饲喂青贮黄梁木代替青贮玉米川中黑山羊肝转录组的表达分析

doi:10.11843/j.issn.0366-6964.2024.01.022

Abstract

Abstract: The purpose of this study was to analyze the differentially expressed mRNA, lncRNA and its target genes in liver transcripome sequencing of Chuanzhong Black Goats fed silage Neolamarckia Cadamba instead of 50% silage corn, and to find out the key genes affecting liver metabolism of Chuanzhong Black Goats fed silage Neolamarckia Cadamba, so as to explore the feeding effect of silage Neolamarckia Cadamba. A total of 6 healthy male Chuanzhong Black Goats [5 months old, average body weight (21.07±4.05) kg] were selected and randomly divided into two groups: experimental group was fed silage Neolamarckia Cadamba replaced 50% silage corn, and control group was fed silage corn. Total mixed diet (TMR) was used for feeding during the experiment. On the last day of the experiment period, goats were slaughtered and their livers were taken. RNA from the liver tissues was extracted to construct a library. High-throughput sequencing technology was used for transcriptome sequencing. Differential mRNA and lncRNA were screened at a threshold of P<0.05, and biological function enrichment analysis was conducted to construct a targeted relationship network. Finally, 3 genes were randomly selected from differentially expressed lncRNA and mRNA separately, and verified by RT-qPCR. The results showed that a total of 1 696 mRNA were differentially expressed, of which 943 were up-regulated and 753 were down-regulated. A total of 33 lncRNA were differentially expressed, of which 22 were up-regulated and 11 down-regulated. Combined with the enrichment analysis of target genes of differentially expressed lncRNA and intersection genes of differentially expressed mRNA, it was found that NDUFA10, NDUFB11 and NDUFS5 were involved in signal pathways related to liver function, such as polysaccharide metabolism, glucan catabolism and cellulose catabolism. Combined with lncRNA target gene prediction, it was found that GSTA3 and GSTA4 genes were involved in signal pathways related to liver function, such as drug metabolism-cytochrome P450 and cytochrome P450 metabolism of heterologous substances. In conclusion, NDUFA10, NDUFB11, NDUFS5, GSTA3 and GSTA4 may affect the liver function from the aspects of nutrient metabolism and toxin metabolism in the liver tissue of Chuanzhong Black Goats fed with silage Neolamarckia Cadamba.

Key words: silage Neolamarckia Cadamba, Chuanzhong Black Goat, liver, lncRNA, mRNA

CLC Number:

S813

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.

