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以学校为第一作者单位发表的SCI论文(截止202011月):

144. Qing Zhang#, Xiuting Hua#, Hong Liu#, Yuan Yuan, Yan Shi, Zhengchao Wang, Muqing Zhang, Ray Ming, Jisen Zhang*.(2020). Evolutionary Expansion and Functional Divergence of Sugar Transporters in Saccharum (S. spontaneum and S. officinarum). The Plant Journal. doi.org/10.1111/tpj.15076.

143. Xuequn Chen#, Chaobo Tong#, Xingtan Zhang, Wei Dong, Ming Hu, Aixia Song, Fei Chen, Youping Wang, Jinxing Tu, Shengyi Liu*, Haibao Tang*, Liangsheng Zhang*. (2020). C A high-quality Brassica napus genome reveals expansion of transposable elements, subgenome evolution and disease resistance. Plant Biotechnology Journal. https://doi.org/10.1111/pbi.13493.

142. Xingtan Zhang#, Gang Wang#, Shengcheng Zhang, Shuai Chen, Yibin Wang, Ping Wen, Xiaokai Ma, Yan Shi, Rui Qi, Yang Yang, Zhenyang Liao, Jing Lin, Jishan Lin, Xiuming Xu, Xuequn Chen, Xindan Xu, Fang Deng, Lihua Zhao, Yi-lun Lee, Rong Wang, Xiao-Yong Chen, Yann-Rong Lin, Jisen Zhang, Haibao Tang, Jin Chen*, Ray Ming*. (2020). Genomes of banyan fig and pollinator wasp provide insights into fig-wasp coevolution. Cell.183(4), 875-889.

141. Man Zhang#, Yanhui Liu#, Qing He, Mengnan Chai, Youmei Huang, Fangqian Chen, Xiaomei Wang,Yeqiang Liu, Hanyang Cai*,Yuan Qin*. (2020). Genome-wide investigation of calcium-dependent protein kinase gene family inpineapple: evolution and expressionprofiles during development and stress.BMC Genomics. 21:72.

140.Man Zhang, Yanhui Liu, Hanyang Cai, Mingliang Guo, Mengnan Chai, Zeyuan She,Li Ye, Yan Cheng, Bingrui Wang*,Yuan Qin*. (2020). The bZIP Transcription Factor GmbZIP15 NegativelyRegulates Salt- and Drought-Stress Responsesin Soybean. International Journal ofMolecular Sciences,21, 7778.

139. Youmei Huang#, Yanhui Liu#, Man Zhang, Mengnan Chai, Qing He,Bello Hassan Jakada, Fangqian Chen, Huihuang Chen, Xingyue Jin,Hanyang Cai, Yuan Qin*. (2020). Genome-wide identification andexpression analysis of the ERFtranscription factor family in pineapple(Ananas comosus (L.) Merr.). PeerJ, 8:e10014.

138. Huihuang Chen, Linyi Lai, Lanxin Li, Liping Liu, Bello Hassan Jakada, Youmei Huang,Qing He, Mengnan Chai, Xiaoping Niu*, Yuan Qin*. (2020). AcoMYB4, an Ananas comosus L. MYB TranscriptionFactor, Functions in Osmotic Stress through NegativeRegulation of ABA Signaling. International Journal ofMolecular Sciences. 21, 5727.

137. Naiyan Xiao, Hengbo Wang, Wei Yao, Muqing Zhang, Ray Ming, Jisen Zhang*. (2020). Development and Evaluation of SSR Markers Based on LargeScale Full-Length Transcriptome Sequencing in Sugarcane.Tropical Plant Biology.https://doi.org/10.1007/s12042-020-09260-5.

136.Heming Zhao, Mingliang Guo, Maokai Yan, Han Cheng, Yanhui Liu, Zeyuan She, Linyi Lai, Chao Shi, Minqian Zhang, Yi Li, Deshu Lin, Yuan Qin*. (2020).Comparative Expression Profiling Reveals GenesInvolved in Megasporogenesis.Plant Physiology. 182, 2006-2024.

