以学校为第一作者单位发表的SCI论文（截止2024年12月）:
272. Hanyang Cai*, Kaichuang Liu, Suzhuo Ma, Han Su, Jiahong Yang, Ling Sun, Ziqi Liu and Yuan Qin*. (2024) Gibberellin and cytokinin signaling antagonistically control female-germline cell specification in Arabidopsis. Developmental Cell. https://doi.org/10.1016/j.devcel.2024.11.009.（SCI 大类一区，10.7）
271. Xue J., Du Q., Yang F., and Chen L.Y.* (2024) The emerging role of cysteine-rich peptides in pollen–pistil interactions. Journal of Experimental Botany. 75, 6228-6243 (JCR Q1、SCI 小类2区，5.6)
270. Zhimin Hou，Jianxiang Liang, Xinkai Cai，, Jingting Lin，Xiaomei Wang, Ruoyu Liu，Lin Lu，Gaifeng Chai , Chang An，Shengzhen Chen, Yuan Qin* and Ping Zheng*. PeHVA22 gene family in passion fruit (Passiflora edulis):initial characterization and expression profiling diversity. Frontiers in Plant Science,2024.01.19.（SCI 大类一区，4.1）
269. Chang An，Jingyi Liao，Lin Lu1， Xinkai Cai, Ruoyu Liu, Shengzhen Chen, Mengqian Shen, Xiaomei Wang，Yuan Qin* and Ping Zheng*.From gene expression to flower patterns: genome-wide characterization of the MADS-box gene family in passion fruit (Passiflora edulis). Tropical Plants 2024, 3: e004.
268. Myat Hnin Wai , Tiantian Luo , S. V. G. N. Priyadarshani , Qiao Zhou, Mohammad Aqa Mohammadi , Han Cheng, Mohammad Aslam , Chang Liu, Gaifeng Chai ,Dongping Huang , Yanhui Liu, Hanyang Cai , Xiaomei Wang, Yuan Qin* and Lulu Wang. Overexpression of AcWRKY31 Increases Sensitivity to Salt and Drought and Improves Tolerance to Mealybugs in Pineapple. Plants (Basel). 2024 Jul 5;13(13):1850. (SCI 大类一区，4.0)
267. Mohammad Aqa Mohammadi, Mengjie Xu, Yining Wang, Zihao Zhang, Myat Hnin Wai, Hafiz Muhammad Rizwan, Chang An, Mohammad Aslam, Chunyin Zhang, Gang Wang, Yuan Qin*, Yan Cheng*. A highly efficient organogenesis system based on 6-Benzylaminopurine and Indole-6-butyric acid in Suaeda glauca-medicinal halophyte under varying photoperiods. Industrial Crops and Products, 2024, 216(15): 118672. (SCI 小类一区， 5.6 )
266. Jiahao Wu, Quanyin Yang, Wanyue Zhao, Xue Miao, Yuan Qin*, Yan Qu*, and Ping Zheng*. Assessment of Population Genetic Diversity of Medicinal Meconopsis integrifolia (Maxim.) Franch. Using Newly Developed SSR Markers. Plants, 2024, 13(18), 2561.（SCI 小类一区，4.0）
265. Chang An, Kangzhuo Ye, Runfa Jiang, Jiayi Chen, Yixin Yao, Lin Lu, Yan Cheng, Ruoyu Liu, Xiaofen Liu, Heming Zhao, Yuan Qin* and Ping Zheng*. Cytological analysis of flower development, insights into suitable growth area and genomic background: implications for Glehnia littoralis conservation and sustainable utilization. BMC Plant Biology, 2024, 24(1), 895. （SCI 小类一区，4.3 ）
264. Chun-Mei Lai, Wei-Ji Chen, Di Xu*, Yuan Qin*, Yue-Kun Lai*, Shao-Hua He*, Innovative Hydrogel Design: Tailoring Immunomodulation for Optimal Chronic Wound Recovery. Advanced Science, 2024, DOI: 10.1002/advs.202412360.（SCI 小类一区，14.3）
263. Lin L., Wang H., Chen Y., Wang Y., Xu Y., Chen Z., Yang Y., Liu K., Ma, X.* (2024) STMGraph: Spatial-context-aware of transcriptomes via a dual-remasked dynamic graph attention model. Briefings in Bioinformatics. (Accepted) (SCI 一区，8)
262. Xingyan Fang#, Deming Yang#, Lichuan Deng#, Yaxin Zhang, Zhiyong Lin, Jingjing Zhou,Zhichang Chen, Xiangqing Ma, Meina Guo*, Zhaohua Lu* and Liuyin Ma*. (2024). Phosphorus Uptake, Transport, and Signaling in Woody and Model Plants. Forestry Research. 4, e017.）（ESCI新收录）
261. Tang, H.*, Krishnakumar, V., Zeng, X., Xu, Z., Taranto, A., Lomas, J.S., Zhang, Y., Huang, Y., Wang, Y., Yim, W.C., Zhang, J. and Zhang, X. (2024) JCVI: A versatile toolkit for comparative genomics analysis. iMeta, 3, e211. (SCI小类1区，23.7)
260. Tang, H.*, Kong, W., Nabukalu, P., Lomas, J.S., Moser, M., Zhang, J., Jiang, M., Zhang, X., Paterson, A.H. and Yim, W.C. (2024) GRABSEEDS: extraction of plant organ traits through image analysis. Plant Methods, 20, 140. (SCI小类2区，4.7)
259. Ain, N, H. Habiba, R. Ming. 2024. Allele-specific hormone dynamics in highly transgressive F2 biomass segregants in sugarcane (Saccharum spp.). Plants. 13(16):2247; https://doi.org/10.3390/plants13162247
258. Ahmad, K. R. Ming. 2024. Harnessing Genetic Tools for Sustainable Bioenergy: A Review of Sugarcane Biotechnology in Bioethanol Production. Agriculture. 14:1312
257. Fatima, M., X. Ma, J. Zhang, R. Ming. 2024. Genome-wide analysis of MADS-box genes and their expression patterns in unisexual flower development in dioecious spinach. Scientific Reports. 14:18635. DOI: 10.1038/s41598-024-68965-9
256. Ma, Y., W. Fu, S. Wan, Y. Li, H. Mao, E. Khalid, W. Zhang, Ray Ming, R. 2024. Gene regulatory network controlling flower development in spinach. Int. J. Mol. Sci., 25(11), 6127; https://doi.org/10.3390/ijms25116127
255. Jia, H., Lin, J., Lin, Z., Wang, Y., Xu, L., Ding, W. and Ming, R., 2024. Haplotype-resolved genome of Mimosa bimucronata revealed insights into leaf movement and nitrogen fixation. BMC genomics, 25(1), p.334.
