{"id":37,"date":"2014-09-08T19:17:14","date_gmt":"2014-09-08T19:17:14","guid":{"rendered":"http:\/\/imet.umces.edu\/yli\/?page_id=37"},"modified":"2026-06-03T15:47:37","modified_gmt":"2026-06-03T19:47:37","slug":"publications-2","status":"publish","type":"page","link":"https:\/\/imet.umces.edu\/yli\/?page_id=37","title":{"rendered":"Publications"},"content":{"rendered":"

Gallagher, N., Jiao, F., Wagner, L., Lee, Y.-Y., Li, Y. & Chen, F. (2026). Biological and chemical carbon sequestration of microalga Scenedesmus obliquus<\/em> HTB1 under high light and elevated CO2. Journal of CO2 Utilization<\/em> <\/strong>108:103448.<\/p>\n

Ramarui, K., Wang, J., Wikfors, G. H. & Li, Y. (2026). Exploring the transition from heterotrophy to high light stress using a proteomic and phosphoproteomic approach reveals altered chlorophyll biosynthesis, carbon partitioning, and astaxanthin biosynthesis and trafficking in a Haematococcus pluvialis<\/em> (Chlorophyceae) mutant. Algal Research<\/em><\/strong> 94:104546<\/p>\n

Jonas L, Lee Y-Y, Bachvaroff T, Hill RT, Li Y (2025). Two novel Patescibacteria: Phycocordibacter aenigmaticus<\/em> gen. nov. sp. nov. and Minusculum obligatum<\/em> gen. nov. sp. nov., both associated with microalgae optimized for carbon dioxide sequestration from flue gas. mBio<\/strong><\/em>:e01231-01225. doi:10.1128\/mbio.01231-25<\/p>\n

Jonas, L., Lee, Y.-Y., Mroz, R., Hill Russell, T., Li, Y. (2025). Nannochloropsis oceanica<\/em> IMET1 and its bacterial symbionts for carbon capture, utilization, and storage: biomass and calcium carbonate production under high pH and high alkalinity. Applied and Environmental Microbiology<\/strong><\/em>, e00133-25.<\/p>\n

Jiao, F., Ramarui, K., He, C., North, E.W., Li, Y., Chen, F. (2025). Impact of salinity on morphology, growth, and pigment profiles of Scenedesmus obliquus<\/em> HTB1 under ambient air and elevated CO2 (10\u00a0%) conditions. Algal Research<\/strong><\/em>, 88, 104027.<\/p>\n

Ma, F., Guo, J., Li, Y., Li, G., Zhang, X., Zhu, Z., Ruan, R., Cheng, P. (2025). Optimizing Fucoxanthin production in Chaetoceros<\/em> sp. Using conditioned wastewater and tailored culture conditions. Journal of Water Process Engineering<\/strong><\/em>, 72, 107450.<\/p>\n

He Z, Wang J, and Li Y (2025). Recent Advances in Microalgae-driven Carbon Capture, Utilization, and Storage: Strain Engineering through Adaptive Laboratory Evolution and Microbiome Optimization. Green Carbon <\/strong><\/em>3(1), 74-99 doi.org\/10.1016\/j.greenca.2024.10.001.<\/a><\/p>\n

Ramarui, K., Zhong, J., and Li, Y. (2024). Proteomic and phosphoproteomic analysis of a Haematococcus pluvialis<\/em> (Chlorophyceae) mutant with a higher heterotrophic cell division rate reveals altered pathways involved in cell proliferation and nutrient partitioning. Journal of Phycology<\/strong><\/em>, doiorg\/101111\/jpy13490.<\/p>\n

Ramarui, K. and Li, Y. (2024). Proteomics and phosphoproteomics analysis of Haematococcus pluvialis<\/em>: An improved method to generate and interpret proteomics and phosphoproteomics data of a non-model species. Journal of Applied Phycology<\/strong><\/em>, doiorg\/10.1007\/s10811-024-03356-1.<\/p>\n

Lee, Y.-Y., Jonas, L., Hill, R., Place, A., Silsbe, G., Hunsicker, S., North, E. & Li, Y. (2024). Engineering whiting events in culture: A microalgae-driven calcium carbonate and biomass production process at high pH and alkalinity with the marine microalga Nannochloropsis oceanica<\/em> IMET1. Journal of CO2 Utilization<\/em><\/strong> 80:102669.<\/p>\n

Li, Y (2022) Algal epigenetics: insights from DNA methylation in a symbiotic dinoflagellate. Journal of phycology<\/strong><\/em>, DOI:\u00a010.1111\/jpy.13090<\/a><\/p>\n

Lee, Y.-Y., Park, R., Miller, S. M. & Li, Y (2022) Genetic compensation of triacylglycerol biosynthesis in the green microalga Chlamydomonas reinhardtii. The Plant Journal<\/strong><\/em>, DOI: 10.1111\/tpj.15874<\/a>.<\/p>\n

