一、基本信息
杨平仿，博士，教授，博士生导师
电子邮箱：yangpf(AT)hubu.edu.cn
研究方向：种子萌发调控的分子机理；水生植物基因组学与遗传育种
二、教育背景
2002.09–2005.06 中科院植物研究所，博士，导师：匡廷云院士，沈世华研究员
1999.09–2002.06 华中农业大学，硕士，导师：姚家玲教授
1993.09–1997.06 西北农林科技大学，学士
三、工作经历
2018.10至今 九游会老哥俱乐部，教授
2010.01–2018.09 中科院武汉植物园研究员
2007.03–2009.12 美国密歇根州立大学Jianping Hu’s Lab, DOE–Plant Research Laboratory
2005.07–2005.11 中科院植物研究所 实习研究员（沈世华研究员）
2005.11–2007.02 香港科技大学 访问学者
四、科研项目
1. 自然基金面上项目：水稻种子萌发过程中赤霉素信号传递所介导的蛋白质磷酸化级联反应及其功能分析（31671775），64万，2017.01–2020.12，主持
2. 自然基金面上项目：水稻种子萌发过程中参与赤霉素信号传递的关键转录因子挖掘与功能分析 （31271805），84万，2013.01–2016.12，主持
3. 自然科学基金重大项目：葡萄种质资源抗旱寒评价及其抗性基因挖掘与利用（31130047），200万，2012.01–2016.12，参与
4. 科技部重大基础专项：水稻功能基因组：水稻磷酸化蛋白质组平台建设，2016.01–2020.12，67万，参与
5. 中科院海外科教项目：中国主要水稻栽培品种在非洲地区的品比实验与示范种植，130万，2016.01–2020.12，主持
6. 中科院知识创新项目：资源植物繁殖的分子机理，300万，2011.01–2013.12，主持
7. 中科院重要方向项目：莲经济性状的评价，50万，2011.01–2013.12，主持
8. 中科院重要方向项目：莲生物学与遗传育种研究，170万，2014.01–2017.12，主持
9. 中科院海外科教基地项目：非洲与亚洲地区水稻抗非生物胁迫的转录组及蛋白质组研究，220万，2013.01–2015.12，主持
10. 中科院海外科教项目：中国主要水稻栽培品种在非洲地区的品比实验与示范种植，130万，2016.01–2020.12，主持
11. 湖北大学杰出人才“B”类，400万，2018.10–2023.09，主持
五、发表论文（#共同第一作者，*通讯作者）
通讯作者论文
1. Ma Z, Lv J, Wu W, Fu D, Lü S, Ke Y, Yang P. (2023) Regulatory network of rice in response to heat stress and its potential application in breeding strategy. Mol Breed. 43(9):68.
2. Li Q, Gao L, Yu F, Lü S, Yang P. (2023) Evolution and diversification of CaM/CML gene family in green plants. Plant Physiol Biochem. 202:107922.
