Complete publication list with citations:

Peer-reviewed Articles

Paper in press


Paper published (selected)

Rampley, C.P.N., Davison, P.A., Qian, P., Preston, G.M., Hunter, C.N., Thompson, P.I., Wu, L.J., Huang, W.E.* (2017) Development of SimCells as a novel chassis for functional biosensors. Scientific Reports 7:7261.

Cui, L., Yang, K., Zhou, G., Huang, W.E.*, Zhu, Y. (2017) Surface-enhanced Raman spectroscopy combined with stable isotope probing to monitor nitrogen assimilation at both bulk and single-cell level. Analytical Chemistry. 89:5793-5800.

Xu, J., Webb, I., Poole, P., Huang, W.E.* (2017) Label-free discrimination of Rhizobial bacteroids and mutants by single-cell Raman microspectroscopy. Analytical Chemistry 89: 6336−6340.

Tao, Y., Wang, Y., Huang, S., Zhu, P., Huang, W.E., Ling, J.Q., Xu, J. (2017) Metabolic-activity based assessment of antimicrobial effects by D2O-labeled Single-Cell Raman Microspectroscopy. Analytical Chemistry 89:4108-4115.

Song, Y., Kaster, A., Vollmers, J., Song, Y., Davison, P.A., Frentrup, M., Preston, G.M., Thompson, I.P., Murrell, J.C., Yin, H., Hunter, C.N., Huang, W.E.* (2017) Single cell genomics based on Raman sorting reveals novel carotenoid-containing bacteria in the Red Sea. Microbial Biotechnology10:125-137.

Teng, L., Wang, X., Wang, X., Ren, L., Wang, T., Wang, Y., Ji, Y., Huang, W.E.*, Xu, J. (2016) Label-free, rapid and quantitative phenotyping of stress response in E. coli via Ramanome. Scientific Reports. 6:34359.

Wang, Y., Song, Y., Tao, Y., Muhamadali, H., Goodacre, R., Zhou, N.Y., Preston, G.M., Xu, J., Huang, W.E.* (2016) Reverse and multiple stable isotope probing to study bacterial metabolism and interactions at the single cell level. Analytical Chemistry. 88: 9443-9450

Wang, Y., Huang, W.E.*, Cui, L. and Wagner, M. (2016) Single Cell Stable Isotope Probing in Microbiology using Raman Microspectroscopy. Current Opinion in Biotechnology 41:34-42.

Song, Y., Yin, H. and Huang, W.E.* (2016) Raman activated cell sorting. Current Opinion in Chemical Biology 33: 1-8.

Cui, L., Zhang, Y.J., Huang, W.E., Zhang, B., Martin,F.L.,Li, J., Zhang, K.S. and Zhu, Y.G. (2016) Surface-Enhanced Raman Spectroscopy for Identification of Heavy Metal Arsenic(V)-Mediated Enhancing Effect on Antibiotic Resistance. Analytical Chemistry  88:3164-3170.

McIlvenna, D., Huang, W.E., Davison, P.A., Glidle, A., Cooper, J.M. and Yin, H. (2016) Continuous cell sorting in a flow based on single cell resonance Raman spectra. Lab on a Chip 16:1420-1429. 

Chao, H.J., Chen, Y.F., Fang, T., Xu, Y., Huang, W.E., Zhou, N.Y. (2016) HipH Catalyzes the Hydroxylation of 4-Hydroxyisophthalate to Protocatechuate in 2,4-Xylenol Catabolism by Pseudomonas putida NCIMB 9866. Applied and Environmental Microbiology 82: 724-731.

Hedbavna P, Rolfe SA, Huang WE, Thornton SF. (2016) Biodegradation of phenolic compounds and their metabolites in contaminated groundwater using microbial fuel cells. Bioresource Technology 200: 426-434.

Meckenstock RU, Elsner M, Griebler C, Lueders T, Stumpp C, Aamand J, Agathos SN, Albrechtsen HJ, Bastiaens L, Bjerg PL, Boon N, Dejonghe W, Huang WE, Schmidt SI, Smolders E, Sørensen SR, Springael D, van Breukelen BM. (2015) Environmental Science & Technology 49: 7073-7081.

