[1]黄正洋,王钱保,黄华云,等.鸡let-7b在不同生长时期及不同组织中的表达及其生物信息学分析与靶基因预测[J].江苏农业学报,2022,38(02):429-437.[doi:doi:10.3969/j.issn.1000-4440.2022.02.017]
　HUANG Zheng-yang,WANG Qian-bao,HUANG Hua-yun,et al.Expression of let-7b in different growth stages and different tissues of chicken and its bioinformatics analysis and target gene prediction[J].,2022,38(02):429-437.[doi:doi:10.3969/j.issn.1000-4440.2022.02.017]
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鸡let-7b在不同生长时期及不同组织中的表达及其生物信息学分析与靶基因预测()
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江苏农业学报[ISSN:1006-6977/CN:61-1281/TN]

卷:
38
期数:
2022年02期
页码:
429-437
栏目:
畜牧兽医·水产养殖
出版日期:
2022-04-30

文章信息/Info

Title:
Expression of let-7b in different growth stages and different tissues of chicken and its bioinformatics analysis and target gene prediction
作者:
黄正洋; 王钱保; 黄华云; 李春苗; 穆春宇; 黎寿丰; 赵振华
（中国农业科学院家禽研究所，江苏扬州225009）
Author(s):
HUANG Zheng-yang; WANG Qian-bao; HUANG Hua-yun; LI Chun-miao; MU Chun-yu; LI Shou-feng; ZHAO Zhen-hua
（Poultry Institute, Chinese Academy of Agricultural Sciences, Yangzhou 225009，China）
关键词:
let-7b; 靶基因; 生物信息学; 表达分析; 鸡
Keywords:
let-7b; target gene; bioinformatics; expression analysis; chicken
分类号:
S831.2
DOI:
doi:10.3969/j.issn.1000-4440.2022.02.017
文献标志码:
A
摘要:
为探究let-7b在鸡不同生长时期和不同组织中的表达规律及生物信息学特点，以苏禽3号肉鸡为试验材料，检测鸡let-7b在不同时期和不同组织中的表达变化，通过生物信息学工具对常见脊椎动物的let-7b序列特点及基因组定位进行分析，构建系统进化树，并对靶基因进行预测。结果表明，在鸡大脑、心、胸肌和腿肌中，let-7b的相对表达量较高，且90日龄相对表达量显著高于3日龄。let-7b位于1号染色体基因间隔区，不同物种let-7b的成熟序列同源性较高，进化树分析结果表明，鸡let-7b与鸟类聚为一类。靶基因预测分析共获得263个靶基因，对获得的靶基因进行基因本体（GO）功能富集分析，发现靶基因主要富集到蛋白质泛素化、miRNA介导的翻译抑制和mRNA 3′-非翻译区（3′-UTR）结合等方面。KEGG通路分析发现，靶基因主要富集到丝裂原活化蛋白激酶（MAPK）、转化生长因子β（TGF-β）通路和卵母细胞减数分裂等通路。总之，鸡let-7b在组织中广泛表达，物种间较为保守；结合靶基因富集分析结果，推测let-7b可能通过靶向MAPK和TGF-β等信号通路参与调控鸡肌肉生长及细胞增殖分化。
Abstract:
For the object of exploring the expression pattern and bioinformatics characteristics of let-7b in different growth stages and different tissues of chickens, Suqin 3 broiler was used as experimental animal, and the expression changes of chicken let-7b in different growth stages and different tissues were detected. Bioinformatics tools were used to analyze characteristics and genome location of let-7b sequences of common vertebrates, phylogenetic tree was constructed and target genes were predicted. The results showed that, the relative expression levels of let-7b in the brain, heart, pecloralis muscle and leg muscle of chickens were higher than in other tissues. The relative expression level of let-7b in chickens of 90 days age was significantly higher than in chickens of three days age. Gene mapping analysis revealed that, let-7b of chickens was located in the intergenic region on chromosome 1, and the mature sequences of let-7b in different species showed high homology. Results of phylogenetic tree analysis indicated that, let-7b of chickens and let-7b of birds assembled into one category. Target gene prediction revealed that, a total of 263 target genes were obtained. Through functional enrichment analysis of gene ontology (GO) for the obtained target genes, it was found that, let-7b targeted genes were mainly enriched in protein ubiquitination, miRNA-mediated translation inhibition and mRNA 3′-untranslated region (3′-UTR) binding. KEGG pathway analysis showed that, target genes were mainly enriched in mitogen-activated protein kinase (MAPK) signaling pathway, transforming growth factor-β (TGF-β) signaling pathway and progesterone-mediated oocyte meiosis pathway. In conclusion, let-7b of chicken is widely expressed in tissues and is relatively conserved among species. Considering the results of target gene enrichment analysis, it is speculated that let-7b may participate in the regulation of muscle growth and cell proliferation and differentiation through signaling pathways such as targeting MAPK and TGF-β.