254. Li J, Zhang Y, Tang X, ... Zheng P.* (郑平) &Cao SJ.*. Genome Identification and Expression Profiling of the PIN-Formed Gene Family in Phoebe bournei under Abiotic Stresses[J]. International Journal of Molecular Sciences, 2024, 25(3): 1452.
253. Lin, J., Wu, J., Zhang, D., ... & Zheng, P.(2024). The GRAS gene family and its roles in pineapple (Ananas comosus L.) developmental regulation and cold tolerance. BMC Plant Biology, DOI : 10.1186/s12870-024-05913-9.
252. Huiying Zhang# , Weihua Yin #, Guohao Liao , Jian Liu , Guanghui Dong ,
251. Jiangxin Wang , Wenshan Guo , Huu Hao Ngo* .The identification of a correlation between lipid content in the model diatom Phaeodactylum tricornutum and pH treatment strategies.Science of the Total Environment.
250. Yongmei Zhou，Ziqin Pang，Haifeng Jia，Zhaonian Yuan and Ray Ming*. Responses of roots and rhizosphere of female papaya to the exogenous application of GA3. BMC Plant Biology.23(1), pp,1-14. DOI: 10.1186/s12870-022-04025-6
249. Yaying Ma†, Hongying Yu†, Yijing Lu, Sanji Gao, Mahpara Fatima, Ray Ming* and Jingjing Yue*. Transcriptome analysis of sugarcane reveals rapid defense response of SES208 to Xanthomonas albilineans in early infection. BMC Plant Biol. 2023 Jan 24;23(1):52. doi: 10.1186/s12870-023-04073-6.
248. Tianyou Wang*, Baiyu Wang*, Xiuting Hua*, Haibao Tang*, Zeyu Zhang, Ruiting Gao, Yiying Qi, Qing Zhang, Gang Wang, Zehuai Yu, Yongji Huang, Zhe Zhang, Jing Mei, YuhaoWang, Yixing Zhang, Yihan Li, Xue Meng, Yongjun Wang, Haoran Pan, Shuqi Chen, Zhen Li, Huihong Shi, Xinlong Liu, Zuhu Deng, Baoshan Chen, Muqing Zhang, Lianfeng Gu, Jianping Wang, Ray Ming, Wei Yao†, Jisen Zhang†.A complete gap-free diploid genome in Saccharum complex and the genomic footprints of evolution in the highly polyploid Saccharum genus. (2023), Nature Plants. 10,1038/s41477-023-01378-0
247. Qing Jiang, Xiuting Hua, Huihong Shi, Jia Liu, Yuan Yuan, Zhen Li, Shuangyu Li, Meiqing Zhou, Chongyang Yin, Meijie Dou, Nameng Qi, Yongjun Wang, Muqing Zhang, Ray Ming, Haibao Tang, and Jisen Zhang*. Transcriptome dynamics provides insights into divergences of photosynthesis pathway between Saccharum officinarum and Saccharum spontaneum. (2023),The Plant Journal. DOI: 10.1111/TPJ.16110
246. Liang Ma, Ke-Wei Liu*, Zhen Li*, Yu-Yun Hsiao*, Yiying Qi*, Tao Fu*, Guang-Da Tang, Diyang Zhang, Wei-Hong Sun, Ding-Kun Liu, Yuanyuan Li, Gui-Zhen Chen, Xue-Die Liu, Xing-Yu Liao, Yu-Ting Jiang, Xia Yu, Yang Hao, Jie Huang, Xue-Wei Zhao, Shijie Ke, You-Yi Chen, Wan-Lin Wu, Jui-Ling Hsu, Yu-Fu Lin, Ming-Der Huang, Chia-Ying Li, Laiqiang Huang, Zhi-Wen Wang, Xiang Zhao, Wen-Ying Zhong, Dong-Hui Peng, Siren Lan†, Ji-Sen Zhang†, Wen-Chieh Tsai†, Yves Van de Peer†, Zhong-Jian Liu† .Diploid and tetraploid genomes of Acorus and the evolution of monocots. Nature communication.
