2025 Wang Y.Y., Nan B., Ye F., Zhang Z., Yang W.T., Pan B., Wei F., Duan L.L., Li H.C., Niu J.H., Ju A.L., Liu Y.Q., Wang D.T., Zhang W.X., Liu Y.F., Gao S. Dual modes of DNA N⁶-methyladenine maintenance by distinct methyltransferase complexes. PNAS, 122(3): e2413037121.

2025 Ye F., Chen X., Li Y.Q., Ju A.L., Sheng Y.L., Duan L.L., Zhang J.C., Zhang Z., Al-Rasheid K.A.S., Stover N.A., Gao S. Comprehensive genome annotation of the model ciliate Tetrahymena thermophila by in-depth epigenetic and transcriptomic profiling. Nucleic Acids Research, gkae1177.

2025 Duan L.L., Li H.C., Ju A.L., Zhang Z., Niu J.H., Zhang Y.M., Diao J.H., Liu Y.Q., Ma H.G., Song N., Kataoka K., Gao S., Wang Y.Y. Methyl-dependent auto-regulation of the DNA N⁶-adenine methyltransferase AMT1 in the unicellular eukaryote Tetrahymena thermophila. Nucleic Acids Research, gkaf022.

2025 Jiang Y.H., Chen X., Wang C.D., Lyu L.P., Al-Farraj S.A., Stover N.A., Gao F. Genes and proteins expressed at different life cycle stages in the model protist Euplotes vannus revealed by both transcriptomic and proteomic approaches. Science China Life Sciences, 68, 232–248.

2025 Zheng W., Li C., Zhou Z.R., Chen X., Lynch M., Yan Y. Unveiling an ancient whole-genome duplication event in Stentor, the model unicellular eukaryotes. Science China Life Sciences, DOI: 10.1007/s11427-024-2651-2.

2024 Wang C.D., Lyu L.P., Solberg T., Zhang H.Y., Wen Z., Gao F. GTSF1 is required for transposon silencing in the unicellular eukaryote Paramecium tetraurelia. Nucleic Acids Research,52: 13206–13223.

2024 Liu Y.Q., Niu J.H., Ye F., Solberg T., Lu B.R., Wang C.D., Nowacki M., Gao S. Dynamic DNA N⁶-adenine methylation (6mA) governs the encystment process, showcased in the unicellular eukaryote Pseudocohnilembus persalinus. Genome Research, 34(2): 256−271.

2024 Sheng Y.L., Wang Y.Y., Yang W.T., Wang X.Q., Lu J.W., Pan B., Nan B., Liu Y.Q., Ye F., Li C., Song J.K., Dou Y.L., Gao S., Liu Y.F. Semiconservative transmission of DNA N⁶-adenine methylation in a unicellular eukaryote. Genome Research, 34(5): 740−756.

2024 Gao Y.Y., Solberg T., Wang R., Yu Y.E., Al-Rasheid K., Gao F. Application of RNA interference and protein localization to investigate housekeeping and developmentally regulated genes in the emerging model protozoan Paramecium caudatum. Communications Biology, 7, 204.

2024 Li T., Zhang T., Liu M., Zhang Z., Zhang J., Niu J., Chen X., AlFarraj S.A., Song W.B.  Findings on three endocommensal scuticociliates (Protista, Ciliophora) from freshwater mollusks, including their morphology and molecular phylogeny with descriptions of two new species. Marine Life Science & Technology, 6: 212-235.

2023 Pan B., Ye F., Li T., Wei F., Warren A., Wang Y.Y., Gao S. Potential role of N⁶-adenine DNA methylation in alternative splicing and endosymbiosis in Paramecium bursaria. iScience, 26(5): 106676.

2023 Gao Y.Y., Solberg T., Wang, C.D., Gao F. Small RNA-mediated genome rearrangement pathways in ciliates. Trends in Genetics, 39(2): 94−97.

2023 Lu B.R., Hu X.Z., Warren A., Song W.B., Yan Y. From oral structure to molecular evidence: new insights into the evolutionary phylogeny of the ciliate order Sessilida (Protista, Ciliophora), with the establishment of two new families and new contributions to the poorly studied family Vaginicolidae. Science China Life Sciences, 66: 1535–1553.

2022 Wang C.D., Solberg T., Maurer-Alcalá X.X., Swart C.E., Gao F., Nowacki M. A small RNA guided PRC2 complex eliminates DNA as an extreme form of transposon silencing. Cell Reports, 40: 111263.

