Expression profiles of microRNAs from lactating and non-lactating bovine mammary glands and identification of miRNA related to lactation

BMC Genomics

Volumn 13, Issue 1, 2012, Pages

  Li, Zhen ^a,b   Liu, Hongyun ^a,b   Jin, Xiaolu ^a,b   Lo, Lijan ^a,b   Liu, Jianxin ^a,b  

^a MOE Key Laboratory of Molecular Animal Nutrition   (China)

^b ZHEJIANG UNIVERSITY   (China)

Author keywords

[No Author keywords available]

Indexed keywords

MICRORNA; MICRORNA 125B; MICRORNA 141; MICRORNA 181A; MICRORNA 199B; MICRORNA 484; MICRORNA 500; UNCLASSIFIED DRUG;

ANIMAL EXPERIMENT; ANIMAL TISSUE; ARTICLE; BREAST; CONTROLLED STUDY; DAIRY CATTLE; GENE EXPRESSION PROFILING; GENE LIBRARY; GENE TARGETING; LACTATION; MAMMARY GLAND; MAMMARY GLAND FUNCTION; MATHEMATICAL COMPUTING; MICROARRAY ANALYSIS; MILK PRODUCTION; NONHUMAN; REGULATORY MECHANISM; RNA ANALYSIS; RNA LIBRARY; RNA SEQUENCE; SEQUENCE ANALYSIS;

ANIMALS; BASE SEQUENCE; CATTLE; CHROMOSOMES, MAMMALIAN; FEMALE; GENE EXPRESSION PROFILING; GENE REGULATORY NETWORKS; LACTATION; MAMMARY GLANDS, ANIMAL; MICRORNAS; SEQUENCE ANALYSIS, RNA;

BOVINAE;

EID: 84871596251     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/1471-2164-13-731     Document Type: Article

References (40)