245. Mohamed Ali Kahie, Yongjun Wang, Pingping Fang, Jianmin Qi, Rongjie Lei, Jiantang Xu, Lihui Lin, Liwu Zhang, Jisen Zhang* and Aifen Tao*. Evolution and expression analysis of the caffeoyl-CoA 3-0 methyltransferase (CCOAOMT) gene family in jute (Corchorus L),(2023). BMC genomics. (2023) 24:204, https://doi.org/10.1186/s12864-023-09281-w
244. Huakun Zheng, Baiyu Wang, Xiuting Hua, Ruiting Gao, Yuhao Wang, Zixin Zhang, Yixing Zhang, Jing Mei, Yongji Huang, Yumin Huang, Hui Lin, Xingtan Zhang, Dongmei Lin, Siren Lan, Zhongjian Liu, Guodong Lu, Zonghua Wang, Ray Ming*, Jisen Zhang*, Zhanxi Lin*,(2023). A near-complete genome assembly of the allotetrapolyploid Cenchrus fungigraminus (JUJUNCAO) provides insights into its evolution and C4 photosynthesis. Plant Communications.100633.ISSN 2590-3462.https://doi.org/10.1016/j.xplc,2023.100633.
243. Yunfei Zhang ,Tao Ye , Zeyuan She , Shupeng Huang , Lulu Wang , Mohammad Aslam , Rongjuan Qin , Xiangyu Wang , Yuan Qin,*, Xiaoping Niu* (2023). Small Auxin Up RNA (SAUR) gene family identification and functional genes exploration during the floral organ and fruit developmental stages in pineapple (Ananas comosus L) and its response to salinity and drought stresses. Int J Biol Macromol. 237: 124061.
242. Hanyang Cai , Youmei Huang , Liping Liu , Man Zhang , Mengnan Chai , Xinpeng Xi ,Mohammad Aslam ,Lulu Wang , Suzhuo Ma ,Han Su ,Kaichuang Liu ,Yaru Tian ,Wenhui Zhu ,Jingang Qi ,Thomas Dresselhaus and Yuan Qin*,(2023). Signaling by the EPFL-ERECTA family coordinates female germline specification through the BZR1 family in Arabidopsis. Plant Cell.
241. Kangzhuo Ye, Chunxing Dong, Bin Hu, Jieyu Yuan,Jin Sun, Zixian Li , Fang Deng, Beenish Fakher, Lulu Wang,Chenglang Pan, Mohammad Aslam,Yuan Qin*andYanCheng* ,(2023). The genome size, chromosome number, and the seed adaption to long-distance dispersal of Ipomoea pesaprae (L). Frontiers in Plant Science. 2023, 14. doi: 10.3389/fpls,2023,1074935
240. Yu Wang, Jing Xu, Bin Hu, Chunxing Dong, Jin Sun, Zixian Li , Kangzhuo Ye, Fang Deng, Lulu Wang, Mohammad Aslam, Wenliang Lv *,Yuan Qin* and YanCheng* (2023). Assembly, annotation, and comparative analysis of Ipomoea chloroplast genomes provide insights into the parasitic characteristics of Cuscuta species. Frontiers in Plant Science. 2022, 13, 10,3389.fpls,2022.1074697
239. Youmei Huang †, Xinpeng Xi †, Mengnan Chai, Suzhuo Ma, Han Su, Kaichuang Liu , Fengjiao Wang ,Wenhui Zhu , Yanhui Liu , Yuan Qin and Hanyang Cai *, (2023). Chromatin Remodeling Complex SWR1 Regulates Root Development by Affecting the Accumulation of Reactive Oxygen Species (ROS).Plants (Basel) .12 (4).
238. Liu Yanhui, Priyadarshani S V G N, Chi Meirong, Yan Maokai, Mohammadi Mohammad Aqa, Zhang Man, Zhou Qiao, Wang Lulu, Luo Tiantian, Wai Myat Hnin, Wang, Xiaomei,Cai, Hanyang,Wang, Haifeng* and Qin, Yuan*, (2023). Epigenetic Modification Mechanisms of Chloroplasts Mutants in Pineapple Leaves During Somatic Regeneration. Horticultural Plant Journal. 9(3), pp. 509-22.（SCI 小类一区，5.7）
237. Jianxiang Liang, Yunying Fang, Chang An ,Yuanbin Yao , Xiaomei Wang ,Wenbin Zhang , Ruoyu Liu, Lulu Wang , Mohammad Aslam , Yan Cheng, Yuan Qin *,Ping Zheng*, (2023). Genome-Wide Identification and Expression Analysis of the Bhlh Gene Family in Passion Fruit (Passiflora Edulis) and its Response to Abiotic Stress. Int J Biol Macromol. 225, pp, 389-403.（SCI 小类二区，8.2）
236. Youmei Huang #, Liping Liu #, Mengnan Chai #, Han Su, Suzhuo Ma, Kaichuang Liu, Yaru Tian, Zhuangyuan Cao, Xinpeng Xi, Wenhui Zhu, Jingang Qi, Ravishankar Palanivelu, Yuan Qin *, and Hanyang Cai *, (2023). Epigenetic regulation of female germline development through ERECTA signaling pathway. New phytologist.240(3):1015-1033. （SCI 大类一区，9.4）
235. Hanyang Cai #, Liping Liu #, Suzhuo Ma, Mohammad Aslam and Yuan Qin *, (2023). Insights into the role of phytohormones in plant female germline cell specification. Current Opinion in Plant Biology. 75, 102439. （SCI 大类一区，9.5）
