薛佳宇个人简历
研究兴趣：
研究方向为生物信息学和进化基因组学，主要研究对象为陆地植物、观赏植物和药用植物，利用多组学大数据针对（1）植物从水生环境向陆生环境的登陆；（2）被子植物的起源和早期分化；（3）花器官建成的网络调控；（4）药用植物代谢通路解析等方向开展研究工作。致力于用基因组学数据来研究陆地植物类群间的系统发育关系、基因组进化和结构变异、植物观赏与代谢特征的演化，希望通过对基因组数据的分析，建立与宏观表型特征之间的联系，发掘表型背后的分子机制。
教授课程：
药用植物学（本科必修）、分子生物学（本科选修）、植物基因组学与分子进化（本科选修）、药用植物分子生物学技术（研究生选修）
学习经历：
2007.9-2010.6 南京大学 生命科学院 博士 （生物学）
2007.9-2009.9 美国密歇根大学 生态与进化生物学系 联合培养博士
2005.9-2007.8 南京大学 生命科学院 硕士 （植物学）
2001.9-2005.6 南京大学 生命科学院 学士 （生物学）
工作经历：
2020.9 至今 南京农业大学 园艺学院/前沿交叉研究院 副教授
2018.8-2019.7 比利时根特大学 访问学者
2014.7-2020.9 江苏省中国科学院植物研究所 助理研究员/副研究员
2010.7-2014.6 南京大学 生命科学院 博士后/助理研究员
学术兼职：
1. 2014.7-2022.12 江苏省植物学会青年工作委员会 委员/秘书
2. 2019.6-2020.3 Frontiers in Ecology & Evolution 客座编辑
3. 2019.6-至今 Frontiers in Genetics 副主编
4. 2022.2-至今 Tropical Plants 副主编
5. 2022.10-至今 Horticulturae 编委
任The Plant Journal、Plant Biotechnology Journal、Horticulture Research、New Phytologist、Plant Diversity、Journal of Systematics and Evolution等期刊审稿人
承担科研项目：
1. 中国石油天然气股份有限公司勘探开发研究院项目，石油微生物全基因组高通量测序和分析，2022.1-2022.10，27万元，已结题，主持
2. 现代古生物学和地层学国家重点实验室（中国科学院南京地质古生物研究所）开放课题基金项目，早期被子植物的线粒体系统发育基因组学及分子钟研究，2021.7-2023.6，7万元，进行中，主持
3. 江苏省植物资源研究与利用重点实验室项目，KSPKLB201835，结合系统性误差分析的主要被子植物线粒体系统发育基因组学研究，2018.9-2020.9，10万元，已结题，主持
4. 深圳市南亚热带植物多样性重点实验室开放基金项目，植物抗病“助手”型NBS-LRR基因的分子演化与遗传变异研究，2018.7-2020.7，5万元，已结题，主持
5. 国家自然科学基金青年项目，31500191，保守型植物抗病基因——XTNX类基因的起源及演化研究，2016.01-2018.12，24.8万元，已结题，参与
6. 国家自然科学基金青年项目，31400201，植物RPW8-NBS-LRR类抗病信号传导基因的起源、演化及功能化机制，2015.01-2017.12，25万元，已结题，参与
7. 国家自然科学基金青年项目，31300190，被子植物NBS-LRR基因型抗病基因的演化研究，2014.1-2016.12，23万元，已结题，主持
8. 江苏省自然科学基金青年项目，BK20130565，CC-NBS-LRR型抗病基因在被子植物中的多样性扩张与功能演化研究，2013.7-2016.6，20万元，已结题，主持
9. 国家自然科学基金重大研究计划，91231102，野生大豆适应不同病原环境的微进化过程与多基因作用机制，2013.1-2015.12，100万元，已结题，参与
10. 国家自然科学基金面上项目，31170210，rsv1抗病基因位点在多个豆科植物中的结构差异与功能化机制，2012.01-2015.12，72万元，已结题，参与
11. 中国博士后科学基金面上项目第49批，20110491392，陆地植物NBS-LRR型基因的起源与早期演化的分子机制，2011.4-2012.6，3万元，已结题，主持
12. 美国国家自然科学基金项目，ATOL: Assembling the Liverwort Tree of Life: a Window into the Evolution and Diversification of Early Land Plants，DEB 0531689 $435,543 2005-2010，参与
13. 美国国家自然科学基金项目，ATOL: The Angiosperm Tree of Life: Resolving the Trunk of the Tree and 12 of its Thorniest Nodes，DEB 0431239 $244,948 2004-2009，参与
报告：
1. “木槿属基因组演化及花器官演化的分子基础”, 第六届芙蓉国际研讨会议, 成都, 2023
2. “The Saururus chinensis genome provides insights into the evolution of pollination strategies and herbaceousness in magnoliids”, 第一届国际热带植物学术会议, 三亚, 2023
3. “被子植物早期分化类群的系统发育基因组学研究”, 受邀报告, 中国科学院南京地质古生物研究所, 南京, 2021
4. “Mitochondrial genes from eighteen angiosperms fill sampling gaps for phylogenomic inferences of the early diversification of flowering plants”, 全国系统与进化植物学研讨会暨第十四届青年学术研讨会, 西双版纳, 2020