Yang, J. et al.<\/em> (2022) PDAT regulates PE as transient carbon sink alternative to triacylglycerol in Nannochloropsis<\/em>. Plant physiology<\/strong><\/em>. 189, 1345-1362, doi:10.1093\/plphys\/kiac160.<\/p>\n

Cheng P, Li Y, Wang C, Guo J, Zhou C, Zhang R, Ma Y, Ma X, Wang L, Cheng Y, Yan X, Ruan R (2022) Integrated marine microalgae biorefineries for improved bioactive compounds: A review. Science of The Total Environment<\/strong><\/em> 817:152895.<\/p>\n

Lin H, Li Y, Hill RT (2022) Microalgal and bacterial auxin biosynthesis: implications for algal biotechnology. Curr Opin Biotechnol<\/strong><\/em> 73:300-307.<\/p>\n

Zhang Y, Ye Y, Ding W, Mao X, Li Y, Gerken H and Liu J\u00a0(2020) Astaxanthin Is Ketolated from Zeaxanthin Independent of Fatty Acid Synthesis in Chromochloris zofingiensis<\/em>.\u00a0 Plant physiology<\/strong><\/em>, 183, 883-897<\/p>\n

Gong, Y., Kang, N., Kim, Y., Wang, Z., Wei, L., Xin, Y., Shen, C., Wang, Q., You, W., Lim, J., Jeong, S., Park, Y., Oh, H., Pan, K., Poliner, E., Yang, G., Li-Beisson, Y., Li, Y., Hu, Q., Poetsch, A., Farre, E., Chang, Y., Jeong, W., Jeong, B., & Xu, J. (2020) The NanDeSyn Database for Nannochloropsis systems and synthetic biology. Plant Journal<\/strong><\/em> 104, 1736-1745<\/p>\n

Wang Z, Lee Y, Scherr D, Senger R, Li Y, He Z (2020) Mitigating nutrient accumulation with microalgal growth towards enhanced nutrient removal and biomass production in an osmotic photobioreactor.\u00a0 Water Research<\/strong><\/em>, 182, 116038<\/p>\n

Singh, S.K., Major, S.R., Cai, H., Chen, F., Hill, R.T. and\u00a0Li, Y.\u00a0<\/strong>(2018) Draft Genome Sequences of\u00a0Cloacibacterium normanense<\/em>\u00a0IMET F, a Microalgal Growth-Promoting Bacterium, and\u00a0Aeromonas jandaei<\/em>\u00a0IMET J, a Microalgal Growth-Inhibiting Bacterium.\u00a0Genome Announcements,\u00a0<\/strong>6:e00503-18.<\/p>\n

1<\/sup>Xin, Y., 1<\/sup>Lu, Y., 1<\/sup>*Lee, Y.-Y., Wei, L., Jia, J., Wang, Q., Wang, D., Bai, F., Hu, H., Hu, Q., 2<\/sup>*Liu, J., 2<\/sup>Li, Y.<\/strong> and 2<\/sup>Xu, J. (2017) Producing designer oils in industrial microalgae by rational modulation of co-evolving type-2 diacylglycerol acyltransferases. Molecular Plant<\/strong>, 10, 1523-1539. (1<\/sup>co-first authors; 2<\/sup>co-corresponding authors)<\/p>\n

Wei HH, Shi Y, Ma XN, Pan Y, Hu HH, Li YT, Luo M, Gerken H,\u00a0Liu J\u00a0(2017)\u00a0A type I diacylglycerol acyltransferase modulates triacylglycerol biosynthesis and fatty acid composition in the oleaginous microalga\u00a0Nannochloropsis oceanica<\/em>. Biotechnology for Biofuels<\/strong>,\u00a010:\u00a0174<\/p>\n

Wang Y, Lee Y-Y, Santaus TM, Newcomb CE, Liu J, Geddes CD, Zhang C, Hu Q, Li Y <\/strong>(2017) In situ enzymatic conversion of Nannochloropsis oceanica<\/em> IMET1 biomass into fatty acid methyl esters. BioEnergy Research<\/strong>. 10:438-448<\/p>\n

Liu J, Lee YY, Mao X, and Li YT<\/strong> (2017) A simple and reproducible non-radiolabeled in vitro<\/em> assay for recombinant acyltransferases involved in triacylglycerol biosynthesis. J. Appl. Phycol. <\/strong>29:323-333<\/p>\n

Lenka, S.K., Carbonaro, N., Park, R., Miller, S.K., Thorpe, I. and Li, Y.T.<\/strong>(2016) Current advances in molecular, biochemical, and computational modeling analysis of microalgal triacylglycerol biosynthesis.\u00a0Biotechnology Advance<\/strong>. 34:\u00a01046-1063..<\/p>\n