3. Qi H, Yu F, Deng J, Zhang L, Yang P*. (2023) The high-quality genome of lotus reveals tandem duplicate genes involved in stress response and secondary metabolites biosynthesis. Hortic Research 10(5):uhad040. (IF=8.7)
4. Liao M, Ma Z, Kang Y, Zhang B, Gao X, Yu F, Yang P*, Ke Y. (2023) ENHANCED DISEASE SUSCEPTIBILITY 1 promotes hydrogen peroxide scavenging to enhance rice thermotolerance. Plant Physiology 26:kiad257 (IF=7.4)
5. Deng J, Su M, Zhang X, Liu X, Damaris RN, Lv S, Yang P*. (2023) Proteomic and metabolomic analyses showing the differentially accumulation of NnUFGT2 is involved in the petal red-white bicolor pigmentation in lotus (Nelumbo nucifera). Plant Physiology and Biochemistry 198:107675. (IF=6.5)
6. Yu F, Qi H, Gao L, Luo S, Njeri Damaris R, Ke Y, Wu W, Yang P*. (2023) Identifying RNA Modifications by Direct RNA Sequencing Reveals Complexity of Epitranscriptomic Dynamics in Rice. Genomics Proteomics Bioinformatics 10:S1672-0229(23)00034-7. (IF=9.5)
7. He D, Rao X, Deng J, Damaris RN, Yang P*. (2023) Integration of metabolomics and transcriptomics analyses investigates the accumulation of secondary metabolites in maturing seed plumule of sacred lotus (Nelumbo nucifera). Food Research International 163:112172. (IF=8.1)
8. Qi H, Yu F, Deng J, Yang P*. (2022) Studies on Lotus Genomics and the Contribution to Its Breeding. International Journal of Molecular Science 23(13):7270 (IF=6.2)
9. Yang P*. (2022) Editorial: Proteomics of Post-translational Modifications in Plants. Frontiers in Plant Science 13:894314. (IF=6.6)
10. Li M, Zhang H, He D, Damaris RN, Yang P*. (2022) A stress-associated protein OsSAP8 modulates gibberellic acid biosynthesis by reducing the promotive effect of transcription factor OsbZIP58 on OsKO2. Journal of Experimental Botany 73(8):2420-2433. (IF=7.3)
11. Yu F, Li M, He D, Yang P. (2022) Advances on Post-translational Modifications Involved in Seed Germination. Frontiers in Plant Science 12:642979. (IF=6.6)
12. He D, Li M, Damaris RN, Bu C, Xue J, Yang P (2020) Quantitative ubiquitylomics approach for characterizing the dynamic change and extensive modulation of ubiquitylation in rice seed germination. Plant Journal. 101(6):1430-1447.
13. Zhang H, Li M, He D, Wang K, Yang P (2020) Mutations on ent-kaurene oxidase 1 encoding gene attenuate its enzyme activity of catalyzing the reaction from ent-kaurene to ent-kaurenoic acid and lead to delayed germination in rice. PLoS Genet. 16(1):e1008562.
14. Li M, Hameed I, Cao D, He D, Yang P (2020) Integrated Omics Analyses Identify Key Pathways Involved in Petiole Rigidity Formation in Sacred Lotus. Int J Mol Sci. 21:5087
15. Hu Z, Damaris RN, Yang P (2020) Mechanism of GA-mediated leaf sheath growth in rice: a proteomic Approach. Plant Growth Regulation 91:23–36.
16. Li M, Chen X, He D, Yang P (2020) Proteomic analysis reveals that calcium channel blockers affect radicle protrusion during rice seed germination. Plant Growth Regulation 90:393–407.
17. Cao D, Damaris RN, Zhang Y, Liu M, Li M, Yang P (2019) Proteomic analysis showing the signaling pathways involved in the rhizome enlargement process in Nelumbo nucifera. BMC Genomics 20(1):766.
18. Damaris RN, Lin Z, Yang P, He D (2019) The Rice Alpha-Amylase, Conserved Regulator of Seed Maturation and Germination. Int J Mol Sci. 20(2):450.
19. Lin Z, Liu M, Damaris RN, Nyong'a TM, Cao D, Ou K, Yang P (2019) Genome-Wide DNA Methylation Profiling in the Lotus (Nelumbo nucifera) Flower Showing its Contribution to the Stamen Petaloid. Plants (Basel). 8(5):135.
20. Lin Z, Zhang C, Cao D, Damaris RN, Yang P (2019) The Latest Studies on Lotus (Nelumbo nucifera)-an Emerging Horticultural Model Plant. Int J Mol Sci. 20(15):3680.
21. Zhang Y, Nyong’A TM, Shi T, Yang P (2019) The complexity of alternative splicing and landscape of tissue-specific expression in lotus (Nelumbo nucifera) unveiled by Illumina- and single-molecule real-time-based RNA-sequencing. DNA Research 206, 301-311.
22. Huang L, Yang M, Li L, Li H, Yang D, Shi T, Yang P (2018) Whole genome re-sequencing reveals evolutionary patterns of sacred lotus (Nelumbo nucifera). Journal of Integrative Plant Biology 60(1): 2-15. (封面论文)
23. Liu Y, Damaris RN, Yang P (2017) Proteomics analysis identified a DRT protein involved in arsenic resistance in Populus. Plant Cell Reports, 36(12): 1855-1869.
