Molecular Sciences, 21(11): 4162.
[29] Wei X, Li H, Yang J, et al.2017. Circular RNA profiling reveals an abundant circLMO7 that regulates myoblasts differentiation and survival by sponging miR-378a-3p[J]. Cell Death & Disease, 8(10): e3153.
[30] Xiao M S, Ai Y, Wilusz J E.2020. Biogenesis and functions of circular RNAs come into focus[J]. Trends in Cell Biology, 30(3): 226-240.
[31] Yan X M, Zhang Z, Meng Y, et al.2020. Genome-wide identification and analysis of circular RNAs differentially expressed in the longissimus dorsi between Kazakh cattle and Xinjiang brown cattle[J]. PeerJ, 8: e8646.
[32] Zhao L L, Wang X L, Tian Q, et al.2016. Effect of casein to whey protein ratios on the protein interactions and coagulation properties of low-fat yogurt[J]. Journal of Dairy Science, 99(10): 7768-7775.
[33] Zhang Y, Guo X, Pei J, et al.2020a. CircRNA expression profile during yak adipocyte differentiation and screen potential circRNAs for adipocyte differentiation[J]. Genes (Basel), 11(4): 414.
[34] Zhang M, Ma L, Liu Y, et al.2020b, CircRNA-006258 sponge-adsorbs miR-574-5p to regulate cell growth and milk synthesis via EVI5L in goat mammary epithelial cells[J]. Genes (Basel), 11(7): 718.
[35] Zhou C, Molinie, Daneshvar K, et al.2017. Genome-wide maps of m6A circRNAs identify widespread and cell-type-specific methylation patterns that are distinct from mRNAs[J]. Cell Reports, 20(9): 2262-2276. |
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