Liu J, Han D, Yoon K, Hu Q, Li YT<\/strong> (2016) Characterization of type 2 diacylglycerol acyltransferases in Chlamydomonas reinhardtii<\/em> reveals their distinct substrate specificities and functions in triacylglycerol biosynthesis. Plant Journal<\/strong>\u00a086: 3-19. (Cover and featured article)<\/p>\n

Jia J, Han DX, Gerken H, Li YT, Sommerfeld M, Hu Q, Xu J (2015) Molecular mechanisms for photosynthetic carbon partitioning into storage neutral lipids in Nannochloropsis oceanica<\/em> under nitrogen-depletion conditions. Algal Research<\/strong> 7: 66-77.<\/p>\n

Wang Y, Liu J, Gerken H, Zhang CW, Hu Q, Li YT<\/strong> (2014) Highly-efficient enzymatic conversion of crude algal oils into biodiesel. Bioresour. Technol.\u00a0<\/strong>172: 143\u2013149<\/p>\n

Li J, Han DX, Wang D, Ning K, Jia J, Wei L, Jing X, Huang S, Chen J, Li YT<\/strong>, Hu Q, Xu J (2014) Choreography of transcriptomes and lipidomes in Nannochloropsis reveals the mechanisms of oleaginousness in microalgae. Plant Cell<\/strong>, 26: 1645-1665<\/p>\n

Liu J, Gerken H, Li Y<\/strong> (2014) Single-tube colony PCR for DNA amplification and transformant screening of oleaginous microalgae. J. Appl. Phycol.<\/strong> 26: 1719-1726<\/p>\n

Han D, Li Y<\/strong>, Hu Q (2013a) Biology and Commercial Aspects of Haematococcus pluvialis<\/em>.\u00a0 Handbook of Microalgal Culture<\/strong>. John Wiley & Sons, Ltd, pp 388-405<\/p>\n

Han DX*, Li YT*<\/strong>, Hu Q (2013b) Astaxanthin in microalgae: pathways, functions and biotechnological implications. Algae<\/strong> 28: 131-147 (*Equal contribution)<\/p>\n

Li Y<\/strong>, Han D, Yoon K, Zhu S, Sommerfeld M, Hu Q (2013) Molecular and Cellular Mechanisms for Lipid Synthesis and Accumulation in Microalgae: Biotechnological Implications. \u00a0Handbook of Microalgal Culture<\/strong>. John Wiley & Sons, Ltd, pp 545-565<\/p>\n

Yuan-Kun Lee, Wei Chen, Hui Shen, Danxiang Han, Yantao Li,<\/strong> Howland Jones, Jerilyn A. Timlin, and Qiang Hu (2013) \u00a0Basic Culturing and Analytical Measurement Techniques. In Handbook of Microalgal Culture, 2nd Edition<\/strong>. Chapter 3, pp. 37-68<\/p>\n

Yoon K, Han D, Li Y<\/strong>, Sommerfeld M, Hu Q (2012) Phospholipid:diacylglycerol acyltransferase is a multifunctional enzyme involved in membrane lipid turnover and degradation while synthesizing triacylglycerol in the unicellular green microalga Chlamydomonas reinhardtii<\/em>. Plant Cell<\/strong> 24: 3708-3724<\/p>\n

Li Y,<\/strong> Han D, Sommerfeld M, Hu Q (2011) Photosynthetic carbon partitioning and lipid production in the oleaginous microalga Pseudochlorococcum sp. (Chlorophyceae) under nitrogen-limited conditions. Bioresour. Technol.<\/strong> 102: 123-129<\/p>\n

Packer A, Li YT<\/strong>, Andersen T, Hu QA, Kuang Y, Sommerfeld M (2011) Growth and neutral lipid synthesis in green microalgae: A mathematical model. Bioresour. Technol.<\/strong> 102: 111-117<\/p>\n

Li Y<\/strong>, Han D, Hu G, Dauvillee D, Sommerfeld M, Ball S, Hu Q (2010a) Chlamydomonas<\/em> starchless mutant defective in ADP-glucose pyrophosphorylase hyper-accumulates triacylglycerol. Metabolic Engineering<\/strong> 12: 387-391<\/p>\n

Li Y<\/strong>, Han D, Hu G, Sommerfeld M, Hu Q (2010b) Inhibition of starch synthesis results in overproduction of lipids in Chlamydomonas reinhardtii<\/em>. Biotechnol. Bioeng.<\/strong> 107: 258-268<\/p>\n

Li Y<\/strong>, Sommerfeld M, Chen F, Hu Q (2010c) Effect of photon flux densities on regulation of carotenogenesis and cell viability of Haematococcus pluvialis<\/em> (Chlorophyceae). J. Appl. Phycol.<\/strong> 22: 253-263<\/p>\n