24. Wang K, Wang X, Li M, Shi T, Yang P* (2017) Low genetic diversity and functional constraint of miRNA genes participating pollen–pistil interaction in rice. Plant Molecular Biology, 95: 89-98
25. Shi T, Wang K, Yang P* (2017) The evolution of plant microRNAs: insights from a basal eudicot sacred lotus. The Plant Journal 89, 442–457.
26. Deng J, Li M, Huang L, Yang M, Yang P (2016) Genome-Wide Analysis of the R2R3 MYB Subfamily Genes in Lotus (Nelumbo nucifera). Plant Molecular Biology Reporter, 34: 1016-1026. （封面论文）
27. Sha A, Li M, Yang P* (2016) Identification of phosphorus deficiency responsive proteins in a high phosphorus acquisition soybean (Glycine max) cultivar through proteomic analysis. Biochim Biophys Acta-Proteins and Proteomics 1864: 427-434.
28. Zhang H, He D, Yu J, Li M, Damaris RN, Gupta R, Kim ST, Yang P* (2016) Analysis of dynamic protein carbonylation in rice embryo during germination through AP-SWATH. Proteomics 16: 989-1000.
29. He D, Wang Q, Li M, Damaris RN, Yi X, Cheng Z, Yang P* (2016) Global proteome analyses of lysine acetylation and succinylation reveal the widespread involvement of both modification in metabolism in the embryo of germinating rice seed. Journal of Proteome Research 15: 879-890.
30. Li M, Wang K, Li S, Yang P* (2016) Exploration of rice pistil responses during early post-pollination through a combined proteomic and transcriptomic analysis. Journal of Proteomics 131: 214-226.
31. Liu Y, Chaturvedi P, Fu J, Cai Q, Weckwerth W, Yang P* (2016) Induction and quantitative proteomic analysis of cell dedifferentiation during callus formation of lotus (Nelumbo nucifera Gaertn.spp. baijianlian). Journal of Proteomics 131: 61-70.
32. Yang M, Zhu L, Pan C, Xu L, Liu Y, Ke W, Yang P* (2015) Transcriptomic analysis of the regulation of rhizome formation in temperate and tropical Lotus (Nelumbo nucifera). Scientific Reports 5: 13059.
33. Deng J, Fu Z, Chen S, Damaris RN, Wang K, Li T, Yang P* (2015) Proteomic and epigenetic analyses of lotus (Nelumbo nucifera) petals between red and white cultivars. Plant & Cell Physiology 56:1546-1555.
34. Yang M, Xu L, Liu Y, Yang P* (2015) RNA-seq uncovers SNPs and alternative splicing events in Asian lotus (Nelumbo nucifera). PLoS One 10: e0125702.
35. Wang K, Deng J, Damaris R, Yang M, Xu L, Yang P* (2015) LOTUS-DB: an integrative and interactive database for Nelumbo nucifera study. Database bav023.
36. Han C, Yang P* (2015). Studies on the molecular mechanisms of seed germination. Proteomics 15:1671-1679.
37. Yin X, He D, Gupta R, Yang P* (2015) Physiological and proteomic analyses on artificially aged Brassica napus seed. Frontiers in Plant Science 6:112.
38. Han C, He D, Li M, Yang P* (2014) In-depth proteomic analysis of rice embryo reveals its important roles in seed germination. Plant & Cell Physiology 55, 1826–1847. （期刊重点推荐highlight论文）
39. Wang K, Zhao Y, Li M, Gao F, Yang MK, Wang X, Li S, Yang P* (2014) Analysis of phosphoproteome in rice pistil. Proteomics 14, 2319-2334.
40. Han C, Wang K, Yang P* (2014) Gel-based comparative phosphoproteomic analysis on rice embryo during germination. Plant & Cell Physiology 55, 1376-1394.
