Publications using RealSeq technology

2022

1. Reshi, Q.U.A., Godakumara, K., Ord, J. et al. Spermatozoa, acts as an external cue and alters the cargo and production of the extracellular vesicles derived from oviductal epithelial cells in vitro. J. Cell Commun. Signal. (2022). https://doi.org/10.1007/s12079-022-00715-w

2. Baldrich, P., Liu, A., Meyers, B. C., & Fondong, V. N. (2022). An atlas of small RNAs from potato. Plant Direct, 6( 12), e466. https://doi.org/10.1002/pld3.466

3. Baker, M.E.; Lee, S.; Clinton, M.; Hackl, M.; Castanheira, C.; Peffers, M.J.; Taylor, S.E. Investigation of MicroRNA Biomarkers in Equine Distal Interphalangeal Joint Osteoarthritis. Int. J. Mol. Sci. 2022, 23, 15526. https://doi.org/10.3390/ijms232415526

4. Messner Z, Carro Vázquez D, Haschka J, Grillari J, Resch H, Muschitz C, Pietschmann P, Zwerina J, Hackl M, Kocijan R, Circulating miRNAs Respond to Denosumab Treatment After 2 Years in Postmenopausal Women With Osteoporosis—the MiDeTe study, The Journal of Clinical Endocrinology & Metabolism, 2022;, dgac667, https://doi.org/10.1210/clinem/dgac667

5. de las Heras J, Todorow V, Krečinić-Balić L, Hintze S, Czapiewski R, Webb S, Schoser B, Meinke P, Schirmer EC, Metabolic, fibrotic and splicing pathways are all altered in Emery-Dreifuss muscular dystrophy spectrum patients to differing degrees, Human Molecular Genetics, 2022;, ddac264, https://doi.org/10.1093/hmg/ddac264

6. Fernandez GJ, Ramírez-Mejía JM, Urcuqui-Inchima S. Transcriptional and post-transcriptional mechanisms that regulate the genetic program in Zika virus-infected macrophages. Int J Biochem Cell Biol. 2022 Oct 17;153:106312.doi: 10.1016/j.biocel.2022.106312.

7. Amelkina O, da Silva AM, Silva AR, Comizzoli P. Feline microRNAome in ovary and testis: Exploration of in-silico miRNA-mRNA networks involved in gonadal function and cellular stress response. Front Genet. 2022 Sep 26;13:1009220. doi: 10.3389/fgene.2022.1009220. eCollection 2022.

8. Fernandez GJ, Ramírez-Mejía JM, Urcuqui-Inchima S. Vitamin D boosts immune response of macrophages through a regulatory network of microRNAs and mRNAs. J Nutr Biochem. 2022 Jul 17;109:109105. doi: 10.1016/j.jnutbio.2022.109105. Epub ahead of print. PMID: 35858666.

9. Liu, X., Alwaseem, H., Molina, H., Tavora, B. & Tavazoie, S. F. A pro-metastatic tRNA fragment drives Nucleolin oligomerization and stabilization of bound metabolic mRNAs. Mol Cell. 2022 Jul 21;82(14):2604-2617.e8. doi: 10.1016/j.molcel.2022.05.008. Epub 2022 Jun 1.

10. Hacquard, T, Marion Clavel, Patricia Baldrich, Esther Lechner, et al. The Arabidopsis F-box protein FBW2 targets AGO1 for degradation to prevent spurious loading of illegitimate small RNA. Cell Rep. 2022 Apr 12;39(2):110671.doi:10.1016/j.celrep.2022.110671.

11. Karimi, H.Z., Patricia Baldrich, Brian D Rutter, Lucía Borniego, Kamil K Zajt, Blake C Meyers, Roger W Innes, Arabidopsis apoplastic fluid contains sRNA- and circular RNA–protein complexes that are located outside extracellular vesicles, The Plant Cell, Volume 34, Issue 5, May 2022, Pages 1863–1881, https://doi.org/10.1093/plcell/koac043

12. Carro Vázquez, D. et al. Effect of Anti-Osteoporotic Treatments on Circulating and Bone MicroRNA Patterns in Osteopenic ZDF Rats. International Journal of Molecular Sciences 23, 6534 (2022).

13. Zand Karimi, H. et al. Arabidopsis apoplastic fluid contains sRNA- and circular RNA–protein complexes that are located outside extracellular vesicles. The Plant Cell 34, 1863-1881, doi:10.1093/plcell/koac043 (2022).

14. Zhou, X., Huang, K., Teng, C., Abdelgawad, A., Batish, M., Meyers, B.C. and Walbot, V. (2022), 24-nt phasiRNAs move from tapetal to meiotic cells in maize anthers. New Phytol, 235: 488-501. https://doi.org/10.1111/nph.18167

15. Vázquez-Villaseñor, I. et al. RNA-Seq Profiling of Neutrophil-Derived Microvesicles in Alzheimer’s Disease Patients Identifies a miRNA Signature That May Impact Blood-Brain Barrier Integrity. International Journal of Molecular Sciences 23, 5913 (2022).

16. Lattekivi, F. et al. Profiling Blood Serum Extracellular Vesicles in Plaque Psoriasis and Psoriatic Arthritis Patients Reveals Potential Disease Biomarkers. Int J Mol Sci 23, doi:10.3390/ijms23074005 (2022).

