研究组组长：葛峰 研究员 

研究组成员：杨明坤 高级实验师；湛交 副研究员；袁丽 高级实验师  

研究组介绍：

  本研究组以重要水生模式生物为研究对象；发展基于质谱的定量蛋白质组学方法、重要翻译后修饰的鉴定技术和功能研究方法；以水生生物的翻译后修饰组学和蛋白基因组学为研究核心和特色；开展水生生物的功能蛋白质组学研究；推动水生生物蛋白质组学这一新的研究领域的发展并解决水生生物研究中的一些重大科学问题。目前的研究兴趣主要集中在： (1) 蛋白质翻译后修饰组学及其功能研究；(2)重要模式生物的蛋白基因组学(Proteogenomics)分析； （3）蓝细菌光合作用机理研究；（4）藻类响应环境胁迫的生物学机制研究。

发表论文（*通讯作者）:  

2024

1.      Jia K, Yang M, Liu X, Zhang Q, Cao G, Ge F*, Zhao J*. Deciphering the structure, function, and mechanism of lysine acetyltransferase cGNAT2 in cyanobacteria. Plant Physiol. 2024 Jan 31;194(2):634-661. doi: 10.1093/plphys/kiad509. PMID: 37770070.

2.      Liu X, Cai F, Zhang Y, Luo X, Yuan L, Ma H, Yang M*, Ge F*. Interactome Analysis of ClpX Reveals Its Regulatory Role in Metabolism and Photosynthesis in Cyanobacteria. J Proteome Res. 2024 Apr 5;23(4):1174-1187. doi: 10.1021/acs.jproteome.3c00610. Epub 2024 Mar 1. PMID: 38427982.

3.      Li Q, Lin J, Ma H, Yuan L, Liu X, Xiong J, Miao W, Yang M*, Ge F*. Identification and Functional Analysis of Lysine 2-Hydroxyisobutyrylation in Cyanobacteria. J Proteome Res. 2024 May 3;23(5):1689-1701. doi: 10.1021/acs.jproteome.3c00843. Epub 2024 Apr 2. PMID: 38565891.

2023

4.      Cao G, Lin X, Ling M, Lin J, Zhang Q, Jia K, Chen B, Wei W, Wang M, Jia S, Yang M*, Ge F*. cKMT1 is a New Lysine Methyltransferase That Methylates the Ferredoxin-NADP(+) Oxidoreductase and Regulates Energy Transfer in Cyanobacteria. Mol Cell Proteomics. 2023 Apr; 22(4):100521. doi: 10.1016/j.mcpro.2023.100521. Epub 2023 Feb 28. PMID: 36858286; PMCID:PMC10090440.

5.      Zhu Z, Yang M, Yang G, Zhang B, Cao X, Yuan J, Ge F*, Wang S*. PP2Cphosphatases Ptc1 and Ptc2 dephosphorylate PGK1 to regulate autophagy and aflatoxin synthesis in the pathogenic fungus Aspergillus flavus. mBio. 2023 Sep 27:e0097723. doi: 10.1128/mbio.00977-23. Epub ahead of print. PMID: 37754565.

6.      Zhang C, Lu LF, Li ZC, Han KJ, Wang XL, Chen DD, Xiong F, Li XY, Zhou L, Ge F*, Li S*. Zebrafish MAP2K7 Simultaneously Enhances Host IRF7 Stability and Degrades Spring Viremia of Carp Virus P Protein via Ubiquitination Pathway. J Virol. 2023 Jul 27; 97(7):e0053223. doi: 10.1128/jvi.00532-23. Epub 2023 Jun 27. PMID: 37367226; PMCID:PMC10373533.

7.      Gong X, Wang S, Yu Q, Wang M, Ge F, Li S, Yu X. Cla4 phosphorylates histonemethyltransferase Set1 to prevent its degradation by the APC/CCdh1 complex. Sci Adv. 2023 Sep 29; 9(39):eadi7238. doi: 10.1126/sciadv.adi7238. Epub 2023 Sep 29. PMID: 37774018; PMCID:PMC10541012.

8.      Wu Q, Li J, Wang P, Peng Q, Kang Z, Deng Y, Li J, Yan D, Ge F, Chen Y. FERMT1 Is a Prognostic Marker Involved in Immune Infiltration of Pancreatic Adenocarcinoma Correlating with m6A Modification and Necroptosis. Genes (Basel). 2023 Mar 16;14(3):734. doi: 10.3390/genes14030734. PMID: 36981005; PMCID:PMC10048534.