135. Yanhui Liu, Mengnan Chai, Man Zhang, Qing He, Zhenxia Su, S. V. G. N. Priyadarshani,Liping Liu, Guanxi Dong, and Yuan Qin*. (2020).Genome-Wide Analysis, Characterization, and ExpressionProfile of the Basic Leucine Zipper Transcription FactorFamily in Pineapple.International Journal of Genomics.https://doi.org/10.1155/2020/3165958.

134.Qing He, Hanyang Cai, Mengyan Bai, Man Zhang, Fangqian Chen, Youmei Huang,S. V. G. N. Priyadarshani, Mengnan Chai, Liping Liu, Yanhui Liu , Huihuang Chen,Yuan Qin*. (2020). A Soybean bZIP Transcription Factor GmbZIP19Confers Multiple Biotic and Abiotic Stress Responsesin Plant. International Journal ofMolecular Sciences. 21, 4701.

133. Mengnan Chai#, Han Cheng#, Maokai Yan, SVGN Priyadarshani,Man Zhang, Qing He, Youmei Huang, Fangqian Chen, Liping Liu,Xiaoyi Huang, Linyi Lai, Huihuang Chen , Hanyang Cai,Yuan Qin*. (2020). Identification and expression analysis ofthe DREB transcription factor family inpineapple (Ananas comosus (L.) Merr.). PeerJ. 8:e9006.

132. Shijiang Cao, Sijia He, Hongwei Lv, Jiashuo Zhang, Mohammad Aslam, Han Cheng, Anqi Hu, Guangqiu Cao, Xingtan Zhang, Yuan Yu, Yuan Qin*. (2020). Genome-Wide Analysis of the Cryptochrome Gene Family in Plants.Tropical Plant Biology.https://doi.org/10.1007/s12042-019-09249-9.

131. Liping Liu, Lihua Zhao, Piaojuan Chen, Hanyang Cai, Zhimin Hou, Xingyue Jin, Mohammad Aslam, Mengnan Chai,Linyi Lai, Qing He, Yanhui Liu, Xiaoyi Huang, Huihuang Chen, Yingzhi Chen, Yuan Qin*. (2020). ATP binding cassette transporters ABCG1 and ABCG16 affectreproductive development via auxin signalling in Arabidopsis. The Plant Journal.102, 1172-1186.

130. Zhicong Lin, Ping Zhou, Xinyi Ma, Youjin Deng, Zhenyang Liao, Ruoyu Li, Ray Ming*. (2020). Comparative analysis of chloroplastgenomes in Vasconcellea pubescensA.Dc. and Carica papaya L.Scientific Reports.10:15799.

129. Lulu Wang, Yi Li, Xingyue Jin, Liping Liu , Xiaozhuan Dai , Yanhui Liu, Lihua Zhao , Ping Zheng,Xiaomei Wang, Yeqiang Liu, Deshu Lin, Yuan Qin*. (2020). Floral transcriptomes reveal gene networks inpineapple floral growth and fruit development.Comunications Biology. 3:500.

128. Panpan Ma#, Xingtan Zhang#, Lanping Chen, Qian Zhao, Qing Zhang, Xiuting Hua, Zhengchao Wang, Haibao Tang, Qingyi Yu, Muqing Zhang, Ray Ming, Jisen Zhang*. (2020). Comparative analysis of sucrose phosphatesynthase (SPS) gene family betweenSaccharum officinarum and Saccharumspontaneum.BMC Plant Biology. 20:422.

127. Haibao Tang*, Liangsheng Zhang, Fei Chen, Xingtan Zhang, Feng Chen, Hong Ma, Yves Van de Peer. (2020). Nymphaea colorata (Blue-Petal Water Lily).Trends in Genetics.

126. Qiongli Wang#, Guangrun Yu#, Zhiyong Chen, Jinlei Han, Yufang Hu, Kai Wang*. (2020). Optimization of protoplast isolation, transformation and its application in sugarcane(Saccharum spontaneum L). The Crop Journal.

125. Ping Zhou, Xiaodan Zhang, Mahpara Fatima, Xinyi Ma, Hongkun Fang, Hansong YanRay Ming*. (2020). DNA methylome and transcriptome landscapesrevealed differential characteristics of dioeciousflowers in papaya.Horticulture Research.7:81.