234. Wenhui Zhu, Jingang Qi, Jingdong Chen, Suzhuo Ma, Kaichuang Liu, Han Su, Mengnan Chai, Youmei Huang, Xinpeng Xi, Zhuangyuan Cao, Yuan Qin, Hanyang Cai *, (2023) .Identification of GA2ox Family Genes and Expression Analysis under Gibberellin Treatment in Pineapple (Ananas comosus (L,) Merr). Plants (Basel). 2023;12(14):2673. （SCI 大类二区，4.5）
233. Cheng Yan, Sun Jin, Jiang Mengwei,Luo Ziqiang, Wang Yu, Liu Yanhui, Li Weiming, Hu Bing, Dong Chunxing, Ye Kangzhuo, Li Zixian,Deng Fang,Wang Lulu,Cao Ling,Cao Shijiang,Pan Chenglang,Zheng Ping,Wang Sheng,Aslam Mohammad,Wang Hong,Qin, Yuan *,(2023). Chromosome-scale genome sequence of Suaeda glauca sheds light on salt stress tolerance in halophytes. Horticulture Research.（SCI 小类一区，8.7）
232. Mohammad Aqa Mohammadi, Myat Hnin Wa, Hafz Muhammad Rizwan, Abdul Qahar Qarluq, Mengjie Xu, Lulu Wang, Yan Cheng, Mohammad Aslam, Ping Zheng,, Xiaomei Wang, Wenbin Zhang, Yuan Qin*, (2023). Advances in micropropagation, somatic embryogenesis, somatic hybridizations, genetic transformation and cryopreservation for Passiflora improvement. Plant Methods. 19(1):50. doi: 10.1186/s13007-023-01030-0.（SCI 小类二区，5.1）
231. Yuan Yao, Wenhui Fu,Yue Yu, Suyan Wan, Wenping Zhang*, Ray Ming*,2023. The synthesis of papaya fruit flavor-related linalool was regulated by CpTPS18 and CpNAC56. Plant reproduction. 15:1-14.
230. Xiaokai Ma*, Song Ju, Han Lin, Huaxing Huang, Jie Huang , Donghui Peng , Ray Ming, Siren Lan and Zhong-Jian Liu*, 2023. Sex-Related Gene Network Revealed by Transcriptome Differentiation of Bisexual and Unisexual Flowers of Orchid Cymbidium tortisepalum. International Journal of Molecular Sciences. 24(23), p.16627.
229. Taotao Wang#, Wenbin Ye#, Jiaxiang Zhang#, Han Li, Weike Zeng, Sheng Zhu, Guoli Ji, Xiaohui Wu*, Liuyin Ma*. (2023) Alternative 3′-untranslated regions regulate high salt tolerance of Spartina alterniflora.Plant Physiology.191(4):2570-2587.
228. Yong Yang, Yanan Guo, Ziyuan Yin, Han Li, Weike Zeng, Jiaxiang Zhang, Liuyin Ma* (2023) .Cryptochrome 1 ubiquitously regulates hypocotyl elongation from Arabidopsis to sacred lotus (Nelumbo nucifera). Journal of Plant Growth Regulation. 42(6451):1-11.
227. Jingjing Yue# , Marc Krasovec, Yusuke Kazama, Xingtan Zhang, Wangyang Xie, Shencheng Zhang, Xiuming Xu, Baolin Kan, Ray Ming*, Dmitry A Filatov*,(2023). The origin and evolution of sex chromosomes, revealed by sequencing of the Silene latifolia female genome. Current Biology. 33(12):2504-2514.（SCI 小类一区，9.2）.
226. Youjin Deng, Lin Guo, Longji Lin, Yuefeng Li, Jinxiang Zhang, Yue Zhang, Bin Yuan, Lina Ke, Baogui Xie* and Ray Ming*, 2023. Meiosis in an asymmetric dikaryotic genome of Tremella fuciformis Tr01 facilitates new chromosome formation. Genome Biology. DOI: 10.1186/s13059-023-03093-7.
225. Qiuxia Zeng, Haifeng Jia, Yaying Ma, Liangwei Xu, Ray Ming* and Jingjing Yue*(2023).Genome-Wide Identification and Expression Pattern Profiling of the Aquaporin Gene Family in Papaya (Carica papaya L,). International Journal of Molecular Sciences.（SCI 小类三区，5.6）.
224. Ping Zheng , Mengqian Shen, Ruoyu Liu , Xinkai Cai, Jinting Lin, Lulu Wang, Yu Chen ,Guangwei Chen, Shijiang Cao,* and Yuan Qin ,*.Revealing Further Insights into Astringent Seeds of Chinese Fir by Integrated Metabolomic and Lipidomic Analyses. International Journal of Molecular Sciences.2023, 24 (20), 15103.
223. Jianxiang Liang, Lin Lu, Wenbin Zhang, Ming Chi, Mengqian Shen, Chang An, Shengzhen Chen, Xiaomei Wang, Ruoyu Liu, Yuan Qin*, and Ping Zheng*.Comprehensive characterization and expression analysis of enzymatic antioxidant gene families in passion fruit (Passiflora edulis). Iscience. 2023, 26 (11).
222. Cheng Y#, Wang Y, Sun J, Liao Z, Ye K, Hu B, Dong C, Li Z, Deng F, Wang L, Cao S, Pan C, Zheng P, Cai L, Cao L, Wang S, Aslam M, Wang H, Qin Y*, (2023). Unveiling the genomic blueprint of salt stress: insights from Ipomoea pes-caprae L. Seed Biology. doi: 10.48130/SeedBio-2023-0021
221. Kun Chai, Shuai Chen, Pengjie Wang, Weilong Kong, Xiaokai Ma, and Xingtan Zhang*.Multiomics Analysis Reveals the Genetic Basis of Volatile Terpenoid Formation in Oolong Tea. Agricultural and Food Chemistry.