9.      Wu Y, Tang L, Huang H, Yu Q, Hu B, Wang G, Ge F, Yin T, Li S, Yu X. Phosphoglycerate dehydrogenase activates PKM2 to phosphorylate histone H3T11 and attenuate cellular senescence. Nat Commun. 2023 Mar 10; 14(1):1323. doi: 10.1038/s41467-023-37094-8. PMID: 36899022; PMCID:PMC10006232.

10.   Li X, Mei Q, Yu Q, Wang M, He F, Xiao D, Liu H, Ge F, Yu X, Li S. The TORC1 activates Rpd3L complex to deacetylate Ino80 and H2A.Z and repress autophagy. Sci Adv. 2023 Mar 10; 9(10):eade8312. doi: 10.1126/sciadv.ade8312. Epub 2023 Mar 8. PMID: 36888706; PMCID:PMC9995077.

11.   Chen X, Yang M, Li Y, Xie Z, Zhang S, Töpel M, Amin S, Lin L, Ge F, Wang D. Improving the genome and proteome annotations of the marine model diatom Thalassiosira pseudonana using a proteogenomics strategy. Mar Life Sci Technol. 2023 Feb 3; 5(1):102-115. doi: 10.1007/s42995-022-00161-y. PMID: 37073328; PMCID:PMC10077189.

12.   Peng Q, Li J, Wu Q, Wang P, Kang Z, Deng Y, Xiao Y, Zheng P, Ge F, Chen Y.ZNF385Aand ZNF346 Serve as Prognostic Biomarkers Associated with an Inflamed Immunosuppressive Tumor Microenvironment in Hepatocellular Carcinoma. Int J Mol Sci. 2023 Feb 5; 24(4):3155. doi: 10.3390/ijms24043155. PMID: 36834567; PMCID:PMC9962939.

13.   Wang Y, Yang M, Ge F, Jiang B, Hu R, Zhou X, Yang Y, Liu M. Lysine Succinylation of VBS Contributes to Sclerotia Development and Aflatoxin Biosynthesis in Aspergillus flavus. Mol Cell Proteomics. 2023 Feb; 22(2):100490. doi: 10.1016/j.mcpro.2022.100490. Epub 2022 Dec 22. PMID: 36566904; PMCID:PMC9879794.

14.   Chai XJ, Zheng LL, Liu J, Zhan J*, Song LR. 2023. Comparison of photosynthetic responses between haptophyte Phaeocystis globosa and diatom Skeletonema costatum under phosphorus limitation. Frontiers in Microbiology, 14: 73.

2022 

15.   Wang B, Wang M, Jia S, Li T, Yang M, Ge F*. Systematic Survey of the Regulatory Networks of the Long Noncoding RNA BANCR in Cervical Cancer Cells. J Proteome Res. 2022 Apr 1; 21(4):1137-1152. doi: 10.1021/acs.jproteome.2c00009. Epub 2022 Mar 7. PMID: 35253437.

16.   Tao B, Hu H, Chen J, Chen L, Luo D, Sun Y, Ge F, Zhu Z, Trudeau VL, Hu W. Sinhcaf-dependent histone deacetylation is essential for primordial germ cell specification. EMBO Rep. 2022 Jun 7; 23(6):e54387. doi: 10.15252/embr.202154387. Epub 2022 May 9. PMID: 35532311; PMCID:PMC9171691. 

17.   Huang J, Dai W, Xiao D, Xiong Q, Liu C, Hu J, Ge F, Yu X, Li S. Acetylation-dependent SAGA complex dimerization promotes nucleosome acetylation and gene transcription. Nat Struct Mol Biol. 2022 Mar; 29(3):261-273. doi: 10.1038/s41594-022-00736-4. Epub 2022 Mar 17. PMID: 35301489. 

18.   Yang Z, Xu B, Liu J, Zhan J*, & Song L*. 2022. Dynamic changes of growth and physiological parameters of Spirulina cultivated outdoors—a case study in Spirulina Industrial Park in Inner Mongolia, China. Journal of Applied Phycology, 1-13.

2021 

19.   Shu J, Yang M, Zhang C, Yang P, Ge F, Li M. Improving the Genome Annotation of Rhizoctonia solani Using Proteogenomics. Curr Genomics. 2021 Dec 30; 22(5):373-383. doi: 10.2174/1389202922666211011143957. PMID: 35283670; PMCID:PMC8844941. 