41. Li M, Wang K, Wang X, Yang P* (2014) Morphological and proteomic analysis reveal the role of pistil under pollination in Liriodendron chinense (Hemsl.) Sarg. Plos one 9(6):e99970.
42. He D, Zhang H, Yang P (2014) The Mitochondrion-located protein OsB12D1 enhances flooding tolerance during seed germination and early seedling growth in rice. International Journal of Molecular Science 15:13461-1381.
43. Han C, Yang P*, Sakata K, Komatsu S (2014) Quantitative proteomics reveals the role of protein phosphorylation in rice embryos during early stages of germination. Journal of Proteome Research 13, 1766-1782.
44. Liu Y, Li M, Han C, Wu F, Tu B, Yang P* (2013) Comparative proteomic analysis of rice shoots exposed to high arsenate. Journal of Integrative Plant Biology 55, 965-978.
45. Komatsu S, Han C, Nanjo Y, Altaf-Un-Nahar M, Wang K, He D, Yang P* (2013) Label-free quantitative proteomic analysis of abscisic acid effect in early-stage soybean under flooding. Journal of Proteome Research 12, 4769-84.
46. Deng J, Chen S, Yin X, Wang K, Liu Y, Li S, Yang P * (2013) Systematic qualitative and quantitative assessment of anthocyanins, flavones and flavonols in the petals of 108 lotus (Nelumbo nucifera) cultivars. Food Chemistry 139, 307-312.
47. Han C, Yin X, He D, Yang P* (2013) Analysis of proteome profile in germinating soybean seed, and its comparison with rice showing the styles of reserves mobilization in different crops. PLoS One 8, e56947.
48. He D, Yang P* (2013) Proteomics of rice seed germination. Frontiers in Plant Science 4, 246.
49. Li M, Sha A, Zhou X, Yang P* (2012) Comparative proteomic analysis of soybean (Glycine max) pistils during pollination. Sexual Plant Reproduction 25, 281-291.
50. Wang K, Li M, Gao F, Li S, Zhu Y, Yang P* (2012) Identification of conserved and novel microRNAs from Liriodendron chinense floral tissues. Plos one 7, e44696.
51. He D, Han C, Yang P* (2011) Gene expression profile changes in germinating rice. Journal of Integrative Plant Biology 53, 835-844.
52. He D, Han C, Yao J, Shen S, Yang P* (2011) Constructing the metabolic and regulatory pathways in germinating rice seeds through proteomic approach. Proteomics 11, 2693-2713.
第一（或共同第一）作者论文：
1. Quan S*, Yang P*, Cassin-Ross G, Kaur N, Switzenberg R, Aung K, Li J, Hu J (2013) Proteome analysis of peroxisomes from etiolated Arabidopsis seedlings identifies a peroxisomal protease involved in β-oxidation and development. Plant Physiology 163, 1518-1538. (共同一作)
2. Chi F*, Yang P *, Han F, Jing Y, Shen S (2010) Proteomic Analysis of Rice Seedlings Infected by Sinorhizobium meliloti 1021. Proteomics 10, 1861-1874. (共同一作)
3. Wang X *, Yang P *, Liu Z, Liu W, Hu Y, Chen H, Kuang T, Pei Z, Shen S, He Y (2009) Exploring the mechanism of Physcomitrella patens desiccation tolerance through a proteomic strategy. Plant Physiology 149, 1739-1750. (共同一作,)
4. Wang X, Yang P, Gao Q, Liu X, Kuang T, Shen S, He Y (2008) Proteomic analysis of the high-salinity stress in Physcomitrella patens. Planta 228, 167-177 (Co-first author)
5. Yang PF, Li XJ, Wang X, Chen H, Shen S (2007) Proteomic Analysis of Rice Seeds during Germination. Proteomics 7, 3358-3368. (被引用156次)
6. Yang P, Chen H, Liang Y, Shen S (2007) Proteomic Analysis of de-etiolated Rice Seedlings upon exposure to light. Proteomics 7, 2459-2468.