220. Kai Ouyang, Qifu Liang, Li Miao, Zhiliang Zhang and Zhanjie Li*.Genome-wide mapping of DNase I hypersensitive sites in pineapple leaves.Frontiers in genetics.2023; 14: 1086554. doi: 10.3389/fgene.2023.1086554
219. Zhenyang Liao, Fei Dong, Juan Liu, Lele Xu, Amy Marshall Colon and Ray Ming*. (2022). Gene regulation network analyses of pistil development in papaya. BMC Genomics, 23(1). doi: ARTN 8.10.1186/s12864-021-08197-7.
218. Baiyu Wang, Wenshun Hu, Yaxue Fang, Xiaoxi Feng, Jingping Fang, Tengyue Zou, Shaoquan Zheng, Ray Ming, Jisen Zhang*. Comparative analysis of the MADS-box genes revealed their potential functions for flower and fruit development in longan (Dimocarpus longan). 2022. Frontiers in Plant Science. doi: 10.3389/fpls.2021.813798.
217. Hanyang Cai, Liping Liu, Youmei Huang, Wenhui Zhu, Jingang Qi, Xinpeng Xi, Mohammad Aslam, Thomas Dresselhaus, Yuan Qin. Brassinosteroid signaling regulates female germline specification in Arabidopsis.Current Biology, 2022, 32(5): 1102-1114 e5.
216. Mingliang Guo , Wenchao Zhang , Mohammad Aqa Mohammadi , Zhimei He , Zeyuan She , Maokai Yan , Chao Shi , Lingwei Lin , Aqiong Wang , Jindian Liu , Dagang Tian , Heming Zhao* , Yuan Qin*. OsDDM1b Controls Grain Size by Influencing Cell Cycling and Regulating Homeostasis and Signaling of Brassinosteroid in Rice. Frontiers in Plant Science, 2022, 13: 873993.
215. Mingliang Guo, Heming Zhao, Zhimei He, Wenchao Zhang, Zeyuan She, Mohammad Aqa Mohammadi, Chao Shi, Maokai Yan, Dagang Tian, Yuan Qin*. Comparative Expression Profiling of Snf2 Family Genes During Reproductive Development and Stress Responses in Rice.[J]. Frontiers in Plant Science, 2022, 13:
214. Youmei Huang, Fangqian Chen, Mengnan Chai, Xinpeng Xi, Wenhui Zhu, Jingang Qi, Kaichuang Liu, Suzhuo Ma, Han Su, Yaru Tian, Huiying Zhang, Yuan Qin, Hanyang Cai. Ectopic Overexpression of Pineapple Transcription Factor AcWRKY31 Reduces Drought and Salt Tolerance in Rice and Arabidopsis.[J]. International Journal of Molecular Sciences, 2022, 23(11).
213. Jianxiang Liang , Zhimin Hou , Jingyi Liao , Yuan Qin , Lulu Wang , Xiaomei Wang , Weiqiang Su , Zhaoyan Cai , Yunying Fang , Mohammad Aslam , Yan Cheng , Ping Zheng. Genome-Wide Identification and Expression Analysis of LBD Transcription Factor Genes in Passion Fruit (Passiflora edulis).[J]. International Journal of Molecular Sciences, 2022, 23(9): .
212. Li Ye, Ling Cao, Xuemei Zhao, Xinya Guo, Kangzhuo Ye, Sibo Jiao, Yu Wang, Xiaoxue He, Chunxing Dong, Bin Hu, Fang Deng, Heming Zhao, Ping Zheng, Mohammad Aslam, Yuan Qin, Yan Cheng. Investigation of the JASMONATE ZIM-DOMAIN Gene Family Reveals the Canonical JA-Signaling Pathway in Pineapple.[J]. Biology (Basel), 2022, 11(3): .
211. Qing Zhang#, Yiying Qi#, Haoran Pan#, Haibao Tang#, Gang Wang, Xiuting Hua, Yongjun Wang, Lianyu Lin, Zhen Li, Yihan Li, Fan Yu, Zehuai Yu, Yongji Huang, Tianyou Wang, Panpan Ma, Meijie Dou, Zongyi Sun, Yibin Wang, Hengbo Wang, Xingtan Zhang, Wei Yao, Yuntong Wang, Xinlong Liu, Maojun Wang, Jianping Wang, Zuhu Deng, Jingsheng Xu, Qinghui Yang, ZhongJian Liu, Baoshan Chen, Muqing Zhang, Ray Ming, Jisen Zhang*. Genomic insights into the recent chromosome reduction of complex autopolyploid sugarcane S. spontaneum.2022. Nature Genetics. DOI: 10.1038/s41588-022-01084-1 .