5. “被子植物的线粒体系统发育基因组学研究”，江苏省植物学会年会, 徐州, 2019
6. “被子植物NBS-LRR型抗病基因的演化”, 中科院植物园2016年度工作会议暨学术论坛, 武汉, 2016
7. “植物KCS基因的演化与十字花科的芥酸合成”, 江苏省植物学会学术年会, 苏州, 2015
8. “The evolution of plant NBS-LRR disease resistance genes in angiosperms”, 第五届国际植物园协会亚洲分会暨东亚植物园网络会议, 南京, 2014
科研论文：（共同第一作者#，通讯作者*）
1. Zhao W, Wu J, Tian M, Xu S, Hu S, Wei Z, Lin G, Tang L, Wang R, Feng B, Wang B, Lyu H, Paetz C, Feng X, Xue JY*, Li P*, Chen Y*. 2024. Characterization of O-Methyltransferases in the Biosynthesis of Phenylphenalenone Phytoalexins Based on the Telomere-to-Telomere Gap-less Genome of Musella lasiocarpa. Horticulture Research. uhae042, https://doi.org/10.1093/hr/uhae042
2. Tang Q, Zhou GC, Liu SJ, Li W, Wang YL, Xu GY, Li TF, Meng GQ*, Xue JY*. 2023. Selection and Validation of Reference Genes for qRT-PCR Analysis of Gene Expression in Tropaeolum majus (Nasturtium). Horticulturae 9(11), 1176.
3. Xue JY#, Fan HY #, Zeng Z #, Zhou YH, Hu SY, Li SX, Cheng YJ, Meng XR, Chen F*, Shao ZQ*, Van de Peer Y*. 2023. Comprehensive regulatory networks for tomato organ development based on the genome and RNAome of MicroTom tomato. Horticulture Research. 10(9):uhad147.
4. Xiang KL, Wu SD, Lian L, He WC, Peng D, Peng HW, Zhang XN, Li HL, Xue JY, Shan HY, Xu GX, Liu Y, Wu ZQ, Wang W. 2023. Genomic data and ecological niche modeling reveal an unusually slow rate of molecular evolution in the Cretaceous Eupteleaceae. Science China Life Sciences. doi: 10.1007/s11427-023-2448-x.
5. Liang Y, Chen F*, Xue JY*. 2023. Editorial: Genomics and Biotechnology Empower Plant Science Research. Horticulturae 9, 863.
6. Xu Y#, Wu JY#, Liu QJ, Xue JY*. 2023. Genome-Wide Identification and Evolutionary Analyses of SrfA Operon Genes in Bacillus. Genes. 14, 422.
7. Xue JY#, Li Z#, Hu SY#, Kao SM#, Zhao T#, Wang JY#, Wang Y, Chen M, Qiu Y, Fan HY, Liu Y*, Shao ZQ*, Van de Peer Y*. 2023. The Saururus chinensis genome provides insights into the evolution of pollination strategies and herbaceousness in magnoliids. The Plant Journal. 113(5):1021-1034.
8. Zhou W, Wang C, Hao X, Chen F, Huang Q, Liu T, Xu J, Guo S, Liao B, Liu Z, Feng Y, Wang Y, Liao P, Xue JY, Shi M, Maoz I, Kai G. 2024. A chromosome-level genome assembly of anesthetic drug-producing Anisodus acutangulus provides insights into its evolution and the biosynthesis of tropane alkaloids. Plant Communications. 5(1):100680.
9. Xu KW#, Wei XF#, Lin CX, Zhang M, Zhang Q, Zhou P, Fang YM, Xue JY*, Duan YF*. 2022. The chromosome-level holly (Ilex latifolia) genome reveals key enzymes in triterpenoid saponin biosynthesis and fruit color change. Frontiers in Plant Science. 13:982323.