References 41

[1]	ZHANG Y C, WANG X K, LI D X, et al.Impact of wilting and additives on fermentation quality and carbohydrate composition of mulberry silage[J].Asian-Australas J Anim Sci, 2020, 33(2):254-263.
[2]	白雪.黄梁木蔗糖转运蛋白基因克隆及其表达模式分析[D].广州:华南农业大学, 2016.BAI X.Cloning and expression analysis of sucrose transporter in Neolamarckia cadamba[D].Guangzhou:South China Agricultural University, 2016.(in Chinese)
[3]	王学凯, 杨富裕, 林炎丽.黄梁木叶片青贮营养成分的动态变化[J].草学, 2018(S1):16-17, 24.WANG X K, YANG F Y, LIN Y L.Study on dynamic of chemical compositions of Neolamarckia cadamba silage[J].Journal of Grassland and Forage Science, 2018(S1):16-17, 24.(in Chinese)
[4]	阙青敏, 李培, 欧阳昆唏, 等.幼林期黄梁木生长性状的种源间变异[J].亚热带植物科学, 2017, 46(3):248-253.QUE Q M, LI P, OUYANG K X, et al.Genetic variation of young forest growth traits of Neolamarckia cadamba[J].Subtropical Plant Science, 2017, 46(3):248-253.(in Chinese)
[5]	邓小梅, 詹艳玲, 张倩, 等.黄梁木组培快繁技术研究[J].华南农业大学学报, 2012, 33(2):216-219, 224.DENG X M, ZHAN Y L, ZHANG Q, et al.Study on tissue culture of Neolamarckia cadamba[J].Journal of South China Agricultural University, 2012, 33(2):216-219, 224.(in Chinese)
[6]	李晓琳, 陈婷, 丁宁, 等.黄梁木枝叶水提物的抗菌作用及对小鼠免疫和肠道菌群的影响[J].中国兽医学报, 2022, 42(9):1869-1877.LI X L, CHEN T, DING N, et al.Effects of aqueous extracts from branches and leaves of Neolamarckia cadamba (Roxb.) Bosser on biochemical indices and intestinal flora of mice[J].Chinese Journal of Veterinary Science, 2022, 42(9):1869-1877.(in Chinese)
[7]	CHANDRASHEKAR K S, ABINASH B, PRASANNA K S.Anti-inflammatory effect of the methanol extract from Anthocephalus cadamba stem bark in animal models[J].Int J Plant Biol, 2010, 1(1):e6.
[8]	KAPIL A, KOUL I B, SURI O P.Antihepatotoxic effects of chlorogenic acid from Anthocephalus cadamba[J].Phytother Res, 1995, 9(3):189-193.
[9]	CHANDEL M, SHARMA U, KUMAR N, et al.Antioxidant activity and identification of bioactive compounds from leaves of Anthocephalus cadamba by ultra-performance liquid chromatography/electrospray ionization quadrupole time of flight mass spectrometry[J].Asian Pac J Trop Med, 2012, 5(12):977-985.
[10]	UMACHIGI S P, KUMAR G S, JAYAVEERA K, et al.Antimicrobial, wound healing and antioxidant activities of Anthocephalus cadamba[J].Afr J Tradit Complement Altern Med, 2007, 4(4):481-487.
[11]	国家畜禽遗传资源委员会.中国畜禽遗传资源志-羊志[M].北京:中国农业出版社, 2011.National Livestock and Poultry Genetic Resources Committee.Genetics resources of Chinese livestock and poultry-sheep record[M].Beijing:China Agriculture Press, 2011.(in Chinese)
[12]	崔媛, 李海山, 宋乃宁, 等.马兜铃酸Ⅰ影响小鼠肝脏脂肪酸β氧化和糖代谢以及TCA循环的代谢组学研究[J].中国药物警戒, 2019, 16(8):449-466.CUI Y, LI H S, SONG N N, et al.Metabonomics reveals that aristolochic acid I affects β-oxidation of fatty acids, glucose metabolism and the TCA cycle in the mice liver[J].Chinese Journal of Pharmacovigilance, 2019, 16(8):449-466.(in Chinese)
[13]	TREFTS E, GANNON M, WASSERMAN D H.The liver[J].Curr Biol, 2017, 27(21):R1147-R1151.
[14]	陈娜, 周玮, 和立文, 等.黄梁木叶对麻黄鸡屠宰性能、小肠形态和血清生化指标的影响[J].动物营养学报, 2021, 33(7):3833-3841.CHEN N, ZHOU W, HE L W, et al.Effects of Neolamarckia cadamba leaves on slaughter performance, small intestine morphology and serum biochemical indices of partridge chicken[J].Chinese Journal of Animal Nutrition, 2021, 33(7):3833-3841.(in Chinese)
[15]	汪胜楠, 柳广斌, 李耀坤, 等.青贮黄梁木不同比例替代青贮全株玉米对育肥期乐至黑山羊生长性能、屠宰性能和肉品质的影响[J].饲料工业, 2017, 38(21):37-44.WANG S N, LIU G B, LI Y K, et al.Effect of different proportion silage Anthocephalus chinensis substitute silage whole plant corn on growth performance, slaughter performance and meat quality of Lezhi Black goat in fattening period[J].Feed Industry, 2017, 38(21):37-44.(in Chinese)
[16]	温芷莹, 田汉晨, 吴龙飞, 等.青贮黄梁木替代青贮玉米对川中黑山羊肝脏代谢谱的影响[J].饲料工业, 2021, 42(7):27-33.WEN Z Y, TIAN H C, WU L F, et al.Effects of silage Neolamarckia cadamba substitute silage corn on liver metabolic profile of Chuanzhong black goats[J].Feed Industry, 2021, 42(7):27-33.(in Chinese)
[17]	郭安源.基因转录表达数据的生物信息挖掘研究[J].中国科学:生命科学, 2021, 51(1):70-82.GUO A Y.Bioinformatics mining for gene expression data[J].Scientia Sinica Vitae, 2021, 51(1):70-82.(in Chinese)
[18]	KOPP F, MENDELL J T.Functional classification and experimental dissection of long noncoding RNAs[J].Cell, 2018, 172(3):393-407.
[19]	BRIATA P, GHERZI R.Long non-coding RNA-ribonucleoprotein networks in the post-transcriptional control of gene expression[J].Non-Coding RNA, 2020, 6(3):40.
