水牛泌乳期与非泌乳期乳腺组织miRNAs表达谱鉴定及差异表达分析

doi:10.11843/j.issn.0366-6964.2017.09.008

Abstract

Abstract:

This study aimed to identify and analyze the expression patterns and mechanism of buffalo mammary gland miRNAs in the lactation and non-lactation periods. Buffalo mammary gland tissues in lactation and non-lactation periods were collected, their miRNAs expression profiles were analyzed by Solexa sequencing technology, pre-miRNAs, mature miRNAs and novel miRNAs were identified, respectively, the first preferred nucleotide and chromosome distribution were analyzed. The highly and differentially expressed miRNAs in the lactation and non-lactation periods were detected. The results showed that 2 miRNAs expression profiles from buffalo lactation and non-lactation mammary glands were constructed. 12 768 110 and 12 569 467 high-quality reads between 18 and 31 nt were obtained seperately. Three hundred fifty-nine mature miRNAs and 363 pre-miRNAs belonged to 259 miRNAs families, and 5 buffalo-specific miRNAs were confirmed by sequencing. U was the most common nucleotide at the 5'end of 19 and 25 nt miRNAs. The bbu-let-7b, bbu-let-7a, miR-26a and miR-21 showed high expression in both periods. bbu-miR-148a, 143, 200c, 200a and bbu-let-7f were specificially highly expressed in non-lactation period, the bbu-miR-125b, 29a and bbu-let-7c were specifically highly expressed in lactation period. The bbu-miR-148a, 143, 200a, 141 and 30a-5p decreased the expression in the lactation period to less than 1/2 of the non-lactation period, bbu-miR-26a, 29a, 125b, 99a and bbu-let-7c were highly expressed in the lactation period more than or equal to 2 times of the lactation period. The result indicate that 2 miRNAs profiles from buffalo lactation and non-lactation mammary gland tissues were constructed. 359 mature miRNAs and 363 pre-miRNAs belonging to 259 buffalo miRNAs families were identified. 5 buffalo genome-specific miRNAs and 10 highly differentially expressed miRNAs were obtained, which lay the foundation for further elucidating the mechanism of key miRNAs in lactating buffalo.

CLC Number:

S823.83

CAI Xiao-yan, BAO Zheng-pan, GU Jing-kai, DENG Kai, ZHANG Xiao-xi, REN Yan-ping, SHEN Peng-lei, SHI De-shun, LIU Qing-you. Identify and Analyze the Expression Profile and Mechanism of Buffalo Mammary Gland miRNAs in the Lactation and Non-lactation Periods[J]. ACTA VETERINARIA ET ZOOTECHNICA SINICA, 2017, 48(9): 1635-1647.