20.   Yu S, Yang M, Xiong J, Zhang Q, Gao X, Miao W, Ge F*. Proteogenomic Analysis Provides Novel Insight into Genome Annotation and Nitrogen Metabolism in Nostoc sp. PCC 7120. Microbiol Spectr. 2021 Oct 31;9(2):e0049021. doi: 10.1128/ Spectrum.00490-21. Epub 2021 Sep 15. PMID: 34523988; PMCID:PMC8557916. 

21.   Zhang Q, Yu S, Wang Q, Yang M, Ge F*. Quantitative Proteomics Reveals the Protein Regulatory Network of Anabaena sp. PCC 7120 under Nitrogen Deficiency. J Proteome Res. 2021 Aug 6; 20(8):3963-3976. doi: 10.1021/acs.jproteome.1c00302. Epub 2021 Jul 16. PMID: 34270261. 

22.   Li S, Xiong Q, Chen M, Wang B, Yang X, Yang M, Wang Q, Cui Z, Ge F*. Long noncoding RNA HOTAIR interacts with Y-Box Protein-1 (YBX1) to regulate cell proliferation. Life Sci Alliance. 2021 Jul 15;4(9):e202101139. doi:10.26508/lsa. 202101139. PMID: 34266873; PMCID:PMC8321693. 

23.   Zhu Z, Ma G, Yang M, Tan C, Yang G, Wang S, Li N, Ge F, Wang S. Ras subfamily GTPases regulate development, aflatoxin biosynthesis and pathogenicity in the fungus Aspergillus flavus. Environ Microbiol. 2021 Sep;23(9):5334-5348. doi:10.1111/ 1462-2920.15626. Epub 2021 Jun 14. PMID: 34097354. 

24.   Chen M, Li S, Li W, Zhang ZP, Zhang X, Zhang XE, Ge F*, Cui Z. Nanoscale Imaging of RNA-Protein Interactions with a Photoactivatable Trimolecular Fluorescence Complementation System. ACS Chem Biol. 2021 Jun 18;16(6): 1003-1010. oi: 10.1021/acschembio.0c00945. Epub 2021 May 19. PMID: 34009928. 

25.   Yang M, Zhu Z, Zhuang Z, Bai Y, Wang S, Ge F*. Proteogenomic Characterization f the Pathogenic Fungus Aspergillus flavus Reveals Novel Genes Involved in flatoxin Production. Mol Cell Proteomics. 2021;20:100013. doi:10.1074/mcp.RA120.002144. Epub 2020 Dec 13. PMID: 33568340; PMCID:PMC7950108. 

26.   Yang M, Zhu Z, Bai Y, Zhuang Z, Ge F, Li M, Wang S. A novel phosphoinositide inase Fab1 regulates biosynthesis of pathogenic aflatoxin in Aspergillus lavus. Virulence. 2021 Dec;12(1):96-113. doi:10.1080/21505594.2020.1859820. PMID: 33315533; PMCID:PMC7781676. 

27.   Zhan J#, Steglich, C#, Scholz I, Hess W R., & Kirilovsky, D*. 2021. Inverse regulation of light harvesting and photoprotection is mediated by a 3′-end-derived sRNA in cyanobacteria. The Plant Cell, 33(2), 358-380.

28.   Ma M, Li Y, Chen J, Wang F, Yuan L, Li Y, Zhang B, Ye D, Han D, Jin H, Hu Q. High-cell-density cultivation of the flagellate alga Poterioochromonas malhamensis for biomanufacturing the water-soluble β-1,3-glucan with multiple biological activities. Bioresour Technol. 2021 Oct;337:125447. doi: 10.1016/j.biortech.2021.125447. Epub 2021 Jun 24. PMID: 34186327.

29.   Xu Quan, Hou Guoli, Chen Jianping, Wang Hongxia, Yuan Li, Han Danxiang, Hu Qiang, Jin Hu. Heterotrophically Ultrahigh-Cell-Density Cultivation of a High Protein-Yielding Unicellular Alga Chlorella With a Novel Nitrogen-Supply Strategy. Frontiers in Bioengineering and Biotechnology, 2021, 774854, 10.3389/fbioe.2021.774854.

30.    Liu C, Y Li, Chen Z, Yuan L, Liu H, Han D, Jin J, Yang Y, Hu Q, Zhu X.. Effects of dietary whole and defatted Arthrospira platensis (Cyanobacterium) on growth, body composition and pigmentation of the yellow catfish Pelteobagrus fulvidraco, Journal of Applied Phycology, 2021, 33(4): 2251-2259.