Zhang P, Ren L, Zhang X, Shan Y, Wang Y, Ji Y, Yin H, Huang WE, Xu J, Ma B. (2015) Raman Activated Cell Sorting Based on Dielectrophoretic Single-Cell Trap and Release. Analytical Chemistry 87:2282-2289.

Zhang D, Berry JP, Zhu D, Wang Y, Chen Y, Jiang B, Huang S, Langford H, Li G, Xu J, Aries E & Huang WE* (2015) Isolation and physiological characterisation of an uncultured degrader in a complex microbial community. ISME Journal 9:603-614. 

Berry D, Mader E, Woebken D, Wang Y, Zhu D, Lee TK, Palatinszky M, Schintlmeister A, Schmid M, Shterzer N, Mizrahi I, Rauch I, Decker T, Bocklitzg T, Popp J, Gibson CM, Fowler PW, Huang WE, Wagner M (2015) Heavy water (D2O) incorporation as a universally applicable activity marker for microbial communities with single cell resolution. Proceedings of the National Academy of Sciences of the United States of America 112: 112:E194-203.

Huang WE*, Song Y, Xu J (2015) Single cell biotechnology to shed a light on biological 'dark matter' in nature. Microbial Biotechnology 8: 15-16.

Song Y, Jiang B, Tian S, Tang H, Liu Z, Li C, Jia J, Huang WE, Zhang X & Li G (2014) A whole-cell bioreporter approach for the genotoxicity assessment of bioavailable PAH, cytotoxic drug, and heavy metals in contaminated soil in China. Environmental Pollution 195:178-184.

Ji Y, He Y, Cui Y, Wang T, Wang Y, Huang WE & Xu J (2014) Raman spectroscopy provides a rapid, non‐invasive method for quantitation of starch in live, unicellular microalgae. Biotechnology Journal 9:1512-1518.

Wang T, Ji Y, Wang Y, Jia J, Li J, Huang S, Han D, Hu Q, Huang WE* and Xu, J. (2014) Quantitative dynamics of triacylglycerol accumulation in microalgae populations at single-cell resolution revealed by Raman microspectroscopy. Biotechnology for Biofuels 7:58.

Zhang D, Ding A, Cui S, Hu C, Thornton SF, Dou J, Sun Y, & Huang WE* (2013) Whole cell bioreporter application for rapid detection and evaluation of crude oil spill in seawater caused by Dalian oil tank explosion. Water Research 47(3):1191-1200.

Wang Y, Ji Y, Wharfe ES, Meadows RS, March P, Goodacre R, Xu J, Huang WE* (2013) Raman Activated Cell Ejection for Isolation of Single Cells. Analytical Chemistry 85(22):10697-10701.

Li M, Huang WE, Gibson CM, Fowler PW, & Jousset A (2013) Stable Isotope Probing and Raman Spectroscopy for Monitoring Carbon Flow in a Food Chain and Revealing Metabolic Pathway. Analytical Chemistry 85(3):1642-1649.

Zhang D, Zhao Y, He Y, Wang Y, Zhao Y, Zheng Y, Wei X, Zhang L, Li Y, Jin T, Wu L, Wang H, Davison PA, Xu J & Huang WE* (2012) Characterization and Modeling of Transcriptional Cross-Regulation in Acinetobacter baylyi ADP1. ACS Synthetic Biology 1(7):274-283.

Zhang D, He Y, Wang Y, Wang H, Wu L, Aries E and Huang, WE.* (2012) Whole-cell bacterial bioreporter for actively searching and sensing of alkanes and oil spills. Microbial Biotechnology 5(1):87-97.

Wang Y, Chen Y, Zhou Q, Huang S, Ning K, Xu J, Kalin RM, Rolfe S & Huang WE* (2012) A Culture-Independent Approach to Unravel Uncultured Bacteria and Functional Genes in a Complex Microbial Community. PLoS One 7(10): (10): e47530.

Perron GG, Lee AEG, Wang Y, Huang WE, & Barraclough TG (2012) Bacterial recombination promotes the evolution of multi-drug-resistance in functionally diverse populations. Proceedings of the Royal Society B-Biological Sciences 279(1733):1477-1484.

Li MQ, Xu J, Romero-Gonzalez M, Banwart SA, & Huang WE (2012) Single cell Raman spectroscopy for cell sorting and imaging. Current Opinion in Biotechnology 23(1):56-63.