210. Jishan Lin#, Wenping Zhang#, Xingtan Zhang, Xiaokai Ma, Shengcheng Zhang, Shuai Chen, Yibin Wang, Haifeng Jia, Zhenyang Liao, Jing Lin, Mengting Zhu, Xiuming Xu, Mingxing Cai, Hui Zeng, Jifeng Wan, Weihai Yang, Tracie Matsumoto, Craig Hardner, Catherine J. Nock* & Ray Ming*. (2022). Signatures of selection in recently domesticated macadamia. Nature Communications, 13(1). doi: ARTN 242.10.1038/s41467-021-27937-7
209. Xiaokai Ma#, Li’ang Yu#, Mahpara Fatima#, William H. Wadlington#, Amanda M. Hulse Kemp#, Xingtan Zhang, Shengcheng Zhang, Xindan Xu , Jingjing Wang , Huaxing Huang, Jing Lin, Ban Deng, Zhenyang Liao, Zhenhui Yang, Yanhong Ma, Haibao Tang , Allen Van Deynze and Ray Ming*. (2022). The spinach YY genome reveals sex chromosome evolution, domestication, and introgression history of the species. Genome Biology, 23(1).
208. Jingjing Yue#, Robert VanBuren#, Juan Liu#, Jingping Fang#, Xingtan Zhang, Zhenyang Liao, Ching Man Wai, Xiuming Xu, Shuai Chen, Shengchen Zhang, Xiaokai Ma, Yaying Ma, Hongying Yu, Jing Lin, Ping Zhou, Yongji Huang , Ban Deng, Fang Deng, Xiaobing Zhao, Hansong Yan, Mahpara Fatima, Dessireé Zerpa-Catanho, Xiaodan Zhang, Zhicong Lin, Mei Yang, Nancy J. Chen, Eric Mora-Newcomer, Patricia Quesada-Rojas, Antonio Bogantes, Víctor M. Jiménez 12, Haibao Tang , Jisen Zhang, Ming-Li Wang, Robert E. Paull , Qingyi Yu and Ray Ming . (2022). SunUp and Sunset genomes revealed impact of particle bombardment mediated transformation and domestication history in papaya. Nature Genetics, 54(5), 715-+. doi: 10.1038/s41588-022-01068-1.
207. Wenping Zhang#, Qun Zhou#, Jishan Lin, Xinyi Ma, Fei Dong, Hansong Yan , Weimin Zhong, Yijing Lu1, Yuan Yao, Xueting Shen, Lixian Huang , Wanqi Zhang* and Ray Ming*. (2022). Transcriptome analyses shed light on floral organ morphogenesis and bract color formation in Bougainvillea. BMC Plant Biology, 22(1).
206. Ping Zheng, Heng Sun, Juan Liu, Jishan Lin , Xingtan Zhang , Yuan Qin, Wenping Zhang , Xiuming Xu , Xianbao Deng, Dong Yang, Meng Wang, Yanting Zhang, Heyun Song, Yongji Huang , Warner Orozco‐Obando, Ray Ming , Mei Yang.. Comparative analyses of American and Asian lotus genomes reveal insights into petal color, carpel thermogenesis and domestication.[J]. The Plant Journal, 2022.
205. Aslam, Mohammad; Fakher, Beenish; Ashraf, Mohammad Arif; Cheng, Yan; Wang, Bingrui and Qin, Yuan. Plant Low-Temperature Stress: Signaling and Response. Agronomy, 2022, 12(3), pp. 702.
204. Aslam, Mohammad; Greaves, Joseph G.; Jakada, Bello Hassan; Fakher, Beenish; Wang, Xiaomei and Qin, Yuan. Accipk5, a Pineapple Cbl-Interacting Protein Kinase, Confers Salt, Osmotic and Cold Stress Tolerance in Transgenic Arabidopsis. Plant Science, 2022, 320, pp. 111284.
203. Yongjun Wang, Yihan Li, Xiuting Hua, Zhe Zhang, Tianqu Fan, Wei Yao, Muqing Zhang*, Jisen Zhang*. Transcriptome dynamics underlying magnesium deficiency stress in three founding Saccharum species. Int. J. Mol. Sci. 2022, https://doi.org/10.3390/ijms23179681
202. Yihan Li, Yongjun Wang, Xiaoxi Feng, Xiuting Hua, Meijie Dou, Wei Yao, Muqing Zhang, Jisen Zhang. Expression profiling and microRNA regulatory networks of Homeobox family genes in sugarcane Saccharum spontaneum L. Int. J. Mol. Sci. 2022, 23(15), 8724; https://doi.org/10.3390/ijms23158724
201. LIU Lei, WANG Heng-bo, LI Yi-han, CHEN Shu-qi, WU Ming-xing, DOU Mei-jie, QI Yi-yin, FANG Jing-ping*, ZHANG Ji-sen*. Genome-wide development of interspecific microsatellite markers for Saccharum officinarum and Saccharum spontaneum. Journal of Integrative Agriculture. https://doi.org/10.1016/j.jia.2022.08.129
200. Yongmei Zhou, Ziqin Pang, Zhaonian Yuan, Nyumah Fallah, Haifeng Jia and Ray Ming*. (2022) Sex-based metabolic and microbiota differences in roots and rhizosphere soils of dioecious papaya (Carica papaya L.).Fronteirs in Plant Science, 13:991114. doi: 10.3389/fpls.2022.991114
199. Yongmei Zhou, Wenqin Fang, Ziqin Pang, Li-Yu Chen, Hanyang Cai, Noor-Ul-Ain, Men-Chi Chang and Ray Ming* . (2022) AP1G2 Affects Mitotic Cycles of Female and Male Gametophytes in Arabidopsis. Fronteirs in Plant Science. 13:924417. doi: 10.3389/fpls.2022.924417
198. Noor-ul- Ain, Fasih Ullah Haider, Mahpara Fatima, Habiba, Yongmei Zhou and Ray Ming* (2022). Genetic Determinants of Biomass in C4 Crops: Molecular and Agronomic Approaches to Increase Biomass for Biofuels. Frontiers in Plant Science, 13(6), 1–20. https://doi.org/10.3389/fpls.2022.839588.