1. Lee RC, Feinbaum RL, Ambros V. The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14. Cell 1993, 75(5):843-854. 10.1016/0092-8674(93)90529-Y, 8252621.
2. Song L, Tuan RS. MicroRNAs and cell differentiation in mammalian development. Birth Defects Res C Embryo Today 2006, 78(2):140-149. 10.1002/bdrc.20070, 16847891.
3. Jay C, Nemunaitis J, Chen P, Fulgham P, Tong AW. miRNA profiling for diagnosis and prognosis of human cancer. DNA Cell Biol 2007, 26(5):293-300. 10.1089/dna.2006.0554, 17504025.
4. Hu X, Macdonald DM, Huettner PC, Feng Z, El NI, Schwarz JK, Mutch DG, Grigsby PW, Powell SN, Wang X. A miR-200 microRNA cluster as prognostic marker in advanced ovarian cancer. Gynecol Oncol 2009, 114(3):457-464. 10.1016/j.ygyno.2009.05.022, 19501389.
5. Hennighausen L, Robinson GW. Information networks in the mammary gland. Nat Rev Mol Cell Biol 2005, 6(9):715-725.
6. Silveri L, Tilly G, Vilotte JL, Le Provost F. MicroRNA involvement in mammary gland development and breast cancer. Reprod Nutr Dev 2006, 46(5):549-556. 10.1051/rnd:2006026, 17107644.
7. Rhoads RE, Grudzien-Nogalska E. Translational regulation of milk protein synthesis at secretory activation. J Mammary Gland Biol Neoplasia 2007, 12(4):283-292. 10.1007/s10911-007-9058-0, 18026822.
8. Watson CJ, Oliver CH, Khaled WT. Cytokine signalling in mammary gland development. J Reprod Immunol 2011, 88(2):124-129. 10.1016/j.jri.2010.11.006, 21255846.
9. Bernard L, Leroux C, Chilliard Y. Expression and nutritional regulation of lipogenic genes in the ruminant lactating mammary gland. Adv Exp Med Biol 2008, 606:67-108. 10.1007/978-0-387-74087-4_2, 18183925.
10. Nagaoka K, Tanaka T, Imakawa K, Sakai S. Involvement of RNA binding proteins AUF1 in mammary gland differentiation. Exp Cell Res 2007, 313(13):2937-2945. 10.1016/j.yexcr.2007.04.017, 17512931.
11. Griffiths-Jones S, Grocock RJ, Van Dongen S, Bateman A, Enright AJ. miRBase: microRNA sequences, targets and gene nomenclature. Nucleic Acids Res 2006, 34(Database issue):D140-D144. 1347474, 16381832.
12. Gu Z, Eleswarapu S, Jiang H. Identification and characterization of microRNAs from the bovine adipose tissue and mammary gland. FEBS Lett 2007, 581(5):981-988. 10.1016/j.febslet.2007.01.081, 17306260.
13. Coutinho LL, Matukumalli LK, Sonstegard TS, Van Tassell CP, Gasbarre LC, Capuco AV, Smith TP. Discovery and profiling of bovine microRNAs from immune-related and embryonic tissues. Physiol Genomics 2007, 29(1):35-43.
14. Li M, Xia Y, Gu Y, Zhang K, Lang Q, Chen L, Guan J, Luo Z, Chen H, Li Y, Li Q, Li X, Jiang AA, Shuai S, Wang J, Zhu Q, Zhou X, Gao X, Li X. MicroRNAome of porcine pre- and postnatal development. PLoS One 2010, 5(7):e11541. 10.1371/journal.pone.0011541, 2902522, 20634961.
15. Chun-Mei W, Qing-Zhang L, Ye L. miR-138 function and its targets on mouse mammary epithelial cells. Prog Biochem Biophys 2008, 07:834-838.
16. Kelly PA, Bachelot A, Kedzia C, Hennighausen L, Ormandy CJ, Kopchick JJ, Binart N. The role of prolactin and growth hormone in mammary gland development. Mol Cell Endocrinol 2002, 197(1-2):127-131.
17. Brisken C, Kaur S, Chavarria TE, Binart N, Sutherland RL, Weinberg RA, Kelly PA, Ormandy CJ. Prolactin controls mammary gland development via direct and indirect mechanisms. Dev Biol 1999, 210(1):96-106. 10.1006/dbio.1999.9271, 10364430.
18. Tripurani SK, Xiao C, Salem M, Yao J. Cloning and analysis of fetal ovary microRNAs in cattle. Anim Reprod Sci 2010, 120(1-4):16-22.
19. Long JE, Chen HX. Identification and characteristics of cattle microRNAs by homology searching and small RNA cloning. Biochem Genet 2009, 47(5-6):329-343.
20. Jin W, Grant JR, Stothard P, Moore SS, Guan LL. Characterization of bovine miRNAs by sequencing and bioinformatics analysis. BMC Mol Biol 2009, 10:90. 10.1186/1471-2199-10-90, 2761914, 19758457.