0
/ / Recommend

Add to citation manager EndNote|Reference Manager|ProCite|BibTeX|RefWorks

URL: https://www.xmsyxb.com/EN/10.11843/j.issn.0366-6964.2017.09.008

https://www.xmsyxb.com/EN/Y2017/V48/I9/1635

References

[1] 林浪, 龚云, 王梦, 等. 水牛缝隙连接蛋白43基因克隆及表达[J]. 中国畜牧兽医, 2013, 40(9):1-7.
LIN L, GONG Y, WANG M, et al. Cloning and expression of buffalo Cx43 gene[J]. China Animal Husbandry & Veterinary Medicine, 2013, 40(9):1-7. (in Chinese)
[2] AHMAD S, GAUCHER I, ROUSSEAU F, et al. Effects of acidification on physico-chemical characteristics of buffalo milk:A comparison with cow's milk[J]. Food Chem, 2008, 106(1):11-17.
[3] 唐善生. 广西奶水牛业发展现状与思考[J]. 广西农学报, 2014, 29(1):50-52, 55.
TANG S S. Dairy buffalo industry developmental current situation and considerations in Guangxi[J]. Journal of Guangxi Agriculture, 2014, 29(1):50-52, 55. (in Chinese)
[4] 简保权, 秦学敏, 龚芳. 世界水牛奶业发展现状和典型模式分析[J]. 世界农业, 2015(3):115-118.
JIAN B Q, QIN X M, GONG F. Buffalo dairy industry developmental current situation and the analysis of typical model in the world[J]. World Agriculture, 2015(3):115-118. (in Chinese)
[5] 王锦. 水牛乳腺基因表达谱与生长激素转基因水牛的初步研究[D]. 南宁:广西大学, 2013.
WANG J. Preliminary studies on buffalo mammary gene expression profile and growth hormone transgenic buffalo[D]. Nanning:Guangxi University, 2013. (in Chinese)
[6] BARTEL D P. MicroRNAs:genomics, biogenesis, mechanism, and function[J]. Cell, 2004, 116(2):281-297.
[7] AMBROS V. The functions of animal MicroRNAs[J]. Nature, 2004, 431(7006):350-355.
[8] KIM V N. MicroRNA biogenesis:coordinated cropping and dicing[J]. Nat Rev Mol Cell Biol, 2005, 6(5):376-385.
[9] WANG K, LONG B, JIAO J Q, et al. miR-484 regulates mitochondrial network through targeting Fis1[J]. Nat Commun, 2012, 3:781.
[10] WIGHTMAN B, HA I, RUVKUN G. Posttranscriptional regulation of the heterochronic gene lin-14 by lin-4 mediates temporal pattern formation in C. elegans[J]. Cell, 1993, 75(5):855-862.
[11] WEBER J A, BAXTER D H, ZHANG S L, et al. The microRNA spectrum in 12 body fluids[J]. Clin Chem, 2010, 56(11):1733-1741.
[12] KOSAKA N, IZUMI H, SEKINE K, et al. microRNA as a new immune-regulatory agent in breast milk[J]. Silence, 2010, 1(1):7.
[13] 张抒, 张强, 张萌, 等. miRNA对乳腺发育及泌乳调节作用的研究进展[J]. 中国畜牧兽医, 2015, 42(3):663-667.
ZHANG S, ZHANG Q, ZHANG M, et al. Research progress on regulation effect of microRNA on mammary gland development and lactation[J]. China Animal Husbandry & Veterinary Medicine, 2015, 42(3):663-667. (in Chinese)
[14] DENIS H, VAN GREMBERGEN O, DELATTE B, et al. MicroRNAs regulate KDM5 histone demethylases in breast cancer cells[J]. Mol BioSyst, 2015, 12(2):404-413.
[15] PHAN B, MAJID S, URSU S, et al. Tumor suppressor role of microRNA-1296 in triple-negative breast cancer[J]. Oncotarget, 2016, 7(15):19519-19530.
[16] COCHRANE D R, SPOELSTRA N S, RICHER J K. The role of miRNAs in progesterone action[J]. Mol Cell Endocrinol, 2012, 357(1-2):50-59.
[17] 熊显荣, 兰道亮, 李键, 等. 牦牛卵巢小RNA高通量测序及生物信息学分析[J]. 畜牧兽医学报, 2016, 47(1):55-63.
XIONG X R, LAN D L, LI J, et al. Solexa sequencing of small RNAs in yak (Bos grunniens) ovaries and bioinformatics analysis[J]. Acta Veterinaria et Zootechnica Sinica, 2016, 47(1):55-63. (in Chinese)
[18] 周华, 张新, 刘腾云, 等. 高通量转录组测序的数据分析与基因发掘[J]. 江西科学, 2012, 30(5):607-611.
ZHOU H, ZHANG X, LIU T Y, et al. Data processing and gene discovery of high-throughput transcriptome sequencing[J]. Jiangxi Science, 2012, 30(5):607-611. (in Chinese)
[19] MORIN R D, O'CONNOR M D, GRIFFITH M, et al. Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells[J]. Genome Res, 2008, 18(4):610-621.
[20] LI Z, LIU H Y, JIN X L, et al. Expression profiles of microRNAs from lactating and non-lactating bovine mammary glands and identification of miRNA related to lactation[J]. BMC Genomics, 2012, 13(1):731.
[21] 林先滋.奶牛羊乳腺组织乳脂代谢相关miRNAs的筛选及功能验证[D].杨凌:西北农林科技大学,2013.
LIN X Z. Screening and functional investigation of miRNAs regulation milk fat metabolism in dairy goat mammary gland[D]. Yangling:Northwest A & F University, 2013. (in Chinese)
[22] SAMBROOK J, RUSSELL D W. 分子克隆实验指南[M]. 3版. 黄培堂, 译. 北京:科学出版社, 2008.
SAMBROOK J, RUSSELL D W. Molecular cloning:a laboratory manual[M]. 3rd ed. HUANG P T, trans. Beijing:Science Press, 2008. (in Chinese)
[23] The Bovine Genome Sequencing and Analysis Consortium, ELSIK C G, TELLAM R L, et al. The genome sequence of taurine cattle:a window to ruminant biology and evolution[J]. Science, 2009, 324(5926):522-528.
[24] CARAUX G, PINLOCHE S. PermutMatrix:a graphical environment to arrange gene expression profiles in optimal linear order[J]. Bioinformatics, 2005, 21(7):1280-1281.
[25] LI R Q, LI Y R, KRISTIANSEN K, et al. SOAP:short oligonucleotide alignment program[J]. Bioinformatics, 2008, 24(5):713-714.
[26] BARTEL D P. MicroRNAs:genomics, biogenesis, mechanism, and function[J]. Cell, 2004, 116(2):281-297.
[27] FINNERTY J R, WANG W X, HÉBERT S S. The miR-15/107 group of microRNA genes:evolutionary biology, cellular functions, and roles in human diseases[J]. J Cytol Mol Biol, 2010, 402(3):491-509.
[28] HAYDEN T J, BRENNAN D, QUIRKE K, et al. Xanthine oxidase/dehydrogenase in mammary gland of mouse:relationship to mammogenesis and lactogenesis in vivo and in vitro[J]. J Dairy Res, 1991, 58(4):401-409.
[29] MCMANAMAN J L, NEVILLE M C. Mammary physiology and milk secretion[J]. Adv Drug Deliv Rev, 2003, 55(5):629-641.
[30] LIU X, ROBINSON G W, WAGNER K U, et al. Stat5a is mandatory for adult mammary gland development and lactogenesis[J]. Genes Dev, 1997, 11(2):179-186.
[31] LIN X Z, LUO J, ZHANG L P, et al. MiR-103 Controls milk fat accumulation in goat (Capra hircus) mammary gland during lactation[J]. PLoS One, 2013, 8(11):e79258.
[32] TANAKA T, HANEDA S, IMAKAWA K, et al. A microRNA, miR-101a, controls mammary gland development by regulating cyclooxygenase-2 expression[J]. Differentiation, 2009, 77(2):181-187.
[33] WU Z H, HUANG X N, HUANG X, et al. The inhibitory role of Mir-29 in growth of breast cancer cells[J]. J Exp Clin Cancer Res, 2013, 32(1):98.
[34] 边艳杰. miR-29家族对奶牛乳腺上皮细胞泌乳调控机制的研究[D]. 哈尔滨:东北农业大学, 2015.
BIAN Y J. Regulation mechanism of miR-29 family to lactation of dairy cow mammary epithelial Cells[D]. Harbin:Northeast Agricultural University, 2015.(in Chinese)
[35] WATSON C J, BURDON T G. Prolactin signal transduction mechanisms in the mammary gland:the role of the Jak/Stat pathway[J]. Rev Reprod, 1996, 1(1):1-5.
[36] FREEMAN M E, KANYICSKA B, LERANT A, et al. Prolactin:structure, function, and regulation of secretion[J]. Physiol Rev, 2000, 80(4):1523-1631.

