教育经历

2014.09 - 2018.09 香港大学 博士学位 （生物科学） 导师：顾继东教授，James Tiedje教授

2010.09 - 2014.07 香港浸会大学 学士学位（应用生物-环境科学）一等荣誉

工作经历

2026.09 - 至今 深圳大学高等研究院 特聘教授

2021.11 - 2026.09 美国太平洋西北国家实验室 计算科学家

2018.10 - 2021.10 美国太平洋西北国家实验室 博士后 导师：Janet Jansson

2016.10 - 2018.07 美国密歇根州立大学，访问博士研究生。导师：James Tiedje、Jim Cole

2013.07 - 2014.07 香港中文大学消化疾病研究国家重点实验室，实习研究员。导师：于君教授

2012.07 - 2012.09 香港浸会大学生物系，实习研究员。导师：梁岩教授

研究方向

1. 病毒辅助代谢基因及宿主代谢重编程: 从分子、结构和功能层面解析病毒辅助代谢基因，研究病毒蛋白与宿主细胞系统的相互作用及其在感染过程中对宿主代谢的调控机制。

2. 病毒生态学与病毒-微生物组互作: 研究病毒如何影响不同微生物组体系中的群落结构、功能与稳定性，以及病毒与宿主互作如何响应环境、生理及生态扰动。

3. 病毒与微生物组的跨尺度系统建模: 整合分子机制、多组学数据、基因组尺度代谢模型及群落层级信息，连接病毒遗传变异和蛋白功能与宿主生理、微生物互作及系统层级过程。

4. 噬菌体工程与微生物组功能调控: 发展预测方法，以便工程化利用噬菌体调控微生物组组成、代谢功能及过程性能，并探索其在环境及人体相关微生物组体系中的应用。

发表文章

1. Rodríguez-Ramos J.A., Zimmerman A.E., Wu R., Bell S.L., Alfaro T.D., Reichart N.J., Hofmockel K.S., Nelson W.C. Preparation method shapes the recovery and ecological interpretation of DNA and RNA soil viral communities. Nat. Commun. 2026, 17, 7551.

2. Veličković M., Thairu M.W., Gao Y., Clendinen C.S., Munoz N., Lalli P.M., Nicora C.D., Stratton K.G., Monroe M.E., Moore R.J., Currie C.R., Wu R. (corresponding author), Burnum-Johnson K.E. Deciphering taxon-specific metabolic shifts during pathogenic fungal infection in leaf-cutter ant fungal gardens. ISME Commun. 2026, 6(1), ycag213.

3. Gao Y., Kim J., Wu R. (co-first author), Chowdhury N.B., Lee J.-Y., Nicora C.D., Moore R.J., Monroe M.E., Jansson J.K., Burnum-Johnson K.E. Metaproteomics uncovers the functional capacity of a soil microbiome. Sci. Rep. 2026, 16, 22142.

4. Rozum J.C., Sineath W., Bohutskyi P., Quenneville J., Kim D.N., Johnson C.G., Mehta A.P., Evans J., Pollock D., Qian W.-J., Cheung M.S., Wu R. (corresponding author), Feng S. (corresponding author). Synergy and antagonism in a genome-scale model of metabolic hijacking by bacteriophages. Sci. Adv. 2026, 12(14), eaeb7646.

5. Qi H., Wu R., Liao J., Alvarez P.J.J., Yu P. Longitudinal multi-omics reveal phase-dependent viral adaptive strategies and functional potential during formation of algal-bacterial granular sludge. Bioresour. Technol. 2026, 449, 134410.

6. Boise N.R., Leiser O.P., Jones K., Peter-Frank M., Leach D., Crafton-Tempel S., Regier P., Wu R., Phillips C., Cheung M.S., Johnson C.G.M., Edmundson S.J., Pollock D.D. Sampling microbial dynamics in the Salish Sea estuary: evaluating methods to capture cyanobacteria and cyanophage. Front. Mar. Sci. 2026, 13, 1769457.

