Uptake of dietary milk miRNAs by adult humans: A validation study

F1000Research

Volumn 5, Issue , 2016, Pages

  Witwer, Kenneth ^a   Auerbach, Amanda ^a   Vyas, Gopi ^a   Li, Anne ^a   Halushka, Marc ^a  

^a JOHNS HOPKINS UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

MICRORNA; MICRORNA 200C; MICRORNA 200C 3P; MICRORNA 29B; MICRORNA 29B 3P; UNCLASSIFIED DRUG;

ADULT; ARTICLE; BLOOD SAMPLING; CIRCULATION; CONTROLLED STUDY; FLUID INTAKE; GENE MAPPING; HUMAN; HUMAN CELL; MICROARRAY ANALYSIS; MILK; PERIPHERAL BLOOD MONONUCLEAR CELL; POLYMERASE CHAIN REACTION; RNA ANALYSIS; RNA SEQUENCE; RNA STABILITY; SEQUENCE HOMOLOGY; SIGNAL TRANSDUCTION; VALIDATION STUDY;

EID: 84978473013     PISSN: 20461402     EISSN: 1759796X     Source Type: Journal    
DOI: 10.12688/f1000research.8548.1     Document Type: Article

References (44)

1. Witwer KW: XenomiRs and miRNA homeostasis in health and disease: Evidence that diet and dietary miRNAs directly and indirectly influence circulating miRNA profiles. RNA Biol. 2012;9(9):1147-54. 22951590 10.4161/rna.21619 3579881
2. Bartel DP: MicroRNAs: target recognition and regulatory functions. Cell. 2009;136(2):215-33. 19167326 10.1016/j.cell.2009.01.002 3794896
3. Hutvágner G Zamore PD: A microRNA in a multiple-turnover RNAi enzyme complex. Science. 2002;297(5589):2056-60. 12154197 10.1126/science.1073827
4. Meister G Landthaler M Patkaniowska A: Human Argonaute2 mediates RNA cleavage targeted by miRNAs and siRNAs. Mol Cell. 2004;15(2):185-97. 15260970 10.1016/j.molcel.2004.07.007
5. Farazi TA Juranek SA Tuschl T: The growing catalog of small RNAs and their association with distinct Argonaute/Piwi family members. Development. 2008;135(7):1201-14. 18287206 10.1242/dev.005629
6. Seitz H: Redefining microRNA targets. Curr Biol. 2009;19(10):870-3. 19375315 10.1016/j.cub.2009.03.059
7. Kosaka N Izumi H Sekine K: microRNA as a new immune-regulatory agent in breast milk. Silence. 2010;1(1):7. 20226005 10.1186/1758-907X-1-7 2847997
8. Zonneveld MI Brisson AR van Herwijnen MJ: Recovery of extracellular vesicles from human breast milk is influenced by sample collection and vesicle isolation procedures. J Extracell Vesicles. 2014;3: 24215. 25206958 10.3402/jev.v3.24215 4139932
9. Chen X Gao C Li H: Identification and characterization of microRNAs in raw milk during different periods of lactation, commercial fluid, and powdered milk products. Cell Res. 2010;20(10):1128-37. 20548333 10.1038/cr.2010.80
10. Baier SR Nguyen C Xie F: MicroRNAs are absorbed in biologically meaningful amounts from nutritionally relevant doses of cow milk and affect gene expression in peripheral blood mononuclear cells, HEK-293 kidney cell cultures, and mouse livers. J Nutr. 2014;144(10):1495-500. 25122645 10.3945/jn.114.196436 4162473
11. Witwer KW: Diet-responsive mammalian miRNAs are likely endogenous. J Nutr. 2014;144(11):1880-1. 25332488 10.3945/jn.114.202523
12. He A Zhu L Gupta N: Overexpression of micro ribonucleic acid 29, highly up-regulated in diabetic rats, leads to insulin resistance in 3T3-L1 adipocytes. Mol Endocrinol. 2007;21(11):2785-94. 17652184 10.1210/me.2007-0167