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32. Qing Zhang, Muchen Cai, Xiaomin Yu, Lishan Wang,Chunfang Guo, Ray Ming, Jisen Zhang*. (2017). Transcriptome dynamics of Camellia sinensis in response to continuous salinity and drought stress. Tree Genetics & Genomes. 13 (4): 78.
31. Zhenxia Su#, Lihua Zhao#,Yuanyuan Zhao, Shaofang Li, SoYoun Won, Hanyang Cai, Lulu Wang, Zhenfang Li, Piaojuan Chen, Yuan Qin*, Xuemei Chen*. (2017). The THO Complex Non-Cell-Autonomously Represses Female Germline Specification through the TAS3-ARF3 Module. Current Biology. 27(11): 1597-1609.
30. Yihong Chen, Qing Zhang, Weichang Hu, Xingtan Zhang, Liming Wang, Xiuting Hua, Qingyi Yu, Ray Ming, Jisen Zhang*. (2017). Evolution and expression of the fructokinase gene family in Saccharum. BMC Genomics. 18(1): 197.
29.Wenpan Zhang, Sheng Zou, , Zhanjie Li, Zhuang Meng, Jinlei Han, Junqi Song,Yong-Bao Pan, Kai Wang. (2017). Isolation and characterization of centromeric repetitive DNA sequences in Saccharum spontaneum.Scientific Reports.DOI: 10.1038/srep41659.
28. Hanyang Cai#, Lihua Zhao#, Lulu Wang, Man Zhang, Zhenxia Su, Yan Cheng, Heming Zhao, Yuan Qin*. (2017). ERECTA signaling controls Arabidopsis inflorescence architecture through chromatin-mediated activation of PRE1 expression. New Phytologist. 214(4): 1579-1596.
27. Jingping Fang, Andrew Wood, Rukai Chen, Ray Ming*. (2016). Molecular basis of off-type microsatellite markers in papaya. Euphytica. 209(2): 323-339.
26. Jingping Fang, Chenyong Miao, Rukai Chen, Ray Ming*. (2016). Genome-wide comparative analysis of microsatellites in pineapple.Tropical Plant Biology. 9: 117-135.
25. Xiaodan Zhang#, Pingping Liang#, Ray Ming*. (2016). Genome-Wide Identification and Characterization of Nucleotide-Binding Site (NBS) Resistance Genes in Pineapple. Tropical Plant Biology. 9: 187-199.
24. Hai Lin, Zhenyang Liao, Lingmao Zhang, Qingyi Yu*. (2016). Transcriptome analysis of the male-to-hermaphrodite sex reversal induced by low temperature in papaya. Tree Genetics & Genomes. 12(5): 94.
23. Robert VanBuren#, Ching Man Wai#, Jisen Zhang, Jennifer Han, Jie Arro, Zhicong Lin, Zhenyang Liao, Qingyi Yu, Ming-Li Wang, Francis Zee, Richard C. Moore, Deborah Charlesworth, Ray Ming*. (2016). Extremely low nucleotide diversity in the X-linked region of papaya caused by a strong selective sweep. Genome Biology. 17(1): 230.
22. Ray Ming*, Ching Man Wai, Romain Guyot. (2016). Pineapple Genome: A Reference for Monocots and CAM Photosynthesis. Trends in Genetics. 32(11):690-696.
21. Jinlei Han#, Rick E Masonbrink#, Wenbo Shan#, Fengqin Song, Jisen Zhang, Weichang Yu, Kunbo Wang, Yufeng Wu, Haibao Tang, Jonathan F Wendel, Kai Wang*. (2016). Rapid proliferation and nucleolar organizer targeting centromeric retrotransposons in cotton. The Plant Journal. 88(6): 992-1005.
20. Jingping Fang, Aiting Lin, Weijing Qiu, Hanyang Cai, Muhammad Umar, Rukai Chen, Ray Ming*. (2016). Transcriptome Profiling Revealed Stress-Induced and Disease Resistance Genes Up-Regulated in PRSV Resistant Transgenic Papaya. Frontiers in Plant Science.7: 855.
19. Jisen Zhang, Anupma Sharma, Qingyi Yu, Jianping Wang, Leiting Li, Lin Zhu , Xingtan Zhang,Youqiang Chen, Ray Ming*. (2016). Comparative structural analysis of Bru1 region homeologs in Saccharum spontaneum and S. officinarum. BMC Genomics.17: 446.
18. Qing Zhang, Weichang Hu, Fan Zhu, Liming Wang, Qingyi Yu, Ray Ming, Jisen Zhang*. (2016). Structure, phylogeny, allelic haplotypes and expression of sucrose transporter gene families in Saccharum .BMC Genomics.17: 88.
17. Liangsheng Zhang*#, Fei Chen#, Guo-Qiang Zhang, Yong-Qiang Zhang, Shance Ni, Jin-Song Xiong, Zhenguo Lin, Zong-Ming (Max) Cheng*, Zhong-Jian Liu*. (2016). Origin and mechanism of crassulacean acid metabolism in orchids as implied by comparative transcriptomics and genomics of the carbon fixation pathway. The Plant Journal. DOI: 10.1111/tpj.13159.