Identify and Analyze the Expression Profile and Mechanism of Buffalo Mammary Gland miRNAs in the Lactation and Non-lactation Periods

PDF (PC)

Knowledge

Abstract

Cite this article

share this article

References

Related Articles 7

Recommended Articles

Metrics

Comments

[1]	FENG Xue, ZHAO Jinhui, WANG Shuzhe, HUANG Jieping, WEI Xuefeng, SHI Yuangang, MA Yun. Overexpression of circNMT1 Promotes Adipogenic Differentiation of Buffalo Adipocytes [J]. Acta Veterinaria et Zootechnica Sinica, 2022, 53(4): 1077-1088.
[2]	HE Wengtan, ZHANG Pengfei, HUANG Yulin, XIAO Kai, HUANG Liangfeng, LU Yangqing, ZHANG Ming. Analysis of Ultrastructure and Fluorescent Markers of Sperm in Different Parts of Buffalo Epididymis [J]. Acta Veterinaria et Zootechnica Sinica, 2021, 52(12): 3449-3460.
[3]	CAI Xiao-yan， LI Sheng，CHEN Qiu-ping，WANG Ping， DENG Kai， LIU Qing-you，SHI De-shun. Expression Pattern and Target Regulation Gene of bbu-miR-103-1 from Lactation and Non-lactation Periods in B. bubalis [J]. ACTA VETERINARIA ET ZOOTECHNICA SINICA, 2016, 47(11): 2191-2201.
[4]	DENG Ting-xian，PANG Chun-ying，ZHU Peng，DUAN An-qin，LU Xing-rong，YANG Bing-zhuang，LIANG Xian-wei. Association between Polymorphism of STAT1 Gene and Milk Production Traits in Buffalo (Bubalus bubalis) [J]. ACTA VETERINARIA ET ZOOTECHNICA SINICA, 2016, 47(1): 48-54.
[5]	LU Xing-rong，SUN Jun-ming，LI Zhi-peng，LI Lan-yu，XIE Bing-kun，LIU Qing-you，SHI De-shun，CUI Kui-qing. Effect of Methyltransferase Inhibitor 5-Aza-CdR on Development Potency of Handmade Cloning Embryo of Debao Pig [J]. ACTA VETERINARIA ET ZOOTECHNICA SINICA, 2014, 45(8): 1274-1281.
[6]	CUI Kui-qing, ZHANG Hui-na, LIU Shuai, LIU Xiao-hua, YANG Su-fang,LIU Qing-you, SHI De-shun. Cloning and Function Analysis of Swamp Buffalo NANOG Gene 5′ Regulatory Region [J]. ACTA VETERINARIA ET ZOOTECHNICA SINICA, 2013, 44(3): 387-394.
[7]	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.