7. Fiamenghi M.B., Camargo A.P., Ivanova N.N., Graham E.B., Wu R., Hofmockel K.S., Kyrpides N.C. A global soil plasmidome resource unveils functional and ecological roles of plasmids in soil microbiomes. Nat. Commun. 2025, 16, 10089.

8. Touceda-Suárez M., Perry M.A., Frizzo R., Lotz-McMillen J.H., Gilmore R.A., Bennett S.M., Basso J.T.R., Donovan W., Fudyma J.D., Geonczy S.E., Gittrich M., Gogul G., Hazard C., Hillary L.S., Jameson E., Jiraska L., Johnson S.S., Kosmopoulos J.C., Leleiwi I., Ma B., Mageeney C.M., Millard A., Neri U., Rodríguez-Ramos J., Roux S., Tong D., Wang Y., Williamson K., Wu R., Martins P.D., Sapkota R., Emerson J.B., Trubl G. Meeting report: International soil virus conference. Virus Res. 2025, 354, 199544.

9. Veličković M., Kadam L., Kim J., Zemaitis K.J., Veličković D., Gao Y., Wu R., Fillmore T.L., Orton D., Williams S.M., Monroe M.E., Moore R.J., Piehowski P.D., Bramer L.M., Myatt L., Burnum-Johnson K.E. Advanced multi-modal mass spectrometry imaging reveals functional differences of placental villous compartments at microscale resolution. Nat. Commun. 2025, 16, 2061.

10. Huang D., Liao J., Balcazar J.L., Ye M., Wu R., Wang D., Alvarez P.J.J., Yu P. Adaptive modification of antiviral defense systems in microbial community under Cr-induced stress. Microbiome 2025, 13, 34.

11. Wu R., Veličković M., Burnum-Johnson K.E. From single cell to spatial multi-omics: unveiling molecular mechanisms in dynamic and heterogeneous systems. Curr. Opin. Biotechnol. 2024, 89, 103174.

12. Veličković M., Wu R., Gao Y., Thairu M.W., Veličković D., Munoz N., Clendinen C.S., Bilbao A., Chu R.K., Lalli P.M., Zemaitis K., Nicora C.D., Kyle J.E., Orton D., Williams S., Zhu Y., Zhao R., Monroe M.E., Moore R.J., Webb-Robertson B.M., Bramer L.M., Currie C.R., Piehowski P.D., Burnum-Johnson K.E. Mapping microhabitats of lignocellulose decomposition by a microbial consortium. Nat. Chem. Biol. 2024, 20(8), 1033-1043.

13. Wu R., Zimmerman A.E., Hofmockel K.S. The direct and indirect drivers shaping RNA viral communities in grassland soils. mSystems 2024, 9(8), e0009924.

14. Qi H., Wu R., Ye M., Huang D., Wang L., Liao J., Yu P. Symbiotic bacteriophages exhibit multiple adaptive strategies in activated sludge flocs and contribute to floc stability. Chem. Eng. J. 2024, 492, 152448.

15. Graham E.B., Camargo A.P., Wu R., Neches R.Y., Nolan M., Paez-Espino D., Copeland A., Kyrpides N., Jansson J.K., McDermott J.E., Hofmockel K.S., Soil Virosphere Consortium. A global atlas of soil viruses reveals unexplored biodiversity and potential biogeochemical impacts. Nat. Microbiol. 2024, 9(7), 1873-1883.

16. Graham E.B., Garayburu-Caruso V.A., Wu R., Zheng J., Jones G. Genomic fingerprints of the world's soil ecosystems. mSystems 2024, 9(6), e0111223.

17. Chen T., Wu R., Cheng L., Liao Q., Chen Z. Editorial: Vaginal microecological disorder and gynecological diseases. Front. Cell. Infect. Microbiol. 2023, 13, 1292815.