10. Li W#, Huang XC#, Wang YL, Zhang RJ, Shi DY, Li TF, Zhou GC*, Xue JY*. 2022. Plastid Phylogenomics of Paeonia and the Evolution of Ten Flower Types in Tree Peony. Genes. 13, 2229.
11. Wang Z#, Xue JY#, Hu SY#, Zhang F, Yu R, Chen D, Van de Peer Y, Jiang J, Song A, Ni L, Hua J, Lu Z, Yu C, Yin Y, Gu C*. 2022. The genome of Hibiscus hamabo reveals its adaptation to saline and waterlogged habitat. Horticulture Research. uhac067.
12. Xue JY, Wang MQ, Song TQ, Zhou GC, Li Z, Van de Peer Y, Chen F, Zhang L, Cox C, Liu Y*, Wang Q*, Hang YY*. 2022. Mitochondrial genes from 18 angiosperms fill sampling gaps for phylogenomic inferences of the early diversification of flowering plants. Journal of Systematics and Evolution. 60(4): 773-788.
13. Liu Y, Wang S, Li L, Yang T, Dong S, Wei T, Wu S, Liu Y, Gong Y, Feng X, Ma J, Chang G, Huang J, Yang Y, Wang H, Liu M, Xu Y, Liang H, Yu J, Cai Y, Zhang Z, Fan Y, Mu W, Sahu SK, Liu S, Lang X, Yang L, Li N, Habib S, Yang Y, Lindstrom AJ, Liang P, Goffinet B, Zaman S, Wegrzyn JL, Li D, Liu J, Cui J, Sonnenschein EC, Wang X, Ruan J, Xue JY, Shao ZQ, Song C, Fan G, Li Z, Zhang L, Liu J, Liu ZJ, Jiao Y, Wang XQ, Wu H, Wang E, Lisby M, Yang H, Wang J, Liu X, Xu X, Li N, Soltis PS, Van de Peer Y, Soltis DE, Gong X, Liu H, Zhang S. 2022. The Cycas genome and the early evolution of seed plants. Nature Plants. 8(4):389-401.
14. Wu JY, Xue JY*, Van de Peer Y*. 2021. Evolution of NLR Resistance Genes in Magnoliids: Dramatic Expansions of CNLs and Multiple Losses of TNLs. Frontiers in Plant Science. 12:777157.
15. Zhao T, Zwaenepoel A, Xue JY, Kao SM, Li Z, Schranz ME, Van de Peer Y*. 2021. Whole-genome microsynteny-based phylogeny of flowering plants. Nature Communications. 9;12(1):3498.
16. Chen F#, Su L# , Hu S , Xue JY, Liu H, Liu G, Jiang Y, Du J, Qiao Y, Fan Y, Liu H, Yang Q, Lu W, Shao ZQ, Zhang J, Zhang L, Chen F, Cheng ZM*. 2021. A chromosome-level genome assembly of rugged rose (Rosa rugosa) provides insights into its evolution, ecology, and floral characteristics. Horticulture Research. 8, 141.
17. Xue JY, Takken FL, Nepal MP, Maekawa T, Shao ZQ*. 2020. Editorial: Evolution and Functional Mechanisms of Plant Disease Resistance. Frontiers in Genetics. 11:593240.
18. Xue JY, Wang Y, Chen M, Dong S, Shao ZQ*, Liu Y*. 2020. Maternal Inheritance of U’s Triangle and Evolutionary Process of Brassica Mitochondrial Genomes. Frontiers in Plant Science. 11:805.
19. Zhang J#, Fu XX#, Li RQ#, Zhao X#, Liu Y#, Li MH#, Zwaenepoel A#, Ma H, Goffinet B, Guan YL, Xue JY, Liao YY, Wang QF, Wang QH, Wang JY, Zhang GQ, Wang ZW, Jia Y, Wang MZ, Dong SS, Yang JF, Jiao YN, Guo YL, Kong HZ, Lu AM, Zhang SZ*, Van de Peer Y*, Liu ZJ*Chen ZD*. 2020. The hornwort genome and early land plant evolution. Nature Plants. 6(2):107-118.
20. Xue JY, Zhao T, Liu Y, Zhang YX, Zhang GQ, Chen HF, Zhou GC*, Zhang SZ*, Shao ZQ*. 2020. Genome-Wide Analysis of NBS-LRR Genes of Four Orchids Revealed Extremely Low Numbers of Disease Resistance Genes. Frontiers in Genetics. 10:1286.
21. Shao ZQ#, Xue JY#, Wang Q, Wang B, Chen JQ*. 2019. Revisiting the Origin of Plant NBS-LRR Genes. Trends in Plant Science. 24(1):9-12.