13. Bagge A Clausen TR Larsen S: MicroRNA-29a is up-regulated in beta-cells by glucose and decreases glucose-stimulated insulin secretion. Biochem Biophys Res Commun. 2012;426(2):266-72. 22940552 10.1016/j.bbrc.2012.08.082
14. Pandey AK Verma G Vig S: miR-29a levels are elevated in the db/db mice liver and its overexpression leads to attenuation of insulin action on PEPCK gene expression in HepG2 cells. Mol Cell Endocrinol. 2011;332(1-2):125-33. 20943204 10.1016/j.mce.2010.10.004
15. Hennessy E Clynes M Jeppesen PB: Identification of microRNAs with a role in glucose stimulated insulin secretion by expression profiling of MIN6 cells. Biochem Biophys Res Commun. 2010;396(2):457-62. 20417623 10.1016/j.bbrc.2010.04.116
16. McAlexander MA Phillips MJ Witwer KW: Comparison of Methods for miRNA Extraction from Plasma and Quantitative Recovery of RNA from Cerebrospinal Fluid. Front Genet. 2013;4:83. 23720669 10.3389/fgene.2013.00083 3655275
17. Tosar JP Rovira C Naya H: Mining of public sequencing databases supports a non-dietary origin for putative foreign miRNAs: underestimated effects of contamination in NGS. RNA. 2014;20(6):754-7. 24729469 10.1261/rna.044263.114 4024629
18. Witwer KW Hirschi KD: Transfer and functional consequences of dietary microRNAs in vertebrates: concepts in search of corroboration: negative results challenge the hypothesis that dietary xenomiRs cross the gut and regulate genes in ingesting vertebrates, but important questions persist. Bioessays 2014;36(4):394-406. 24436255 10.1002/bies.201300150 4109825
19. McCall MN Baras AS Crits-Christoph A: A benchmark for microRNA quantification algorithms using the OpenArray platform. BMC Bioinformatics. 2016;17(1):138. 27000067 10.1186/s12859-016-0987-8 4802579
20. Chu VT Gottardo R Raftery AE: MeV+R: using MeV as a graphical user interface for Bioconductor applications in microarray analysis. Genome Biol. 2008;9(7):R118. 18652698 10.1186/gb-2008-9-7-r118 2530872
21. Edgar R Domrachev M Lash AE: Gene Expression Omnibus: NCBI gene expression and hybridization array data repository. Nucleic Acids Res. 2002;30(1):207-10. 11752295 10.1093/nar/30.1.207 99122
22. Clough E Barrett T: The Gene Expression Omnibus Database. Methods Mol Biol. 2016;1418:93-110. 27008011 10.1007/978-1-4939-3578-9_5
23. Chen C Ridzon DA Broomer AJ: Real-time quantification of microRNAs by stem-loop RT-PCR. Nucleic Acids Res. 2005;33(20):e179. 16314309 10.1093/nar/gni178 1292995
24. Baras AS Mitchell CJ Myers JR: miRge - A Multiplexed Method of Processing Small RNA-Seq Data to Determine MicroRNA Entropy. PLoS One. 2015;10(11):e0143066. 26571139 10.1371/journal.pone.0143066 4646525
25. Vitsios DM Enright AJ: Chimira: analysis of small RNA sequencing data and microRNA modifications. Bioinformatics. 2015;31(20):3365-7. 26093149 10.1093/bioinformatics/btv380 4595902
26. Love MI Huber W Anders S: Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol. 2014;15(12):550. 25516281 10.1186/s13059-014-0550-8 4302049
27. Langmead B Trapnell C Pop M: Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. BioMed Central;2009;10(3):R25. 19261174 10.1186/gb-2009-10-3-r25 2690996