18. Wu R., Davison M.R., Nelson W.C., Smith M.L., Lipton M.S., Jansson J.K., McClure R.S., McDermott J.E., Hofmockel K.S. Hi-C metagenome sequencing reveals soil phage-host interactions. Nat. Commun. 2023, 14, 7666.

19. Jansson J.K., Wu R. Soil viral diversity, ecology and climate change. Nat. Rev. Microbiol. 2023, 21(5), 296-311.

20. Wu R., Trubl G., Taş N., Jansson J.K. Permafrost as a potential pathogen reservoir. One Earth 2022, 5(4), 351-360.

21. Wu R., Smith C.A., Buchko G.W., Blaby I.K., Paez-Espino D., Kyrpides N.C., Yoshikuni Y., McDermott J.E., Hofmockel K.S., Cort J.R., Jansson J.K. Structural characterization of a soil viral auxiliary metabolic gene product, a functional chitosanase. Nat. Commun. 2022, 13, 1-14.

22. Lee J.Y., Mitchell H.D., Burnet M.C., Wu R., Jenson S.C., Merkley E.D., Nakayasu E.S., Nicora C.D., Jansson J.K., Burnum-Johnson K.E., Payne S.H. Uncovering hidden members and functions of the soil microbiome using de novo metaproteomics. J. Proteome Res. 2022, 21(8), 2023-2035.

23. Wu R. (corresponding author), Bottos E.M., Danna V.G., Stegen J.C., Jansson J.K., Davison M.R. RNA viruses linked to eukaryotic hosts in thawed permafrost. mSystems 2022, 7(6), e00582-22.

24. Wu R., Davison M.R., Nelson W.C., Graham E.B., Fansler S.J., Farris Y., Bell S.L., Godinez I., McDermott J.E., Hofmockel K.S., Jansson J.K. DNA viral diversity, abundance, and functional potential vary across grassland soils with a range of historical moisture regimes. mBio 2021, 12(6), e02595-21.

25. Wu R., Davison M.R., Gao Y., Nicora C.D., McDermott J.E., Burnum-Johnson K.E., Hofmockel K.S., Jansson J.K. Moisture modulates soil reservoirs of active DNA and RNA viruses. Commun. Biol. 2021, 4, 1-11.

26. Wu R., Chai B., Cole J.R., Gunturu S.K., Guo X., Tian R., Gu J.-D., Zhou J., Tiedje J.M. Targeted assemblies of cas1 suggest CRISPR-Cas's response to soil warming. ISME J. 2020, 14(7), 1651-1662.

27. Nelson W.C., Anderson L.N., Wu R., McDermott J.E., Bell S.L., Jumpponen A., Fansler S.J., Tyrrell K.J., Farris Y., Hofmockel K.S. Terabase metagenome sequencing of grassland soil microbiomes. Microbiol. Resour. Announc. 2020, 9(32), e00718-20.

28. Wu R., Meng H., Wang Y., Gu J.-D. Functional dominance and community compositions of ammonia-oxidizing archaea in extremely acidic soils of natural forests. Appl. Microbiol. Biotechnol. 2019, 103(10), 4229-4240.

29. Meng H., Zhou Z., Wu R., Wang Y., Gu J.-D. Diazotrophic microbial community and abundance in acidic subtropical natural and re-vegetated forest soils revealed by high-throughput sequencing of nifH gene. Appl. Microbiol. Biotechnol. 2019, 103(2), 995-1005.

30. Wu R., Meng H., Wang Y., Gu J.-D. Effects of reforestation on ammonia-oxidizing microbial community composition and abundance in subtropical acidic forest soils. Appl. Microbiol. Biotechnol. 2018, 102(12), 5309-5322.

31. Luo L., Wu R., Gu J.-D., Zhang J., Deng S., Zhang Y., Wang L., He Y. Influence of mangrove roots on microbial abundance and ecoenzyme activity in sediments of a subtropical coastal mangrove ecosystem. Int. Biodeterior. Biodegradation 2018, 132, 10-17.