2020 

31.   Lin X, Yang M, Liu X, Cheng Z, Ge F*. Characterization of Lysine onomethylome and Methyltransferase in Model Cyanobacterium Synechocystis sp. CC 6803. Genomics Proteomics Bioinformatics. 2020 Jun;18(3):289-304. doi:10.1016/ j.gpb. 2019.04.005. Epub 2020 Oct 30. PMID: 33130100; PMCID:PMC7801250. 

32.   Liu X, Yang M, Liu Y, Ge F*, Zhao J. Structural and Functional Insights into Lysine Deacylase in the Cyanobacterium Synechococcus sp. PCC 7002. Plant Physiol. 2020 Oct;184(2):762-776. doi: 10.1104/pp.20.00583. Epub 2020 Jul 27. PMID: 32719110; PMCID:PMC7536712. 

33.   Yang X, Li S, Wu Y, Ge F, Chen Y, Xiong Q*. The circular RNA CDR1as regulate cell proliferation via TMED2 and TMED10. BMC Cancer. 2020 Apr 15;20(1):312. doi: 10.1186/s12885-020-06794-5. PMID: 32293333; PMCID:PMC7160961. 

34.   Zhu Z, Yang M, Bai Y, Ge F, Wang S. Antioxidant-related catalase CTA1 regulates development, aflatoxin biosynthesis, and virulence in pathogenic fungus Aspergillus flavus. Environ Microbiol. 2020 Jul;22(7):2792-2810. doi: 10.1111/1462-2920.15011. Epub 2020 Apr 15. PMID: 32250030. 

35.   Linfei Huang, Lihua Yu, Zhongze Li, Kang-sup Yoon, Qiang Hu, Li Yuan*, Danxiang Han*. Microalgal plastidial lysophosphatidic acid acyltransferase interacts with upstream glycerol-3-phosphate acyltransferase and defines its substrate selectivity via the two transmembrane domains. Algal Research, 2020; 45: 101758.

2019 

36.   Lu S, Xiong Q, Du K, Gan X, Wang X, Yang L, Wang Y, Ge F*, He S*. Comparative iTRAQ proteomics revealed proteins associated with lobed fin regeneration in Bichirs. Proteome Sci. 2019 Nov 20;17:6. doi: 10.1186/s12953-019-0153-0. PMID: 31832023; PMCID:PMC6869209. 

37.   Yang G, Yue Y, Ren S, Yang M, Zhang Y, Cao X, Wang Y, Zhang J, Ge F*, Wang S. Lysine acetylation contributes to development, aflatoxin biosynthesis and pathogenicity in Aspergillus flavus. Environ Microbiol. 2019 Dec;21(12):4792-4807. doi: 10.1111/1462-2920.14825. Epub 2019 Oct 25. PMID:31608565. 

38.   Yang M, Huang H, Ge F*. Lysine Propionylation is a Widespread Post-Translational Modification Involved in Regulation of Photosynthesis and Metabolism in Cyanobacteria. Int J Mol Sci. 2019 Sep 26;20(19):4792. doi: 10.3390/ ijms20194792. PMID: 31561603; PMCID:PMC6801645. 

39.   Calzadilla P I#, Zhan J#, Sétif P, Lemaire C, Solymosi D, Battchikova N, Wang Q and Kirilovsky D*, 2019. The cytochrome b6f complex is not involved in cyanobacterial state transitions. The Plant Cell, doi: https://doi.org/10.1105/tpc.18.00916, (Co-first author)

40.   Xiaohong Yang, Yi Li, Yanhua Li, Ding Ye, Li Yuan, Yonghua Sun, Danxiang Han, Qiang Hu*. Solid Matrix-Supported Supercritical CO2 Enhances Extraction of -Linolenic Acid from the Cyanobacterium Arthrospira (Spirulina) platensis andBioactivity Evaluation of the Molecule in Zebrafish. Mar Drugs. 2019; 17 (4).

2018 

41.   Yang M, Lin X, Liu X, Zhang J, Ge F*. Genome Annotation of a Model Diatom Phaeodactylum tricornutum Using an Integrated Proteogenomic Pipeline. Mol Plant. 2018 Oct 8;11(10):1292-1307. doi: 10.1016/j.molp.2018.08.005. Epub 2018 Aug 31. PMID: 30176371. 