28. Kozomara A Griffiths-Jones S: miRBase: annotating high confidence microRNAs using deep sequencing data. Nucleic Acids Res. 2014;42(Database issue):D68-73. 24275495 10.1093/nar/gkt1181 3965103
29. Izumi H Tsuda M Sato Y: Bovine milk exosomes contain microRNA and mRNA and are taken up by human macrophages. J Dairy Sci. 2015;98(5):2920-33. 25726110 10.3168/jds.2014-9076
30. Bağci C Allmer J: One Step Forward, Two Steps Back; Xeno-MicroRNAs Reported in Breast Milk Are Artifacts. PLoS One. 2016;11(1):e0145065. 26824347 10.1371/journal.pone.0145065 4732600
31. Ai J Zhang R Li Y: Circulating microRNA-1 as a potential novel biomarker for acute myocardial infarction. Biochem Biophys Res Commun. 2010;391(1):73-7. 19896465 10.1016/j.bbrc.2009.11.005
32. Shu J Chiang K Zempleni J: Computational Characterization of Exogenous MicroRNAs that Can Be Transferred into Human Circulation. PLoS One. 2015;10(11):e0140587. 26528912 10.1371/journal.pone.0140587 4631372
33. Homo sapiens (ID 307561) - BioProject - NCBI. Reference Source
34. Kent OA McCall MN Cornish TC: Lessons from miR-143/145: the importance of cell-type localization of miRNAs. Nucleic Acids Res. 2014;42(12):7528-38. 24875473 10.1093/nar/gku461 4081080
35. Laubier J Castille J Le Guillou S: No effect of an elevated miR-30b level in mouse milk on its level in pup tissues. RNA Biol. 2015;12(1):26-9. 25763824 10.1080/15476286.2015.1017212 4615842
36. Title AC Denzler R Stoffel M: Uptake and Function Studies of Maternal Milk-derived MicroRNAs. J Biol Chem. 2015;290(39):23680-91. 26240150 10.1074/jbc.M115.676734 4583031
37. Howard KM Jati Kusuma R Baier SR: Loss of miRNAs during processing and storage of cow's (Bos taurus) milk. J Agric Food Chem. 2015;63(2):588-92. 25565082 10.1021/jf505526w 4387787
38. Mlotshwa S Pruss GJ MacArthur JL: A novel chemopreventive strategy based on therapeutic microRNAs produced in plants. Cell Res. 2015;25(4):521-4. 25721325 10.1038/cr.2015.25 4387556
39. Liang H Zhang S Fu Z: Effective detection and quantification of dietetically absorbed plant microRNAs in human plasma. J Nutr Biochem. 2015;26(5):505-12. 25704478 10.1016/j.jnutbio.2014.12.002
40. Witwer KW: Contamination or artifacts may explain reports of plant miRNAs in humans. J Nutr Biochem. 2015;26(12):1685. 26456566 10.1016/j.jnutbio.2015.09.004
41. Wolf T Baier SR Zempleni J: The Intestinal Transport of Bovine Milk Exosomes Is Mediated by Endocytosis in Human Colon Carcinoma Caco-2 Cells and Rat Small Intestinal IEC-6 Cells. J Nutr. 2015;145(10):2201-6. 26269243 10.3945/jn.115.218586 4580964
42. Cottrill KA Chan SY: Diet-Derived MicroRNAs: Separating the Dream from Reality. microRNA Diagnostics Ther. 2014;1(1):46-57. 10.2478/micrnat-2014-0001
43. Petrick JS Brower-Toland B Jackson AL: Safety assessment of food and feed from biotechnology-derived crops employing RNA-mediated gene regulation to achieve desired traits: a scientific review. Regul Toxicol Pharmacol. 2013;66(2):167-76. 23557984 10.1016/j.yrtph.2013.03.008
44. Auerbach AR Vyas G Li A: Dataset: Uptake of dietary milk miRNAs by adult humans: a validation study. Open Science Framework. 2016. Data Source