Li M, Canniffe DP, Jackson PJ, Davison PA, FitzGerald S, Dickman MJ, Burgess JG, Hunter CN & Huang WE* (2012) Rapid resonance Raman microspectroscopy to probe carbon dioxide fixation by single cells in microbial communities. ISME Journal 6(4):875-885.

Li MQ, Ashok PC, Dholakia K, & Huang WE (2012) Raman-Activated Cell Counting for Profiling Carbon Dioxide Fixing Microorganisms. Journal of Physical Chemistry A 116(25):6560-6563.

Huang WE & Zhou JZ (2012) When single cell technology meets omics, the new toolbox of analytical biotechnology is emerging. Current Opinion in Biotechnology 23(1):1-1.

Zhang D, Fakhrullin RF, Özmen M, Wang H, Wang J, Paunov VN, Li G & Huang WE* (2011) Functionalization of whole-cell bacterial reporters with magnetic nanoparticles. Microbial Biotechnology 4(1):89-97.

Singer AC, Colizza V, Schmitt H, Balcan D, Huang WE, Keller VD, et al. (2011) Assessing the Ecotoxicologic Hazards of a Pandemic Influenza Medical Response. Environmental Health Perspectives 119(8):1084-1090.

Rico A, Bennett MH, Forcat S, Huang WE, & Preston GM (2010) Agroinfiltration Reduces ABA Levels and Suppresses Pseudomonas syringae-Elicited Salicylic Acid Production in Nicotiana tabacum. PLoS One 5(1): e8977.

Huang WE*, Li MQ, Jarvis RM, Goodacre R, & Banwart SA (2010) Shining Light on the Microbial World: The Application of Raman Microspectroscopy. Advances in Applied Microbiology 70: 153-186.

Andrews JS, Rolfe SA, Huang WE, Scholes JD, & Banwart SA (2010) Biofilm formation in environmental bacteria is influenced by different macromolecules depending on genus and species. Environmental Microbiology 12(9):2496-2507.

Song YZ, Li G, Thornton SF, Thompson IP, Banwart SA, Lerner DN and Huang WE* (2009) Optimization of Bacterial Whole Cell Bioreporters for Toxicity Assay of Environmental Samples. Environmental Science & Technology 43(20):7931-7938.

Huang WE*, Ward AD, & Whiteley AS (2009) Raman tweezers sorting of single microbial cells. Environmental Microbiology Reports 1(1):44-49.

Huang WE*, Ferguson A, Singer AC, Lawson K, Thompson IP, Kalin RM et al. (2009) Resolving Genetic Functions within Microbial Populations: In Situ Analyses Using rRNA and mRNA Stable Isotope Probing Coupled with Single-Cell Raman-Fluorescence In Situ Hybridization. Applied and Environmental Microbiology 75(1):234-241.

Huang WE*, Singer AC, Spiers AJ, Preston GM, & Whiteley AS (2008) Characterizing the regulation of the Pu promoter in Acinetobacter baylyi ADP1. Environmental Microbiology 10(7):1668-1680.

Ude S, Bailey MJ, Huang WE, & Spiers AJ (2007) The environmental plasmid pQBR103 alters the single-cell Raman spectral profile of Pseudomonas fluorescens SBW25. Microbial Ecology 53(3):494-497.

Song YZ, Hahn T, Thompson IP, Mason TJ, Preston GM, Li GH, Paniwnyk L & Huang WE*. (2007) Ultrasound-mediated DNA transfer for bacteria. Nucleic Acids Research 35(e129).

Huang WE, Ude S, & Spiers AJ (2007) Pseudomonas fluorescens SBW25 biofilm and planktonic cells have differentiable Raman spectral profiles. Microbial Ecology 53(3):471-474.

Huang WE, Stoecker K, Griffiths R, Newbold L, Daims H, Whiteley AS & and Wagner M (2007) Raman-FISH: combining stable-isotope Raman spectroscopy and fluorescence in situ hybridization for the single cell analysis of identity and function. Environmental Microbiology 9(8):1878-1889.

Huang WE, Bailey MJ, Thompson IP, Whiteley AS, & Spiers AJ (2007) Single-cell Raman spectral profiles of Pseudomonas fluorescens SBW25 reflects in vitro and in planta metabolic history. Microbial Ecology 53(3):414-425.