42.   Liu X, Yang M, Wang Y, Chen Z, Zhang J, Lin X, Ge F*, Zhao J. Effects of PSII Manganese-Stabilizing Protein Succinylation on Photosynthesis in the Model Cyanobacterium Synechococcus sp. PCC 7002. Plant Cell Physiol. 2018 Jul 1;59(7): 1466-1482. doi: 10.1093/pcp/pcy080. PMID: 29912468. 

43.   Ren S, Yang M, Yue Y, Ge F, Li Y, Guo X, Zhang J, Zhang F, Nie X, Wang S. Lysine Succinylation Contributes to Aflatoxin Production and Pathogenicity in Aspergillus flavus. Mol Cell Proteomics. 2018 Mar;17(3):457-471. doi: 10.1074/mcp. RA117.000393. Epub 2018 Jan 3. PMID: 29298838; PMCID:PMC5836371. 

44.   Zhan J, and Wang Q*. "Photoresponse mechanism in cyanobacteria: key factor in photoautotrophic chassis." Synthetic Biology of Cyanobacteria. Springer, Singapore, 2018. 75-96.

2017 

45.   Li S, Ge F*. Current Understanding of the TCTP Interactome. Results Probl Cell Differ. 2017;64:127-136. doi: 10.1007/978-3-319-67591-6_5. PMID: 29149405. 

46.   Wu Y, Xiong Q, Li S, Yang X, Ge F*. Integrated Proteomic and Transcriptomic Analysis Reveals Long Noncoding RNA HOX Transcript Antisense Intergenic RNA (HOTAIR) Promotes Hepatocellular Carcinoma Cell Proliferation by Regulating Opioid Growth Factor Receptor (OGFr). Mol Cell Proteomics. 2018 Jan;17(1):146-159. doi: 10.1074/mcp.RA117.000277. Epub 2017 Oct 27. PMID:29079719; PMCID:PMC5750844. 

47.   Yang X, Xiong Q, Wu Y, Li S, Ge F*. Quantitative Proteomics Reveals the Regulatory Networks of Circular RNA CDR1as in Hepatocellular Carcinoma Cells. J Proteome Res. 2017 Oct 6;16(10):3891-3902. doi: 10.1021/acs.jproteome.7b00519. Epub 2017 Sep 20. PMID: 28892615. 

48.   Wu Y, Lou QY, Ge F, Xiong Q*. Quantitative Proteomics Analysis Reveals Novel Targets of miR-21 in Zebrafish Embryos. Sci Rep. 2017 Jun 22;7(1):4022. doi: 10.1038/s41598-017- 04166-x. PMID: 28642470; PMCID:PMC5481331. 

49.   Chen Z, Zhang G, Yang M, Li T, Ge F*, Zhao J. Lysine Acetylome Analysis Reveals Photosystem II Manganese-stabilizing Protein Acetylation is Involved in Negative Regulation of Oxygen Evolution in Model Cyanobacterium Synechococcus sp. PCC 7002. Mol Cell Proteomics. 2017 Jul;16(7):1297-1311. doi: 10.1074/ mcp. M117.067835. Epub 2017 May 26. PMID:28550166; PMCID:PMC5500762. 

50.   Ma Y, Yang M, Lin X, Liu X, Huang H, Ge F*. Malonylome Analysis Reveals the Involvement of Lysine Malonylation in Metabolism and Photosynthesis in Cyanobacteria. J Proteome Res. 2017 May 5;16(5):2030-2043. doi: 10.1021/acs. jproteome.7b00017. Epub 2017 Apr 6. PMID: 28365990. 

2016 

51.   Zhang J, Yang MK, Zeng H, Ge F*. GAPP: A Proteogenomic Software for Genome Annotation and Global Profiling of Post-translational Modifications in Prokaryotes. Mol Cell Proteomics. 2016 Nov;15(11):3529-3539. doi:10.1074/mcp.M116.060046. Epub 2016 Sep 14. PMID: 27630248; PMCID:PMC5098048. 

52.   Ren S, Yang M, Li Y, Zhang F, Chen Z, Zhang J, Yang G, Yue Y, Li S, Ge F*, Wang S. Global Phosphoproteomic Analysis Reveals the Involvement of Phosphorylation in Aflatoxins Biosynthesis in the Pathogenic Fungus Aspergillus flavus. Sci Rep. 2016 Sep 26;6:34078. doi: 10.1038/srep34078. PMID: 27667718;PMCID:PMC5036175. 