21. Jin W, Dodson MV, Moore SS, Basarab JA, Guan LL. Characterization of microRNA expression in bovine adipose tissues: a potential regulatory mechanism of subcutaneous adipose tissue development. BMC Mol Biol 2010, 11:29. 10.1186/1471-2199-11-29, 2874793, 20423511.
22. Finnerty JR, Wang WX, Hebert SS, Wilfred BR, Mao G, Nelson PT. The miR-15/107 group of microRNA genes: evolutionary biology, cellular functions, and roles in human diseases. J Mol Biol 2010, 402(3):491-509. 10.1016/j.jmb.2010.07.051, 2978331, 20678503.
23. Wright JA, Richer JK, Goodall GJ. microRNAs and EMT in mammary cells and breast cancer. J Mammary Gland Biol Neoplasia 2010, 15(2):213-223. 10.1007/s10911-010-9183-z, 20499142.
24. Martello G, Rosato A, Ferrari F, Manfrin A, Cordenonsi M, Dupont S, Enzo E, Guzzardo V, Rondina M, Spruce T, Parenti AR, Daidone MG, Bicciato S, Piccolo S. A MicroRNA targeting dicer for metastasis control. Cell 2010, 141(7):1195-1207. 10.1016/j.cell.2010.05.017, 20603000.
25. Rogler CE, Levoci L, Ader T, Massimi A, Tchaikovskaya T, Norel R, Rogler LE. MicroRNA-23b cluster microRNAs regulate transforming growth factor-beta/bone morphogenetic protein signaling and liver stem cell differentiation by targeting Smads. Hepatology 2009, 50(2):575-584. 10.1002/hep.22982, 19582816.
26. Bartel DP. MicroRNAs: genomics, biogenesis, mechanism, and function. Cell 2004, 116(2):281-297. 10.1016/S0092-8674(04)00045-5, 14744438.
27. Bentwich I, Avniel A, Karov Y, Aharonov R, Gilad S, Barad O, Barzilai A, Einat P, Einav U, Meiri E, Sharon E, Spector Y, Bentwich Z. Identification of hundreds of conserved and nonconserved human microRNAs. Nat Genet 2005, 37(7):766-770. 10.1038/ng1590, 15965474.
28. Weber MJ. New human and mouse microRNA genes found by homology search. FEBS J 2005, 272(1):59-73.
29. Hayden TJ, Brennan D, Quirke K, Murphy P. Xanthine oxidase/dehydrogenase in mammary gland of mouse: relationship to mammogenesis and lactogenesis in vivo and in vitro. J Dairy Res 1991, 58(4):401-409. 10.1017/S0022029900030004, 1765590.
30. DeSantiago S, Torres N, Hutson S, Tovar AR. Induction of expression of branched-chain aminotransferase and alpha-keto acid dehydrogenase in rat tissues during lactation. Adv Exp Med Biol 2001, 501:93-99. 10.1007/978-1-4615-1371-1_11, 11787736.
31. McManaman JL, Neville MC. Mammary physiology and milk secretion. Adv Drug Deliv Rev 2003, 55(5):629-641. 10.1016/S0169-409X(03)00033-4, 12706546.
32. Liu X, Robinson GW, Wagner KU, Garrett L, Wynshaw-Boris A, Hennighausen L. Stat5a is mandatory for adult mammary gland development and lactogenesis. Genes Dev 1997, 11(2):179-186. 10.1101/gad.11.2.179, 9009201.
33. Yang J, Kennelly JJ, Baracos VE. The activity of transcription factor Stat5 responds to prolactin, growth hormone, and IGF-I in rat and bovine mammary explant culture. J Anim Sci 2000, 78(12):3114-3125.
34. Feuermann Y, Robinson GW, Zhu BM, Kang K, Raviv N, Yamaji D, Hennighausen L. The miR-17/92 cluster is targeted by STAT5 but dispensable for mammary development. Genesis 2012,
35. Mignone F, Gissi C, Liuni S, Pesole G. Untranslated regions of mRNAs. Genome Biol 2002, 3(3):1-10. reviews0004.
36. Markham NR, Zuker M. UNAFold: software for nucleic acid folding and hybridization. Methods Mol Biol 2008, 453:3-31. 10.1007/978-1-60327-429-6_1, 18712296.
37. Romualdi C, Bortoluzzi S, D'Alessi F, Danieli GA. IDEG6: a web tool for detection of differentially expressed genes in multiple tag sampling experiments. Physiol Genomics 2003, 12(2):159-162.
38. Gao X, Gulari E, Zhou X. In situ synthesis of oligonucleotide microarrays. Biopolymers 2004, 73(5):579-596. 10.1002/bip.20005, 15048782.
39. Bolstad BM, Irizarry RA, Astrand M, Speed TP. A comparison of normalization methods for high density oligonucleotide array data based on variance and bias. Bioinformatics 2003, 19(2):185-193. 10.1093/bioinformatics/19.2.185, 12538238.
40. Paquette J, Tokuyasu T. EGAN: exploratory gene association networks. Bioinformatics 2010, 26(2):285-286. 10.1093/bioinformatics/btp656, 2804305, 19933825.