22. Dong S, Xue JY, Zhang S, Zhang L, Wu H, Chen Z, Goffinet B, Liu Y*. 2018. Complete mitochondrial genome sequence of Anthoceros angustus: conservative evolution of the mitogenomes in hornworts. The Bryologist. 121(1):014–022.
23. Qian LH#, Zhou GC#, Sun XQ, Lei Z, Zhang YM, Xue JY*, Hang YY*. 2017. Distinct Patterns of Gene Gain and Loss: Diverse Evolutionary Modes of NBS-Encoding Genes in Three Solanaceae Crop Species. G3:Genes|Genomes|Genetics. 7(5):1577-1585.
24. Zhang YM, Xue JY, Liu LW, Sun X, Zhou GC, Chen M, Shao ZQ, Hang YY. 2017. Divergence and Conservative Evolution of XTNX Genes in Land Plants. Frontiers in Plant Science. 8:1844.
25. Li D, Lei Z, Xue JY, Zhou G, Hang Y*, Sun X*. 2017. Regulation of FATTY ACID ELONGATION1 expression and production in Brassica oleracea and Capsella rubella. Planta. 246(4):763-778.
26. Shao ZQ#, Xue JY#, Wu P, Zhang YM, Wu Y, Hang YY, Wang B*, Chen JQ*. 2016. Large-Scale Analyses of Angiosperm Nucleotide-Binding Site-Leucine-Rich Repeat Genes Reveal Three Anciently Diverged Classes with Distinct Evolutionary Patterns. Plant Physiology. 170(4): 2095-2109.
27. Guo HS#, Zhang YM#, Sun XQ, Li MM, Hang YY*, Xue JY*. 2016. Evolution of the KCS gene family in plants: the history of gene duplication sub/neofunctionalization and redundancy. Molecular Genetics and Genomics. 291(2):739-52.
28. Sun XQ, Li DH, Xue JY, Yang SH, Zhang YM, Li MM, Hang YY*. 2016. Insertion DNA Accelerates Meiotic Interchromosomal Recombination in Arabidopsis thaliana. Molecular Biology and Evolution. 33(8):2044-53.
29. Zhang YM#, Shao ZQ#, Wang Q, Hang YY, Xue JY, Wang B*, Chen JQ*. 2016. Uncovering the dynamic evolution of nucleotide-binding site-leucine-rich repeat (NBS-LRR) genes in Brassicaceae. Journal of Integrative Plant Biology. 58(2):165-77. 2016.
30. Peng FW, Wu TT, Ren ZW, Xue JY, Shi L*. 2015. Hybrids from 4-anilinoquinazoline and hydroxamic acid as dual inhibitors of vascular endothelial growth factor receptor-2 and histone deacetylase. Bioorganic & Medicinal Chemistry Letters. 25(22):5137-41.
31. Wu P, Shao ZQ, Wu XZ, Wang Q, Wang B, Chen JQ, Hang YY, Xue JY*. 2014. Loss/retention and evolution of NBS-encoding genes upon whole genome triplication of Brassica rapa. Gene. 540:54-61.
32. Shao ZQ#, Zhang YM#, Hang YY, Xue JY, Zhou GC, Wu P, Wu XY, Wu XZ, Wang Q, Wang B*, Chen JQ*. 2014. Long-Term Evolution of Nucleotide-Binding Site-Leucine-Rich Repeat (NBS-LRR) Genes: Understandings Gained From and Beyond the Legume Family. Plant Physiology. 166(1):217-234.
33. Shi L, Wu TT, Wang Z, Xue JY, Xu YG*. 2014. Discovery of quinazolin-4-amines bearing benzimidazole fragments as dual inhibitors of c-Met and VEGFR-2. Bioorganic & Medicinal Chemistry. 22(17):4735-4744.
34. Shi L, Wu TT, Wang Z, Xue JY, Xu YG. 2014. Discovery of N-(2-phenyl-1H-benzo[d]imidazol-5-yl)quinolin-4-amine derivatives as novel VEGFR-2 kinase inhibitors. European Journal of Medicinal Chemistry. 84:698-707.
35. Amborella Genome Project. 2013. The Amborella Genome and the Evolution of Flowering Plants. Science 342 (6165): p. 1241089
36. Cheng K#, Xue JY#, Zhu HL*. 2013. Design, synthesis and antibacterial activity studies of thiazole derivatives as potent ecKAS III inhibitors. Bioorganic & Medicinal Chemistry Letters 23(14):4235-4238.