参考文献/References:

[1]文杰. 我国黄羽肉鸡品种改良最新进展及未来发展方向[J]. 饲料与畜牧, 2019(8): 22-25.
[2]辛翔飞,郑麦青,文杰,等. 2020年我国肉鸡产业形势分析、未来展望与对策建议[J]. 中国畜牧杂志, 2021, 57(3): 217-222.
[3]赵桂苹. 肉鸡种业技术发展趋势[J]. 北方牧业, 2021(11): 23.
[4]SU J, CHEN P, JOHANSSON G, et al. Function and regulation of let-7 family microRNAs[J]. Trends in cell biology, 2012, 18(10): 505-516.
[5]ROUSH S, SLACK F J. The let-7 family of microRNAs[J]. Trends in cell biology, 2008, 18(10): 505-516.
[6]赫晓燕,郝欢庆,刘丹丹,等. 青年羊驼耳部和背部皮肤组织中miRNA差异表达研究[J]. 中国生物化学与分子生物学报, 2010, 26(11): 1016-1022.
[7]吴明林,施志仪,付元帅,等. Let-7d在牙鲆变态发育期间的表达及靶基因预测[J]. 上海海洋大学学报, 2012, 21(3): 344-350.
[8]曹蕊. Let-7家族miRNA调控猪卵泡闭锁的分子机制研究[D]. 南京：南京农业大学, 2014.
[9]江倩. miR-let-7a在辽宁绒山羊毛囊发育周期中的差异表达及其靶基因功能鉴定[D]. 长春：吉林大学, 2015.
[10]KOZOMARA A, BIRGAOANU M, GRIFFITHS-JONES S. Mirbase: from microrna sequences to function[J]. Nucleic Acids Research, 2019, 47(1): 155-162.
[11]TAMURA K, STECHER G, KUMAR S. MEGA11: Molecular evolutionary genetics analysis version 11[J]. Molecular Biology and Evolution, 2021, 38(7): 3022-3027.
[12]VEJNAR C E, ZDOBNOV E M. miRmap: Comprehensive prediction of microRNA target repression strength[J]. Nucleic Acids Research, 2012, 40(22): 11673-11683.
[13]CHEN Y,WANG X. Mirdb: an online database for prediction of functional microRNA targets[J]. Nucleic Acids Research, 2020, 48(1): 127-131.
[14]LIU W J,WANG X W. Prediction of functional microrna targets by integrative modeling of microRNA binding and target expression data[J]. Genome Biology, 2019, 20(1): 18.
[15]AGARWAL V, BELL G W, NAM J W, et al. Predicting effective microRNA target sites in mammalian mRNAs[J]. eLIFE,2015, 4: e05005.
[16]JIAO X, SHERMAN B T, HUANG D W, et al. DAVID-WS: a stateful web service to facilitate gene/protein list analysis[J]. Bioinformatics, 2012, 28(13):1805-1806.
[17]罗文. miRNAs介导的信号通路对鸡成肌细胞增殖和分化的调控[D]. 广州：华南农业大学, 2016.
[18]赵博文. 鱼类let-7家族的系统进化及表达与团头鲂生长和性腺发育的相关性研究[D]. 武汉：华中农业大学, 2017.
[19]路璐,顾天天,刘然,等. let-7基因家族序列分析及其在鹅生殖周期内的表达变化[J]. 农业生物技术学报, 2018, 26(9): 1557-1566.
[20]王建蒙,付绍印,丽春,等. 褪黑激素对内蒙古绒山羊皮肤中let-7家族及其靶基因的影响[J]. 畜牧兽医学报, 2019, 50(7): 1367-1379.
[21]刘咸,刘燊,岳孝亭,等. 鸡miRNA let-7b靶向调控GHR基因的双荧光素酶验证[J]. 中国家禽, 2019, 41(5): 11-15.
[22]岳孝亭,刘燊,杨承忠,等. let-7b介导IGF2BP3表达抑制鸡成肌细胞增殖效果的研究[J]. 家畜生态学报, 2018, 39(2): 12-17.
[23]刘宁. let-7b通过下调靶基因EDA调控羊驼毛发生长的研究[D]. 太原：山西农业大学, 2016.
[24]申艳. let-7b通过其靶基因TGFβR Ⅰ调控羊驼毛生长的研究[D]. 太原：山西农业大学, 2015.
[25]李蒙. let-7b通过靶向Penk1基因调控大鼠电针耐受[D]. 武汉：华中农业大学, 2018.
[26]杨娟. let-7b过表达通过MAP3K1靶基因调节绵羊FGC的凋亡与增殖[D]. 兰州：西北民族大学, 2020.
[27]王婷. let-7b介导FGF5表达调控羊驼毛生长的研究[D]. 太原：山西农业大学, 2014.

备注/Memo

备注/Memo:
收稿日期：2021-07-26基金项目：现代农业产业技术体系建设专项（CARS-41-Z05）；江苏省农业科技自主创新基金项目[CX(20)2012]；江苏省科技成果转化项目（BA2019049）作者简介：黄正洋（1987-），男，河南信阳人，博士，助理研究员，主要从事家禽遗传育种研究。（E-mail）zyhuang@qq.com通讯作者：赵振华，（E-mail）zzh0514@163.com
更新日期/Last Update: 2022-05-07