17. Ravishankar, P., and Daily A., Tears as the Next Diagnostic Biofluid: A Comparative Study between Ocular Fluid and Blood. Applied Sciences, 2022, 12(6), 2884; https://doi.org/10.3390/app12062884

18. Khamina, K., et al., A MicroRNA Next-Generation-Sequencing Discovery Assay (miND) for Genome-Scale Analysis and Absolute Quantitation of Circulating MicroRNA Biomarkers. Int. J. Mol. Sci. 2022, 23(3), 1226; https://doi.org/10.3390/ijms23031226

19. Gutmann, C., et al., Association of cardiometabolic microRNAs with COVID-19 severity and mortality. Cardiovascular Research, Volume 118, Issue 2, February 2022, Pages 461–474, https://doi.org/10.1093/cvr/cvab338

20. Androvic, P., et al., Small RNA-Sequencing for Analysis of Circulating miRNAs: Benchmark Study. J Mol Diagn. 2022 Jan 23;S1525-1578(22)00011-3. doi: 10.1016/j.jmoldx.2021.12.006.

    2021

21. Kaddour, H., et al., HIV-Infection and Cocaine Use Regulate Semen Extracellular Vesicles Proteome and miRNAome in a Manner that Mediates Strategic Monocyte Haptotaxis Governed by mIR-128 Network. Cell Mol Life Sci. 2021 Dec 22;79(1):5. doi: 10.1007/s00018-021-04068-2.

22. Bissoondial, T.L., et al., Identification of disease-associated microRNA in a diet-induced model of nonalcoholic steatohepatitis. Mol Omics. 2021 Dec 6;17(6):911-916. doi: 10.1039/d1mo00274k.

23. Pokhrel, S., Huang, K., Bélanger, S. et al. Pre-meiotic 21-nucleotide reproductive phasiRNAs emerged in seed plants and diversified in flowering plants. Nat Commun 12, 4941 (2021). https://doi.org/10.1038/s41467-021-25128-y

24. Vollmers AC, Covarrubias S, Kuang D, Shulkin A, Iwuagwu J, Katzman S, Song R, Viswanathan K, Vollmers C, Wakeland E, Carpenter S. A conserved long noncoding RNA, GAPLINC, modulates the immune response during endotoxic shock. Proc Natl Acad Sci U S A. 2021 Feb 16;118(7):e2016648118. doi: 10.1073/pnas.2016648118. PMID: 33568531; PMCID: PMC7896317.

    2020

25. Sébastien Bélanger, Suresh Pokhrel, Kirk Czymmek, Blake C. Meyers, Premeiotic, 24-Nucleotide Reproductive PhasiRNAs Are Abundant in Anthers of Wheat and Barley But Not Rice and Maize , Plant Physiology, Volume 184, Issue 3, November 2020, Pages 1407–1423, https://doi.org/10.1104/pp.20.00816

26. Ord, J, Heath, PR, Fazeli, A, Watt, PJ. Paternal effects in a wild-type zebrafish implicate a role of sperm-derived small RNAs. Mol Ecol. 2020; 29: 2722– 2735. https://doi.org/10.1111/mec.15505

27. Hutter, K., et al., SAFB2 Enables the Processing of Suboptimal Stem-Loop Structures in Clustered Primary miRNA Transcripts. Mol Cell. 2020 Jun 4;78(5):876-889.e6. doi: 10.1016/j.molcel.2020.05.011

28. Teng, C., et al., Dicer-like 5 deficiency confers temperature-sensitive male sterility in maize. Nat Commun, 2020. 11(1): p. 2912.

29. Herbert, Z.T., et al., Multisite Evaluation of Next-Generation Methods for Small RNA Quantification. J Biomol Tech, 2020. 31(2): p. 47-56.

30. Bing Sun, Linda Abadjian, Alexander Monto, Heather Freasier, Lynn Pulliam, Hepatitis C Virus Cure in Human Immunodeficiency Virus Coinfection Dampens Inflammation and Improves Cognition Through Multiple Mechanisms, The Journal of Infectious Diseases, Volume 222, Issue 3, 1 August 2020, Pages 396–406, https://doi.org/10.1093/infdis/jiaa109

    2018

31. Barberan-Soler, S., et al., Decreasing miRNA sequencing bias using a single adapter and circularization approach. Genome Biol, 2018. 19(1): p. 105.

Preprints

1. Bélanger, S., Kramer, M.C., Payne, H.A., R. Keith Slotkin, Blake C. Meyers, Jeffrey M. Staub. Plastid double-strand RNA transgenes trigger small RNA-based gene silencing of nuclear-encoded genes. bioRxiv 2022.12.06.519219; doi: https://doi.org/10.1101/2022.12.06.519219

2. Kusch, S. Singh, M., Thieron, H., Spanu, P.D., Panstruga, R. Site-specific analysis reveals candidate cross-kingdom small RNAs, tRNA and rRNA fragments, and signs of fungal RNA phasing in the barlsupplementary fileey-powdery mildew interaction. bioRxiv, doi: https://doi.org/10.1101/2022.07.26.501657

3. Baldrich, P., et al., Ligation bias is a major contributor to nonstoichiometric abundances of secondary siRNAs and impacts analyses of microRNAs. bioRxiv, 2020: p. 2020.09.14.296616.

4. Dargyte, M., et al., Splicing factor SRSF1 expands the regulatory logic of microRNA expression. bioRxiv 2020.05.12.092270; doi: https://doi.org/10.1101/2020.05.12.092270

5. Chapagain, P., et al., sRNAs enriched in outer membrane vesicles of pathogenic Flavobacterium psychrophilum interact with immune genes of rainbow trout. bioRxiv. doi: https://doi.org/10.1101/2021.12.22.473952

White papers

1. Zymo Research. “Assessment of Cell-Free Nucleic Acid Isolation Efficiencies for Liquid Biopsy Research”

2. Zymo Research. “Are Liquid Biopsies the Future of Diagnostics?”