16. Haibao Tang, Matthew D. Bomhoff, Evan Briones, Liangsheng Zhang, James C. Schnable, Eric Lyons*. (2015). SynFind: compiling syntenic regions across any set of genomes on demand. Genome Biology and Evolution. DOI: 10.1093/gbe/evv219.
15. Jinlei Han#, Baoliang Zhou#, Wenbo Shan, Liying Yu, Weiren Wu, Kai Wang*. (2015). A and D genomes spatial separation at somatic metaphase in tetraploid cotton: evidence for genomic disposition in a polyploid plant. The Plant Journal. 84(6): 1167-1177.
14. Ray Ming#*, Robert VanBuren#, Ching Man Wai#, Haibao Tang#, Michael C Schatz, John E Bowers, Eric Lyons, Ming-Li Wang, Jung Chen, Eric Biggers, Jisen Zhang, Lixian Huang, Lingmao Zhang, Wenjing Miao, Jian Zhang, Zhangyao Ye, Chenyong Miao, Zhicong Lin, Hao Wang, Hongye Zhou, Won C Yim, Henry D Priest, Chunfang Zheng, Margaret Woodhouse, Patrick P Edger, Romain Guyot, Hao-Bo Guo, Hong Guo, Guangyong Zheng, Ratnesh Singh, Anupma Sharma, Xiangjia Min, Yun Zheng, Hayan Lee, James Gurtowski, Fritz J Sedlazeck, Alex Harkess, Michael R McKain, Zhenyang Liao, Jingping Fang, Juan Liu, Xiaodan Zhang, Qing Zhang, Weichang Hu, Yuan Qin, Kai Wang, Li-Yu Chen, Neil Shirley, Yann-Rong Lin, Li-Yu Liu, Alvaro G Hernandez, Chris L Wright, Vincent Bulone, Gerald A Tuskan, Katy Heath, Francis Zee, Paul H Moore, Ramanjulu Sunkar, James H Leebens-Mack, Todd Mockler, Jeffrey L Bennetzen, Michael Freeling, David Sankoff, Andrew H Paterson, Xinguang Zhu, Xiaohan Yang, J Andrew C Smith, John C Cushman, Robert E Paull*, Qingyi Yu*. (2015). The pineapple genome and the evolution of CAM. Nature Genetics. 47: 1435-1442.
13. Yuan Qin, Juan Dong*. (2015). Focusing on the focus: what else beyond the master switches for polar cell growth? Molecular Plant. 8(4): 582-594.
12.Yuan Qin, Ramin Yadegari, Ravishankar Palanivelu*. (2015). ACTIN-RELATED PROTEIN 6 regulates DISRUPTED MEIOTIC cDNA 1 gene expression in ovules. Molecular Reproduction and Development. 82(7-8): 499.
11. Haibao Tang*, Eric Lyons, Christopher D Town. (2015). Optical mapping in plant comparative genomics. Gigascience. DOI: 10.1186/s13742-015-0044-y.
10. Haibao Tang*, Xingtan Zhang, Chenyong Miao, Jisen Zhang, Ray Ming, James C Schnable, Patrick S Schnable, Eric Lyons, Jianguo Lu. (2015). ALLMAPS: robust scaffold ordering based on multiple maps. Genome Biology. 16(9): 3.
9. Ray Ming*, Ching Man Wai. (2015). Assembling allopolyploid genomes: no longer formidable. Genome Biology. 16(8): 27.
8. Robert VanBuren#, Fanchang Zeng#, Cuixia Chen#, Jisen Zhang#, Ching Man Wai, Jennifer Han, Rishi Aryal, Andrea R. Gschwend, Jianping Wang, Jong-Kuk Na, Lixian Huang, Lingmao Zhang, Wenjing Miao, Jiqing Gou, Jie Arro, Romain Guyot, Richard C. Moore, Ming-Li Wang, Francis Zee, Deborah Charlesworth, Paul H. Moore, Qingyi Yu, Ray Ming*. (2015). Origin and domestication of papaya Yh chromosome. Genome Research. 25(7): 524-533.
7. Deshu Lin*, Huibo Ren, Ying Fu. (2015). ROP GTPase-mediated auxin signaling regulates pavement cell interdigitation in Arabidopsis thaliana. Journal of Integrative Plant Biology. 57(6): 31-39.
6. Huibo Ren, Deshu Lin*. (2015). ROP GTPase Regulation of Auxin Transport in Arabidopsis. Molecular Plant. 8(5): 193-195.
5. Lihua Zhao, Jiangman He, Hanyang Cai, Haiyan Lin, Renyi Liu, Zhenbiao Yang, Yuan Qin*. (2014). Comparative expression profiling reveals novel gene functions in female meiosis and gametophyte development in Arabidopsis. The Plant Journal. 80(4): 615-628.
4. Jisen Zhang, Juan Liu, Ray Ming*. (2014). Genomic analyses of the CAM plant pineapple. Journal of Experimental Botany. 65(13): 3395-3404.
3. Jisen Zhang, Adnane Boualem, Abdelhafid Bendahmane*, Ray Ming*. (2014). Genomics of sex determination. Current Opinion in Plant Biology. 18: 110-116.
2. Haibao Tang*, Eric Lyons, James C. Schnable. (2014). Early History of the Angiosperms. Advances in Botanical Research. 69: 195-222.
1. Jianping Wang*, Spurthi Nayak, Karen Koch, Ray Ming. (2013). Carbon partitioning in sugarcane (Saccharum species). Frontiers in Plant Science. 4: 201.
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