[20]	刘会平, 刘湘茹, 李智.缺乏运动降低成年人胰岛素敏感性的加权基因共表达网络分析[J].中国卫生统计, 2020, 37(6):878-882.LIU H P, LIU X R, LI Z.Weighted gene co expression network analysis of reduced insulin sensitivity in adults due to lack of exercise[J].Chinese Journal of Health Statistics, 2020, 37(6):878-882.(in Chinese)
[21]	LI Y L, CHEN B Y, YANG X Y, et al.S100a8/a9 signaling causes mitochondrial dysfunction and cardiomyocyte death in response to ischemic/reperfusion injury[J].Circulation, 2019, 140(9):751-764.
[22]	LIU L L, QI L, KNIFLEY T, et al.S100A4 alters metabolism and promotes invasion of lung cancer cells by up-regulating mitochondrial complex I protein NDUFS2[J].J Biol Chem, 2019, 294(18):7516-7527.
[23]	GERBER S, DING M G, GÉRARD X, et al.Compound heterozygosity for severe and hypomorphic NDUFS2 mutations cause non-syndromic LHON-like optic neuropathy[J].J Med Genet, 2017, 54(5):346-356.
[24]	HOEFS S J G, VAN SPRONSEN F J, LENSSEN E W H, et al.NDUFA10 mutations cause complex I deficiency in a patient with Leigh disease[J].Eur J Hum Genet, 2011, 19(3):270-274.
[25]	BRIDGES H R, FEARNLEY I M, HIRST J.The subunit composition of mitochondrial NADH:ubiquinone oxidoreductase (complex I) from Pichia pastoris[J].Mol Cell Proteomics, 2010, 9(10):2318-2326.
[26]	ANDERSON K A, MADSEN A S, OLSEN C A, et al.Metabolic control by sirtuins and other enzymes that sense NAD+, NADH, or their ratio[J].Biochim Biophys Acta Bioenerg, 2017, 1858(12):991-998.
[27]	BRANDT U.Energy converting NADH:quinone oxidoreductase (complex I)[J].Annu Rev Biochem, 2006, 75:69-92.
[28]	PANELLI D, LORUSSO F P, PAPA F, et al.The mechanism of alternative splicing of the X-linked NDUFB11 gene of the respiratory chain complex I, impact of rotenone treatment in neuroblastoma cells[J].Biochim Biophys Acta, 2013, 1829(2):211-218.
[29]	REA G, HOMFRAY T, TILL J, et al.Histiocytoid cardiomyopathy and microphthalmia with linear skin defects syndrome:phenotypes linked by truncating variants in NDUFB11[J].Cold Spring Harb Mol Case Stud, 2017, 3(1):a001271.
[30]	李博.咳平盐酸盐通过线粒体氧化磷酸化抑制食管鳞状细胞癌体内外增殖的研究[D].郑州:郑州大学, 2021.LI B.Cloperastine inhibits esophageal squamous cell carcinoma proliferation in vivo and in vitro by suppressing mitochondrial oxidative phosphorylation[D].Zhengzhou:Zhengzhou University, 2021.(in Chinese)
[31]	HENDERSON C J, WOLF C R.Knockout and transgenic mice in glutathione transferase research[J].Drug Metab Rev, 2011, 43(2):152-164.
[32]	NEBERT D W, DALTON T P.The role of cytochrome P450 enzymes in endogenous signalling pathways and environmental carcinogenesis[J].Nat Rev Cancer, 2006, 6(12):947-960.
[33]	KIM S M, WANG Y Q, NABAVI N, et al.Hepatic cytochromes P450:structural degrons and barcodes, posttranslational modifications and cellular adapters in the ERAD-endgame[J].Drug Metab Rev, 2016, 48(3):405-433.
[34]	YAN Z Y, CALDWELL G W.Metabolism profiling, and cytochrome P450 inhibition & induction in drug discovery[J].Curr Top Med Chem, 2001, 1(5):403-425.
[35]	HAFNER M, REZEN T, ROZMAN D.Regulation of hepatic cytochromes p450 by lipids and cholesterol[J].Curr Drug Metab, 2011, 12(2):173-185.
[36]	GUM S I, CHO M K.Korean red ginseng extract prevents APAP-induced hepatotoxicity through metabolic enzyme regulation:the role of ginsenoside Rg3, a protopanaxadiol[J].Liver Int, 2013, 33(7):1071-1084.
[37]	MANNERVIK B, BOARD P G, HAYES J D, et al.Nomenclature for mammalian soluble glutathione transferases[J].Methods Enzymol, 2005, 401:1-8.
[38]	杜伟一, 陈淑莲, 李国强.LASP1、GSTA3在鼻咽癌组织中的表达及与复发、转移的关系[J].分子诊断与治疗杂志, 2020, 12(7):887-891.DU W Y, CHEN S L, LI G Q.Analysis of the expression of LASP1 and GSTA3 in nasopharyngeal carcinoma and their relationship with recurrence and metastasis[J].Journal of Molecular Diagnostics and Therapy, 2020, 12(7):887-891.(in Chinese)
[39]	杨世雄, 李桢, 郭敏, 等.重组GSTA3蛋白对福美双诱导的TD肉鸡生长性能的影响[J].山西农业科学, 2020, 48(3):449-451.YANG S X, LI Z, GUO M, et al.Effect of recombinant GSTA3 protein on the growth performance of Thiram-induced TD broilers[J].Journal of Shanxi Agricultural Sciences, 2020, 48(3):449-451.(in Chinese)
[40]	PARK H J, KIM M J, ROTHENBERGER C, et al.GSTA4 mediates reduction of cisplatin ototoxicity in female mice[J].Nat Commun, 2019, 10(1):4150.
[41]	ROMERO L, ANDREWS K, NG L, et al.Human GSTA1-1 reduces c-Jun N-terminal kinase signalling and apoptosis in Caco-2 cells[J].Biochem J, 2006, 400(1):135-141.

Expression Analysis of Transcriptome in the Liver of Chuanzhong Black Goats Fed with Silage Neolamarckia Cadamba Substitute for Silage Corn

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