Ferguson AS, Huang WE, Lawson KA, Doherty R, Gibert O, Dickson KW, Whiteley AS, Kulakov LA, Thompson IP, Kalin RM & Larkin MJ (2007) Microbial analysis of soil and groundwater from a gasworks site and comparison with a sequenced biological reactive barrier remediation process. Journal of Applied Microbiology 102(5):1227-1238.

Huang WE, Huang LF, Preston GM, Naylor M, Carr JP, Li YH. et al. (2006) Quantitative in situ assay of salicylic acid in tobacco leaves using a genetically modified biosensor strain of Acinetobacter sp ADP1. Plant Journal 46(6):1073-1083.

Huang WE*, Hopper D, Goodacre R, Beckmann M, Singer AC & Draper J (2006) Rapid characterization of microbial biodegradation pathways by FT-IR spectroscopy. Journal of Microbiological Methods 67(2):273-280.

Singer AC, Huang WE, Helm J, & Thompson IP (2005) Insight into pollutant bioavailability and toxicity using Raman confocal microscopy. Journal of Microbiological Methods 60(3):417-422.

Huang WE*, Wang H, Zheng HJ, Huang LF, Singer AC, Thompson IP & Whiteley AS (2005) Chromosomally located gene fusions constructed in Acinetobacter sp ADP1 for the detection of salicylate. Environmental Microbiology 7(9):1339-1348.

Huang WE*, Goodacre R, Elliott GN, Beckmann M, Worgan H, Bailey MJ, Williams PA, Scullion J, & Draper J (2005) The use of chemical profiling for monitoring metabolic changes in artificial soil slurries caused by horizontal gene transfer. Metabolomics 1(4):305-315.

Huang WE*, Griffiths RI, Thompson IP, Bailey MJ, & Whiteley AS (2004) Raman microscopic analysis of single microbial cells. Analytical Chemistry 76(15):4452-4458.

Huang WE*, Oswald SE, Lerner DN, Smith CC, & Zheng CM (2003) Dissolved oxygen imaging in a porous medium to investigate biodegradation in a plume with limited electron acceptor supply. Environmental Science & Technology 37(9):1905-1911.

Huang WE*, Smith CC, Lerner DN, Thornton SF, & Oram A (2002) Physical modelling of solute transport in porous media: evaluation of an imaging technique using UV excited fluorescent dye. Water Research 36(7):1843-1853.

Li G, Huang W*, Lerner DN, & Zhang X (2000) Enrichment of degrading microbes and bioremediation of petrochemical contaminants in polluted soil. Water Research 34(15):3845-3853.

Book chapters (Selected)

Wang, Y., Zhang, D., Davison, P.A. and Huang, W.E.* (2014) Bacterial whole cell biosensors for the detection of contaminants in water and soils. Methods in Molecular Biology – Environmental Microbiology 155-168.

Li, M., Boardman, D.G., Ward, A. and Huang, W.E.* (2014) Single-cell Raman sorting. Methods in Molecular Biology – Environmental Microbiology 147-153.

Wang, Y., Song, Y., Zhu, D., Ji, Y., Wang, Y., McIlvenna, D., Yin, H., Xu, J. and Huang W.E.* (2013) Probing and sorting single cells -the application of a Raman-activated cell sorter. Spectroscopy Europe 25: 16-20.

Song, Y., Zhang, D., Polizzi, K., Zhang, G.E., Li G. and Huang, W.E.* (2012) Bacterial whole cell bioreporters in environmental health. In Biosensors and Environmental Health, chapter 8:127-148.

Read, D.S., Huang, W.E., Whiteley, A.S. (2010) Raman-FISH. In: Handbook of Hydrocarbon and Lipid Microbiology. 4:4027-4038, Timmis, KN. ed. Springer.


  • Developer of novel biosensors and gene trapping using Acinetobacter sp. ADP1 as a host, Patent No. WO2008/056144.
  • Nucleic Acid Transfer Techniques, Patent number: GB2452543A.
  • Biosensor and used thereof, Patent number: (2011) PCT/GB2011/052228, WO2012/066321A1.
  • Construction and application for magnetic nanoparticles (MNPs) coating biosensor. (2010) ZL201010513790.5.
  • Construction of Raman Flow Cytometry and application on cell/particles separation. (2010) WO2012/055304.
  • Alkane production - Biodiesel Synthesis by Bacteria, WO2013/128184.