Li Y<\/strong>, Huang J, Sandmann G, Chen F (2009) High-light and sodium chloride stress differentially regulate the biosynthesis of astaxanthin in Chlorella zofingiensis<\/em> (Chlorophyceae). J. Phycol.<\/strong> 45: 635-641<\/p>\n

Hu Z, Li Y<\/strong>, Sommerfeld M, Hu Q (2008) Enhanced protection against oxidative stress in an astaxanthin-overproduction Haematococcus<\/em> mutant (Chlorophyceae). Eur. J. Phycol.<\/strong> 43: 365-376<\/p>\n

Huang JC, Liu J, Li YT<\/strong>, Chen F (2008) Isolation and characterization of the phytoene desaturase gene as a potential selective marker for genetic engineering of the astaxanthin-producing green alga Chlorella zofingiensis<\/em> (Chlorophyta). J. Phycol.<\/strong> 44: 684-690<\/p>\n

Li Y<\/strong>, Huang J, Sandmann G, Chen F (2008a) Glucose sensing and the mitochondrial alternative pathway are involved in the regulation of astaxanthin biosynthesis in the dark-grown Chlorella zofingiensis<\/em> (Chlorophyceae). Planta<\/strong> 228: 735-743<\/p>\n

Li Y<\/strong>, Sommerfeld M, Chen F, Hu Q (2008b) Consumption of oxygen by astaxanthin biosynthesis: A protective mechanism against oxidative stress in Haematococcus pluvialis<\/em> (Chlorophyceae). J Plant Physiol<\/strong><\/p>\n

Sun N, Wang Y, Li YT<\/strong>, Huang JC, Chen F (2008) Sugar-based growth, astaxanthin accumulation and carotenogenic transcription of heterotrophic Chlorella zofingiensis<\/em> (Chlorophyta). Process Biochem.<\/strong> 43: 1288-1292<\/p>\n","protected":false},"excerpt":{"rendered":"

Gallagher, N., Jiao, F., Wagner, L., Lee, Y.-Y., Li, Y. & Chen, F. (2026). Biological and chemical carbon sequestration of microalga Scenedesmus obliquus HTB1 under high light and elevated CO2. Journal of CO2 Utilization 108:103448. Ramarui, K., Wang, J., Wikfors, G. H. & Li, Y. (2026). Exploring the transition from heterotrophy to high light stress using a proteomic and phosphoproteomic approach reveals altered chlorophyll biosynthesis, carbon partitioning, and astaxanthin biosynthesis and trafficking in a Haematococcus pluvialis (Chlorophyceae) mutant. Algal Research 94:104546 Jonas L, Lee Y-Y, Bachvaroff T, Hill RT, Li Y (2025). Two novel Patescibacteria: Phycocordibacter aenigmaticus gen. nov. sp. nov. and Minusculum obligatum gen. nov. sp. nov., both associated with microalgae optimized for carbon dioxide sequestration from flue gas. mBio:e01231-01225. doi:10.1128\/mbio.01231-25 Jonas, L., Lee, Y.-Y., Mroz, R., Hill Russell, T., Li, Y. (2025). Nannochloropsis oceanica IMET1 and its bacterial symbionts for carbon capture, utilization, and storage: biomass and calcium carbonate production under high pH and high alkalinity. Applied and Environmental Microbiology, e00133-25. Jiao, F., Ramarui, K., He, C., North, E.W., Li, Y., Chen, F. (2025). Impact of salinity on morphology, growth, and pigment profiles of Scenedesmus obliquus HTB1 under ambient air and elevated CO2 (10\u00a0%) conditions. Algal Research, 88, […]<\/p>\n","protected":false},"author":1,"featured_media":0,"parent":0,"menu_order":2,"comment_status":"open","ping_status":"open","template":"page-full.php","meta":{"footnotes":""},"class_list":["post-37","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/imet.umces.edu\/yli\/index.php?rest_route=\/wp\/v2\/pages\/37","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/imet.umces.edu\/yli\/index.php?rest_route=\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/imet.umces.edu\/yli\/index.php?rest_route=\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/imet.umces.edu\/yli\/index.php?rest_route=\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/imet.umces.edu\/yli\/index.php?rest_route=%2Fwp%2Fv2%2Fcomments&post=37"}],"version-history":[{"count":41,"href":"https:\/\/imet.umces.edu\/yli\/index.php?rest_route=\/wp\/v2\/pages\/37\/revisions"}],"predecessor-version":[{"id":735,"href":"https:\/\/imet.umces.edu\/yli\/index.php?rest_route=\/wp\/v2\/pages\/37\/revisions\/735"}],"wp:attachment":[{"href":"https:\/\/imet.umces.edu\/yli\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=37"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}