32. Meng H., Wu R., Wang Y., Gu J.-D. A comparison of denitrifying bacterial community structures and abundance in acidic soils between natural forest and re-vegetated forest of Nanling Nature Reserve in southern China. J. Environ. Manage. 2017, 198, 41-49.

33. Wu R., Meng H., Wang Y., Lan W., Gu J.-D. A more comprehensive community of ammonia-oxidizing archaea revealed by genomic DNA and RNA analyses of amoA gene in subtropical acidic forest soils. Microb. Ecol. 2017, 74(4), 910-922.

34. Zhang X., Wu W.K., Xu W., Man K., Wang X., Han J., Leung W.Y., Wu R., Liu K., Yu J. CXC motif chemokine 10 impairs autophagy and autolysosome formation in non-alcoholic steatohepatitis. Theranostics 2017, 7(11), 2822-2836.

35. Luo L., Meng H., Wu R., Gu J.-D. Impact of nitrogen pollution/deposition on extracellular enzyme activity, microbial abundance and carbon storage in coastal mangrove sediment. Chemosphere 2017, 177, 275-283.

36. Meng H., Wang Y., Chan H., Wu R., Gu J.-D. Co-occurrence of nitrite-dependent anaerobic ammonium and methane oxidation processes in subtropical acidic forest soils. Appl. Microbiol. Biotechnol. 2016, 100(17), 7727-7739.

37. Luo L., Wu R., Meng H., Li X., Gu J.-D. Seasonal and spatial variations in diversity and abundance of bacterial laccase-like genes in sediments of a subtropical mangrove ecosystem. Int. Biodeterior. Biodegradation 2016, 114, 260-267.

38. Wu R., Nakatsu G., Zhang X., Yu J. Pathophysiological mechanisms and therapeutic potentials of macrophages in non-alcoholic steatohepatitis. Expert Opin. Ther. Targets 2016, 20(5), 615-626.

39. Tong G., Du F., Liang Y., Hu Q., Wu R., Guan J., Hu X. Polymorphous ZnO complex architectures: selective synthesis, mechanism, surface area and Zn-polar plane-codetermining antibacterial activity. J. Mater. Chem. B 2013, 1(4), 454-463.

40. Tong G., Du F., Wu W., Wu R., Liu F., Liang Y. Enhanced reactive oxygen species yields and antibacterial activity of spongy ZnO/ZnFe2O4 hybrid micro-hexahedra selectively synthesized through a versatile glucose-engineered co-precipitation/annealing process. J. Mater. Chem. B 2013, 1(20), 2647-2657.

奖励与兼职

1. 美国太平洋西北国家实验室杰出贡献奖, 2023

2. 美国太平洋西北国家实验室Rockstar Award, 2023

3. 美国太平洋西北国家实验室Rockstar Award, 2022

4. 美国微生物协会Outstanding Abstract Award, 2018

5. Frontiers in cellular and infection microbiology, 客座编辑，2023

6. Journal of Environmental Management, 副主编，2024

邀请口头报告

1. NIH Human Virome Program Annual Meeting, 2026, Rockville, MD, USA.

2. International Soil Virus Conference, 2024, Livermore, CA, USA.

3. American Society of Microbiology, 2024, Atlanta, GA, USA.

4. Lawrence Berkeley National Laboratory Ecology Department Webinar, 2023, Virtual.

5. Early Career Researcher Viromics Webinar, Ohio State University, 2023, Virtual.

6. Chinese Academy of Sciences Seminar, 2023, Virtual.

7. Viral EcoGenomics & Applications, 2022, Berkeley, CA, USA.

8. EMSL Summer School: Soil Exposed, 2022, Virtual.

9. International Forum on Advanced Environmental Sciences and Technology, 2022, Virtual.

10. Phages for Health & Energy Symposium, 2021, Virtual.

11. 24th Biennial Evergreen Phage Meeting, 2021, Virtual.