2022 Qiao Y., Cheng T., Zhang J., Alfarraj S.A., Tian M., Liu Y. & Gao S. Identification and utilization of a mutated 60S ribosomal subunit coding gene as an effective and cost-efficient selection marker for Tetrahymena genetic manipulation. International Journal of Biological Macromolecules, 204: 1−8.

2022 Ma M.Z., Xu Y., Lu B.R., Li Y.Q., Song W.B., Petroni G., Al-Farrah SA., & Yan Y. Molecular Phylogeny and taxonomy of four Remanella species (Protozoa, Ciliophora): a flagship genus of karyorelictean ciliates, with descriptions of three new species. Zoological Research, 43: 827−842.

2022 Ma M.Z., Li Y.Q., Maurer-Alcala X., Wang Y.R. & Yan Y. Deciphering phylogenetic relationships in class Karyorelictea (Protista, Ciliophora) based on updated multi-gene information with establishment of a new order Wilbertomorphida n. ord. Molecular Phylogenetics and Evolution, 169: 107406.

2022 Zhang G.A.T., Zhao Y., Chi Y., Warren A., Pan H.B. & Song, W.B. Updating the phylogeny and taxonomy of pleurostomatid ciliates (Protista: Ciliophora) with establishment of a new family, a new genus and two new species. Zoological Journal of the Linnean Society, 196: 105–123.

2021 Xu J., Zhao X.L., Mao F.B., Basrur V., Ueberheide B., Chait B.T., Allis C.D., Taverna S.D., Gao S., Wang W. & Liu Y. A Polycomb repressive complex is required for RNAi-mediated heterochromatin formation and dynamic distribution of nuclear bodies. Nucleic Acids Research, 49, 5407–5425.

2021 Zheng W.B., Wang C.D., Lynch M. & Gao S. The compact macronuclear genome of the ciliate Halteria grandinella: a transcriptome-like genome with 23,000 nanochromosomes. mBio, 12: e01964-20.

2021 Chi Y., Chen X., Li Y., Wang C., Zhang T., Ayoub A., Warren A., Song W. & Wang Y.Y. New contributions to the phylogeny of the ciliate class Heterotrichea (Protista, Ciliophora): analyses at family-genus level and new evolutionary hypotheses. Science China Life Sciences, 64: 606–620.

2021 Liu Y., Nan B., Niu J., Kapler G. & Gao S. An optimized and versatile counter-flow centrifugal elutriation workflow to obtain synchronized eukaryotic cells. Frontiers in Cell and Developmental Biology, 9: 664418.

2021 Wang, C.D., Gao, Y.Y., Lu, B.R., Chi, Y., Zhang, T.T., El-Serehy, H. A., Al-Farraj, S. A., Li, L.F., Song, W.B. & Gao, F. Large-scale phylogenomic analysis provides new insights into the phylogeny of the class Oligohymenophorea (Protista, Ciliophora) with establishment of a new subclass Urocentria nov. subcl. Molecular Phylogenetics and Evolution, 159: 107112.

2021 Zhang T.T., Li C., Zhang X., Wang C.D., Roger A.J. & Gao F. Characterization and comparative analysis of mitochondrial genomes in single-celled eukaryotes shed light on the diversity and evolution of the linear molecular architecture. International Journal of Molecular Science, 22: 2546.

2021 Ma M.Z., Xu Y., Yan Y., Li Y.Q., Warren A. & Song W.B. Taxonomy and molecular information of four karyorelictids in genera Apotrachelocerca and Tracheloraphis (Protozoa, Ciliophora), with notes on their systematic positions and description of two new species. Zoological Journal of the Linnean Society, 192: 690–709.

2021 Sheng Y., Pan B., Wei F., Wang Y.Y. & Gao S. Case study of the response of N6-methyladenine DNA modification to environmental stressors in the unicellular eukaryote Tetrahymena thermophila. mSphere, 6: e01208-20.

2020 Sheng Y., Duan L., Cheng T., Qiao Y., Stover N.A., Gao S. The completed macronuclear genome of a model ciliate Tetrahymena thermophila and its application in genome scrambling and copy number analyses. Science China Life Sciences, 63: 1534–1542. 

2020 Zheng W., Chen J., Doak T.C., Song W.B., Yan Y. ADFinder: accurate detection of programmed DNA elimination using NGS high-throughput sequencing data. Bioinformatics, 36: 3632–3636.

2020 Chi Y., Duan L.L., Luo X.T., Cheng T., Warren A., Huang J. & Chen X.R. A new contribution to the taxonomy and molecular phylogeny of three freshwater, well-known species of the ciliate genus Spirostomum (Protozoa: Ciliophora: Heterotrichea). Zoological Journal of the Linnean Society, 189:158–177.