荷斯坦奶牛肝脏组织中与泌乳时期及繁殖力相关的基因共表达网络构建

doi:10.11843/j.issn.0366-6964.2024.02.011

Abstract

Abstract: The purpose of this study was to use the weighted gene co-expression network analysis (WGCNA) to screen for genes related to lactation and reproductive performance in Holstein cow liver tissue. The GSE62159 dataset from the GEO database was used and the co-expression analysis was performed using the WGCNA package in R. The dataset included transcriptome data of liver tissues from healthy Holstein cows with high reproductive performance (mean interval from parturition to insemination of 85.6 days, n=24) and low reproductive performance (mean interval from parturition to insemination of 113.8 days, n=24) during late pregnancy, early lactation, and mid-lactation. The obtained modules were associated with different lactation stages and different reproductive performance. The target module was identified, and the top 30 genes based on connectivity were selected as hub genes. Functional enrichment analysis was performed on hub genes, and a protein-protein interaction (PPI) network of the module was constructed using the String website. The intersection of hub genes and PPI network core genes was screened using Cytoscape software to obtain the target genes related to lactation and reproductive performance in the liver. A total of 14 modules were obtained, of which the tan and greenyellow modules were related to lactation stages, and the black module was related to reproductive performance. After performing functional enrichment analysis on hub genes, genes related to early lactation in the liver were mainly involved in pathways related to the synthesis of substances, gene expression of lipid lipoproteins, and protein synthesis and secretion. Genes related to mid-lactation were mainly involved in diseases, body inflammation, immune responses, and acute phases. Genes related to reproductive performance were mainly involved in insulin resistance, endometrial cancer, and cancer. Twelve target genes related to early lactation in the liver were screened, including RPN1, SEC61A1, SEC61B, SEC61G, SSR1, SSR3, STT3A, DAD1, DDOST, ERLEC1, HM13, and OSTC. Six target genes related to mid-lactation were screened, including ITGAL, ITGB2, LAPTM5, PTPRC, C3AR1, and CTSS. Four target genes related to reproductive performance were screened, including PDS5A, ROCK1, AQR, and LTN1. This study utilized bioinformatics methods including WGCNA, PPI, and gene functional enrichment to identify target genes related to lactation period and reproductive performance in the liver of Holstein cows. Functional enrichment analysis of the target genes was conducted, providing theoretical data for the research direction of breeding high reproductive performance and high milk production cows.

Key words: Holstein cows, liver, lactation, reproductive performance, weighted gene co-expression network analysis

CLC Number:

S823.91

Cite this article

ZHANG Zhifei, TANG Xueying, MIN Li, TONG Xiong, CHEN Weidong, JU Xianghong, LI Dagang. Construction of Gene Coexpression Network Related to Lactation Period and Fecundity in Liver Tissue of Holstein Cows[J]. Acta Veterinaria et Zootechnica Sinica, 2024, 55(2): 528-539.

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Construction of Gene Coexpression Network Related to Lactation Period and Fecundity in Liver Tissue of Holstein Cows

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[1]	CHEN Lili, ZHAO Kang, XIA Min, LU Na, MA Yi. Effect of Birth Season on Holstein Lactation Performance in Tianjin Area [J]. Acta Veterinaria et Zootechnica Sinica, 2024, 55(5): 1970-1977.
[2]	XIA Shuwen, CHEN Kunlin, SHEN Yangyang, AN Zhenjiang, ZHAO Fang, DING Qiang, ZHONG Jifeng, LIN Zhiping, WANG Huili. The Estimation of Genetic Parameters for Longevity Traits of Holstein Cows in Jiangsu Region [J]. Acta Veterinaria et Zootechnica Sinica, 2024, 55(3): 1030-1039.
[3]	ZHONG Xin, ZHANG Hui, ZHANG Chong, LIU Xiaohong. Research Progress on Genetic Breeding of Reproductive Performance in Sows [J]. Acta Veterinaria et Zootechnica Sinica, 2024, 55(2): 438-450.
[4]	WANG Dong, LIU Kexin, HE Yanjun, DENG Shouxiang, LIU Yun, MA Weiming. Effects of Dietary Sodium Humate Supplementation on Liver Tissue Inflammation and Antioxidant Capacity of Salmonella Typhimurium-Infected Broilers [J]. Acta Veterinaria et Zootechnica Sinica, 2024, 55(2): 629-639.
[5]	CAO Jianhua, YANG Baigao, ZHANG Peipei, FENG Xiaoyi, ZHANG Hang, YU Zhou, NIU Yifan, HAO Haisheng, DU Weihua, ZHU Huabin, YANG Ling, ZHAO Xueming. Mechanisms of Negative Energy Balance Affects Follicular Development in Dairy Cattle [J]. Acta Veterinaria et Zootechnica Sinica, 2024, 55(1): 22-30.
[6]	ZHANG De'an, YANG Ruozhu, LIU Jie, LIU Dewu, DENG Ming, LIU Guangbin, SUN Baoli, GUO Yongqing, LI Yaokun. Expression Analysis of Transcriptome in the Liver of Chuanzhong Black Goats Fed with Silage Neolamarckia Cadamba Substitute for Silage Corn [J]. Acta Veterinaria et Zootechnica Sinica, 2024, 55(1): 232-244.
[7]	MA Yajun, JIAO Zhihui, LIU Xiaoning, LU Xiangyu, LIU Tao, WANG Yue, PIAO Chenxi, WANG Hongbin. Effects of Adipose-derived Mesenchymal Stem Cells on Pyroptosis of Miniature Pigs with Hepatic Ischemia-Reperfusion Combined with Hepatectomy [J]. Acta Veterinaria et Zootechnica Sinica, 2024, 55(1): 355-364.
[8]	YU Zhou, YANG Baigao, ZHANG Hang, XU Xi, ZHANG Peipei, FENG Xiaoyi, CAO Jianhua, NIU Yifan, DU Weihua, HAO Haisheng, ZHU Huabin, ABULIZI·Wusiman, ZHAO Xueming. Research Progress of Estrus Markers in Dairy Buffalo [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(9): 3623-3630.
[9]	ZHANG Yafeng, ZHU Bin, MA Chang, ZHANG Yuanshu. The Research on the Effects of ACE2 Activated by Diminazene Aceturate on Mitochondria in the Liver of Rats with Non-alcoholic Fatty Liver Disease [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(9): 3895-3904.
[10]	YUAN Heling, FANG Ci, HUANG Jinhu, WANG Xiaoming, XIAO Wenjun, LIU Ruiting, SHI Rongmei, WANG Liping. Effects of Allicin on mRNA Expression of CYP1A2 and Its Enzyme Kinetics in Broilers Liver Tissue [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(9): 3905-3915.
[11]	CHEN Xin, QIN Tong. mRNA Vaccine and Its Research Prospect in Zoonotic Diseases [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(7): 2732-2742.
[12]	ZHAO Yangfei, YU Yanghuan, WANG Jinming, ZHANG Jianhai, SUN Zilong, NIU Ruiyan, WANG Jundong. Effects of IL-17A Knockout on Fluoride-Induced Hepatic Inflammation and Hepatocyte Apoptosis [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(7): 3108-3117.
[13]	ZHANG Junxing, ZHANG Hailiang, HAN Liyun, MA Yanfen, WEN Wan, ZHOU Jiamin, TIAN Jia, LU Tingting, MA Yun, WANG Yachun. Analysis on the Influencing Factors of Wellness Traits in Holstein Lactating Cows in Ningxia [J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(6): 2389-2401.
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