53.   Xiong Q, Chen Z, Ge F*. Proteomic analysis of post translational modifications in cyanobacteria. J Proteomics. 2016 Feb 16;134:57-64. doi:10.1016/j.jprot.2015.07.037. Epub 2015 Aug 4. PMID: 26254007. 

54.   Zhan J, Zhu X, Chen H, He C, Wang Q*. 2016. Thf1 interacts with PS I and stabilizes the PS I complex in Synechococcus sp. PCC 7942. Molecular Microbiology, doi: 10.1111/mmi.13488

55.   Zhan J, Rong J, and Wang Q*. "Mixotrophic cultivation, a preferable microalgae cultivation mode for biomass/bioenergy production, and bioremediation, advances and prospect." International journal of hydrogen energy， doi:https://doi.org/10.1016/j.ijhydene.2016.12.021.

56.   Chao Zhang, Zhouquan Li, Xiaohua Zhang, Li Yuan, Heping Dai^*, Wei Xiao^*. Transcriptomic profiling of chemical exposure reveals roles of Yap1 in protecting yeast cells from oxidative and other types of stresses. Yeast, 2016;33(1):5-19.

57.   Zhouquan Li, Yong Long, Liqiao Zhong, Guili Song, Xiaohua Zhang, Li Yuan, Zongbin Cui^*, Heping Dai^*. RNA sequencing provides insights into the toxicogenomic response of ZF4 cells to methyl methanesulfonat. Journal of Applied Toxicology (IF=3.01). 2016 Jan;36(1):94-104

2015 

58.   Tu S, Guo SJ, Chen CS, Liu CX, Jiang HW, Ge F, Deng JY, Zhou YM, Czajkowsky DM, Li Y, Qi BR, Ahn YH, Cole PA, Zhu H, Tao SC. YcgC represents a new protein deacetylase family in prokaryotes. Elife. 2015 Dec 30;4:e05322. doi:10.7554/eLife. 05322. PMID: 26716769; PMCID:PMC4709262. 

59.   Zhang HN, Yang L, Ling JY, Czajkowsky DM, Wang JF, Zhang XW, Zhou YM, Ge F, Yang MK, Xiong Q, Guo SJ, Le HY, Wu SF, Yan W, Liu B, Zhu H, Chen Z, Tao SC. Systematic identification of arsenic-binding proteins reveals that hexokinase-2 is inhibited by arsenic. Proc Natl Acad Sci U S A. 2015 Dec 8;112(49):15084-9.doi: 10.1073/pnas.1521316112. Epub 2015 Nov 23. PMID: 26598702; PMCID:PMC4679019. 

60.   Muhseen ZT, Xiong Q, Chen Z, Ge F*. Proteomics studies on stress responses in diatoms. Proteomics. 2015 Dec;15(23-24):3943-53. doi: 10.1002/pmic.201500165. Epub 2015 Oct 12. PMID: 26364674. 

61.   Chen Z, Zhan J, Chen Y, Yang M, He C, Ge F*, Wang Q. Effects of Phosphorylation of β Subunits of Phycocyanins on State Transition in the Model Cyanobacterium Synechocystis sp. PCC 6803. Plant Cell Physiol. 2015 Oct;56(10):1997-2013. doi: 10.1093/pcp/pcv118. Epub 2015 Aug 27. PMID: 26315596. 

62.   Zhang L, Shi W, Zeng XC, Ge F, Yang M, Nie Y, Bao A, Wu S, E G. Unique diversity of the venom peptides from the scorpion Androctonus bicolor revealed by transcriptomic and proteomic analysis. J Proteomics. 2015 Oct 14;128:231-50. doi: 10.1016/j.jprot.2015.07.030. Epub 2015 Aug 4. PMID: 26254009. 

63.   Zheng P, Xiong Q, Wu Y, Chen Y, Chen Z, Fleming J, Gao D, Bi L, Ge F*. Quantitative Proteomics Analysis Reveals Novel Insights into Mechanisms of Action of Long Noncoding RNA Hox Transcript Antisense Intergenic RNA (HOTAIR) in HeLa Cells. Mol Cell Proteomics. 2015 Jun;14(6):1447-63. doi:10.1074/mcp.M114.043984. Epub 2015 Mar 11. PMID: 25762744; PMCID:PMC4458712. 