7. Yang P, Liang Y, Shen S and Kuang T (2006) Proteome study of rice uppermost internodes at the milk stage. Proteomics 6, 3330-3338. （封面论文）
8. Yang P, Li X, Jing YX, Liang Y, Shen SH and Kuang TY (2006) Proteomic analysis of the response of Liangyoupeijiu (a super high-yield hybrid rice) seedlings to cold stress. Journal of Integrative Plant Biology 48, 945-951.
9. Yang P, Shen S and Kuang T (2006) A Comparative Analysis of the Endosperm Proteins Separated by Two-dimensional Electrophoresis for two Cultivars of hybrid Rice (Oryza sativa L.). Journal of Integrative Plant Biology 48, 1028-1033.
其它作者论文（部分）：
1. Shi H, Wang X, Ye T, Cheng F, Deng J, Yang P, Zhang Y, Chan Z (2014) The Cys2/His2-type zinc finger transcription factor ZAT6 modulates biotic and abiotic stress responses by activating salicylic acid-related genes and CBFs in Arabidopsis. Plant Physiology 165:1367-1379.
2. Wang X, Han F, Yang M, Yang P, Shen S (2013) Exploring the response of rice (Oryza sativa) leaf to gibberellins: a proteomic strategy. Rice (N Y) 6, 17.
3. Shi H, Ye T, Chen F, Cheng Z, Wang Y, Yang P, Zhang Y, Chan Z* (2013) Manipulation of arginase expression modulate abiotic stress tolerance in Arabidopsis: effect on arginine metabolism and ROS accumulation. Journal of Experimental Botany 64, 1367-1379.
4. Wang K, Gao F, Ji Y, Liu Y, Dan Z, Yang P, Zhu Y, Li S (2013) ORFH79 impairs mitochondrial function via interaction with a subunit of electron transport chain complex III in Honglian cytoplasmic male sterile rice. New Phytologist 198, 408-418.
5. Reumann S, Quan S, Aung K, Yang P, Manandhar-Shrestha K, et al. (2009) In-depth proteome analysis of Arabidopsis leaf peroxisomes combined with in vivo subcellular targeting verification uncovers low-abundance proteins with novel metabolic and regulatory functions. Plant Physiology 150, 125-143.
6. Wang X, Yang P, Zhang X, Xu Y, et al. (2009) Proteomic Analysis of Cold Acclimation in the Moss Physcomitrella patens. Proteomics 9, 4529-4538.
八、学术会议口头报告
1. 2010年5月，第三届全国植物蛋白质组学研讨会，湖北 武汉
2. 2010年11月，the 2nd International Symposium Frontier in Agriculture Proteome Research (ISFAPR)， 日本 筑波
3. 2012年11月，the 4th International Symposium Frontier in Agriculture Proteome Research (ISFAPR)， 中国 武汉
4. 2013年9月，第十二届国际人类蛋白质组组织年会，日本 横滨
5. 2014年6月，the 6th International Symposium Frontier in Agriculture Proteome Research (ISFAPR)， 中国 哈尔滨
6. 2014年8月，第15届全国植物基因组大会，中国 合肥
7. 2014年9月，1st INPPO Congress on plant proteomics, 德国 汉堡
8. 2016年12月, 第6届全国植物蛋白质科学大会， 海南 海口
9. 2017年8月，the 4th AOAPO annual meeting, 马来西亚 吉隆坡
10. 2019年9月，HUPO Congress，阿德莱德 澳大利亚
11. 2023年5月，AOHUPO年会，新加坡
九、社会兼职
1. 亚洲大洋洲农业蛋白质组组织（AOAPO），委员
2. 中国植物学会种子专业技术委员会，委员
3. 中国生物化学与分子生物学会蛋白质组专业委员会，委员
4. 中国园艺学会水生蔬菜专业委员会、湖北省遗传学会，常务理事
5. 湖北省晶体学会、湖北省生物信息学会，理事
6. BMC Genomics，编委
7. Frontiers in Plant Science, 编委
8. Scientific Reports，编委
9. Plos One, 编委
10. PHYTON-International Journal of Experimental botany，编委
11. 植物科学学报，编委