37. Huang XF#, Xue JY#, Jiang AQ, Zhu HL*. 2013. Capsaicin and its analogues: structure-activity relationship study. Current Medicinal Chemistry 20(21):2661-72.
38. Xue JY, Wang Y, Wu P, Wang Q, Yang LT, Pan XH, Wang B*, Chen JQ*. 2012. A primary survey on bryophyte species reveals two novel classes of nucleotide-binding site (NBS) genes. PLoS One 7(5): e36700.
39. Liu Y, Wang B, Cui P, Li L, Xue JY, Yu J, Qiu YL*. 2012. The Mitochondrial Genome of the Lycophyte Huperzia squarrosa: The Most Archaic Form in Vascular Plants. PLoS One. 7(4):e35168.
40. Liu Y, Xue JY, Wang B, Li L, Qiu YL*. 2011. The Mitochondrial Genomes of the Early Land Plants Treubia lacunose and Anomodon rugelii: Dynamic and Conservative Evolution. PLoS One 610:e25836.
41. Xue JY#, Liu Y#, Li L, Wang B, Qiu YL*. 2010. The complete mitochondrial genome sequence of the hornwort Phaeoceros laevis: Retention of many pseudogenes and conservative evolution of mitochondrial genomes in hornworts. Current Genetics 56:53-61.
42. Wang B, Li HY, Xue JY, Liu Y, Ané JM, Qiu YL*. 2010. Presence of three mycorrhizal genes in the common ancestor of land plants suggests a key role of mycorrhizas in the colonization of land by plants. New phytologist 186:514-525.
43. Qiu YL, Li L, Wang B, Xue JY, Hendry TA, Li RQ, Brown JW, Liu Y, Hudson GT, Chen ZD. 2010. Angiosperm phylogeny inferred from sequences of four mitochondrial genes. Journal of Systematics and Evolution 48 (6): 391-425.
44. Wang B#, Xue JY#, Li L, Liu Y, Qiu YL*. 2009. The complete mitochondrial genome sequence of the liverwort Pleurozia purpurea reveals extremely conservative mitochondrial genome evolution in liverworts. Current Genetics 55:601-609.
45. Liu XH, Lv PC, Xue JY, Song BA, Zhu HL*. 2009. Novel 2,4,5-trisubstituted oxazole derivatives: Synthesis and antiproliferative activity. European Journal of Medicinal Chemistry 44: 3930-3935.
46. Li HQ, Xue JY, Shi L, Gui SY, Zhu HL*. 2008. Synthesis, crystal structure and antimicrobial activity of deoxybenzoin derivatives from genistein. European Journal of Medicinal Chemistry 43: 662-667.
47. Xue JY, Xiao ZP, Shi L, Li HQ, Zhu HL*. 2007. Synthesis and structure-activity relationship analysis of enamines as potential antibacterial agents. Australian Journal of Chemistry 60: 957-962.
48. Xiao ZP, Xue JY, Tan SH, Zhu HL*. 2007. Synthesis, structure, and structure–activity relationship analysis of enamines as potential antibacterials. Bioorganic & Medicinal Chemistry 15: 4212-4219.
专著:
1. Chen F & Xue JY, Eds. 2023. Genomic Analyses and New Breeding Technologies for the Enhancement of Horticultural Plants.
2. Shao ZQ, Xue JY, Takken FLW, Maekawa T, Nepal MP, Eds. 2020. Evolution and Functional Mechanisms of Plant Disease Resistance. Lausanne: Frontiers Media SA. doi: 10.3389/978-2-88966-199-2
3. Liu Y, Wang B, Li L, Qiu YL, Xue JY. 2012. Conservative and dynamic evolution of mitochondrial genomes in early land plants. In: Bock R, Knoop V, eds. Genomics of Chloroplasts and Mitochondria. Netherlands: Springer. p. 159-174.
发明专利：
1. 薛佳宇、周广灿、王元涛、张艳梅。抗癌、抗炎多肽Lunasin在哺乳动物细胞CHO-S中的表达、纯化方法。2020-3-31。中国。ZL201710417823.8
2. 周广灿、王宜磊、薛佳宇、李稳、陈晓、吴雨含。一种旱金莲调控芥酸合成基因及其应用。2020-06-30。中国。CN2019112017877
3. 薛佳宇、张艳梅、周广灿、雷照、石磊、吴婷婷、王智。6,7-二甲氧基-喹唑啉-4-胺衍生物、其制备方法及医药用途。2017-09-15。中国。ZL201510116327.x