64.   Wu C, Chen W, Chen J, Han B, Peng Z, Ge F, Wei B, Liu M, Zhang M, Qian C, Hou Z, Liu G, Guo C, Wang Y, Kitazato K, Yu G, Zou C, Xiong S. Preparation of monoPEGylated Cyanovirin-N's derivative and its anti-influenza A virus bioactivity in vitro and in vivo. J Biochem. 2015 Jun;157(6):539-48. doi:10.1093/jb/mvv013. Epub 2015 Feb 20. PMID: 25713409; PMCID:PMC8356848. 

65.   Xiong Q, Feng J, Li ST, Zhang GY, Qiao ZX, Chen Z, Wu Y, Lin Y, Li T, Ge F*, Zhao JD. Integrated transcriptomic and proteomic analysis of the global response of Synechococcus to high light stress. Mol Cell Proteomics. 2015 Apr;14(4):1038-53. doi: 10.1074/mcp.M114. 046003. Epub 2015 Feb 13. PMID:25681118; PMCID:PMC4390250. 

66.   Yang Y, Feng J, Li T, Ge F*, Zhao J. CyanOmics: an integrated database of omics for the model cyanobacterium Synechococcus sp. PCC 7002. Database (Oxford). 2015 Jan 28;2015:bau127. doi: 10.1093/database/bau127. PMID: 25632108;PMCID:PMC4309022. 

67.   Mo R, Yang M, Chen Z, Cheng Z, Yi X, Li C, He C, Xiong Q, Chen H, Wang Q, Ge F*. Acetylome analysis reveals the involvement of lysine acetylation in photosynthesis and carbon metabolism in the model cyanobacterium Synechocystis sp. PCC 6803. J Proteome Res. 2015 Feb 6;14(2):1275-86. doi: 10.1021/pr501275a.Epub 2015 Jan 26. PMID: 25621733. 

68.   Yang M, Wang Y, Chen Y, Cheng Z, Gu J, Deng J, Bi L, Chen C, Mo R, Wang X, Ge F*. Succinylome analysis reveals the involvement of lysine succinylation in metabolism in pathogenic Mycobacterium tuberculosis. Mol Cell Proteomics. 2015 Apr;14(4):796-811. doi: 10.1074/mcp.M114.045922. Epub 2015 Jan 20. PMID: 25605462; PMCID:PMC4390261. 

69.   Daddy S#, Zhan J#, Jantaro S, He C, He Q*, Wang Q*. 2015. A novel high light-inducible carotenoid-binding protein complex in the thylakoid membranes of Synechocystis PCC 6803. Scientific reports, doi: 10.1038/srep09480.

70.   Shaoxiang Luo, Liming Yan, Xiaohua Zhang, Li Yuan*, Qin Fang*, Yong-An Zhang, Heping Dai. Yeast surface display of capsid protein VP7 of grass carp reovirus: fundamental investigation for the development of vaccine against hemorrhagic disease. J. Microbiol. Biotechnol.2015.25(5): 2135-45.

2014 

71.   Yang MK, Yang YH, Chen Z, Zhang J, Lin Y, Wang Y, Xiong Q, Li T, Ge F*, Bryant DA, Zhao JD. Proteogenomic analysis and global discovery of posttranslational modifications in prokaryotes. Proc Natl Acad Sci U S A. 2014 Dec 30;111(52): E5633- 64. doi: 10.1073/pnas. 1412722111. Epub 2014 Dec 15. PMID:25512518; PMCID:PMC4284577. 

72.   Deng J, Bi L, Zhou L, Guo SJ, Fleming J, Jiang HW, Zhou Y, Gu J, Zhong Q, Wang ZX, Liu Z, Deng RP, Gao J, Chen T, Li W, Wang JF, Wang X, Li H, Ge F, Zhu G, Zhang HN, Gu J, Wu FL, Zhang Z, Wang D, Hang H, Li Y, Cheng L, He X, Tao SC, Zhang XE. Mycobacterium tuberculosis proteome microarray for global studies of protein function and immunogenicity. Cell Rep. 2014 Dec 24;9(6):2317-29. doi:10.1016/j.celrep.2014.11.023. Epub 2014 Dec 11. PMID: 25497094. 

73.   Liu F, Yang M, Wang X, Yang S, Gu J, Zhou J, Zhang XE, Deng J, Ge F*. Acetylome analysis reveals diverse functions of lysine acetylation in Mycobacterium tuberculosis. Mol Cell Proteomics. 2014 Dec;13(12):3352-66. doi:10.1074/mcp. M114. 041962. Epub 2014 Sep 1. PMID: 25180227; PMCID:PMC4256489. 

74.   Ge F, Huang W, Chen Z, Zhang C, Xiong Q, Bowler C, Yang J, Xu J, Hu H. Methylcrotonyl-CoA Carboxylase Regulates Triacylglycerol Accumulation in the Model Diatom Phaeodactylum tricornutum. Plant Cell. 2014 Apr;26(4):1681-1697. doi: 10.1105/tpc. 114.124982. Epub 2014 Apr 25. PMID: 24769481; PMCID:PMC4036579. 

75.   Tian M, Chen X, Xiong Q, Xiong J, Xiao C, Ge F*, Yang F, Miao W. Phosphoproteomic analysis of protein phosphorylation networks in Tetrahymena thermophila, a model single-celled organism. Mol Cell Proteomics. 2014 Feb;13 (2):503-19. doi: 10.1074/mcp.M112.026575. Epub 2013 Nov 7. PMID: 24200585; PMCID:PMC3916650. 

76.   Zhong L#, Yuan L#, Rao Y, Li Z, Gu Q, Long Y, Zhang X^*, Cui Z, Xu Y, Dai H^*. Investigation of effect of 17α-ethinylestradiol on vigilin expression using an isolated recombinant antibody. 2014,Aquatic Toxicology, 156:1-9.

77.   Liqiao Zhong#, Li Yuan*#, Yu Rao, Zhouquan Li, Xiaohua Zhang, Tao Liao, Ying Xu, Heping Dai^*. Distribution of Vitellogenin in Zebrafish (Danio rerio) Tissues for Biomarker Analysis. 2014, Aquatic Toxicology, 149:1-7.

2013 

78.    Chen Y, Yang LN, Cheng L, Tu S, Guo SJ, Le HY, Xiong Q, Mo R, Li CY, Jeong JS, Jiang L, Blackshaw S, Bi LJ, Zhu H, Tao SC, Ge F*. Bcl2-associated athanogene 3 interactome analysis reveals a new role in modulating proteasome activity. Mol Cell Proteomics. 2013 Oct;12(10):2804-19. doi: 10.1074/mcp.M112.025882. Epub 2013 Jul 3. PMID: 23824909; PMCID:PMC3790292. 

79.   Yang MK, Qiao ZX, Zhang WY, Xiong Q, Zhang J, Li T, Ge F*, Zhao JD. Global phosphoproteomic analysis reveals diverse functions of serine/threonine/tyrosine phosphorylation in the model cyanobacterium Synechococcus sp. strain PCC 7002. J Proteome Res. 2013 Apr 5;12(4):1909-23. doi: 10.1021/pr4000043. Epub 2013 Mar 18. PMID: 23461524. 

80.   Hong Liu, Xiaocong Zheng, Feng Zhang, Li Yu, Xiaohua Zhang, Heping Dai, Xiujie Shi, Wensheng Lan, Peng Jia, Li Yuan*, Hong Liu*. Selection and characterization of single-chain recombinant antibodies against spring viraemia of carp virus from mouse phage display library. 2013, J Virol Methods. 194(1-2):178-184.

2012 

81.   Li C, Xiong Q, Zhang J, Ge F*, Bi LJ. Quantitative proteomic strategies for the identification of microRNA targets. Expert Rev Proteomics. 2012 Oct;9(5):549-59. doi: 10.1586/epr.12.49. PMID: 23194271. 

82.   Xiong Q, Zhong Q, Zhang J, Yang M, Li C, Zheng P, Bi LJ, Ge F*. Identification of novel miR-21 target proteins in multiple myeloma cells by quantitative proteomics. J Proteome Res. 2012 Apr 6;11(4):2078-90. doi:10.1021/pr201079y. Epub 2012 Feb 24. PMID: 22316494. 

83.   Zhang J, Chen F, Li W, Xiong Q, Yang M, Zheng P, Li C, Pei J, Ge F*. 14-3-3ζ interacts with stat3 and regulates its constitutive activation in multiple myeloma cells. PLoS One. 2012;7(1):e29554. doi: 10.1371/journal.pone.0029554.Epub 2012 Jan 18. PMID: 22279540; PMCID:PMC3261159. 

84.   Zheng P, Zhong Q, Xiong Q, Yang M, Zhang J, Li C, Bi LJ, Ge F*. QUICK identification and SPR validation of signal transducers and activators of transcription 3 (Stat3) interacting proteins. J Proteomics. 2012 Jan 4;75(3):1055-66. doi: 10.1016/j.jprot.2011.10.020. Epub 2011 Oct 30. PMID:22075167.