124. Jinlei Han, Pengxi Wang, Qiongli Wang, Qingfang Lin, Zhiyong Chen, Guangrun Yu,Chenyong Miao, Yihang Dao, Ruoxi Wu, James C. Schnable, Haibao Tang*, Kai Wang*. (2020). Genome-wide Characterization of DNase I-hypersensitive Sites and ColdResponse Regulatory Landscapes in Grasses.The Plant Cell. 32: 2457-2473.

123. Mingxing Cai#, Jishan Lin#, Zeyun Li, Zhicong Lin, Yaying Ma, Yibin Wang ,Ray Ming*. (2020). Allele specific expression of Dof genesresponding to hormones and abiotic stressesin sugarcane. PLoSONE. 15(1):e0227716.

122. Xiaodan Zhang, Mahpara Fatima, Ping Zhou, Qing Ma and Ray Ming*. (2020). Analysis of MADS-box genes revealedmodified flowering gene network and

diurnal expression in pineapple. BMC Genomics. 21:8.

121. Li-Yu Chen, Yinghui Xin, Ching Man Wai, Juan Liu, Ray Ming*. (2020) The role of cis-elements in the evolution of crassulacean acid metabolism photosynthesis. Horticulture Research. 7, 5.

120. Yangna Sun, Yanqiong Chen, Han Lin, Xiaokai Ma*. (2019). The complete chloroplast genome of a Cymbidium tortisepalum (Orchidaceae) male mutant. Mitochondrial DNA Part B, 4(2), 4087-4088.

119. Zhen Li, Xiuting Hua, Weiming Zhong, Yuan Yuan, Yongjun Wang, Zhengchao Wang, Ray Ming, Jisen Zhang*. (2019). Genome-Wide Identification and Expression Profile Analysis of WRKY Family Genes in the Autopolyploid Saccharum spontaneum. Plant Cell Physiology. 10.1093/pcp/pcz227.

118. Song Wang, Kai Ouyang, Kai Wang *. (2019). Genome-wide identification, evolution, and expression analysis of TPS and TPP gene families in Brachypodium distachyon. Plants. 8:362.

117. Qing He, Yanhui Liu, Man Zhang, Mengyan Bai, S. V. G. N. Priyadarshani, Mengnan Chai, Fangqian Chen, Youmei Huang, Liping Liu, Hanyang Cai, Yuan Qin*. (2019). Genome-Wide Identification and Expression Analysis of the NAC Transcription Factor Family in Pineapple. Tropical Plant Biology. https://doi.org/10.1007/s12042-019-09233-3.

116.Guangrun Yu# , Jianyong Wang#, Li Miao, Mengli Xi*, Qiongli Wang*, Kai Wang*. (2019). Optimization of Mature Embryo-Based TissueCulture and Agrobacterium-Mediated Transformationin Model Grass Brachypodium distachyon. International Journal ofMolecular Sciences, 20, 5448.

115.Liangsheng Zhang*#, Fei Chen#, Xingtan Zhang#, Zhen Li#, Yiyong Zhao#,Rolf Lohaus#, Xiaojun Chang#, Wei Dong, Simon Y. W. Ho, Xing Liu, Aixia Song,Junhao Chen, Wenlei Guo, Zhengjia Wang, Yingyu Zhuang, Haifeng Wang, Xuequn Chen,Juan Hu, Yanhui Liu, Yuan Qin, Kai Wang, Shanshan Dong, Yang Liu, Shouzhou Zhang,Xianxian Yu, Qian Wu, Liangsheng Wang, Xueqing Yan, Yuannian Jiao,Hongzhi Kong, Xiaofan Zhou, Cuiwei Yu, Yuchu Chen, Fan Li, Jihua Wang,Wei Chen, Xinlu Chen, Qidong Jia, Chi Zhang, Yifan Jiang, Wanbo Zhang, Guanhua Liu,Jianyu Fu, Feng Chen, Hong Ma, Yves Van de Peer, Haibao Tang. (2019). The water lily genome and the earlyevolution of flowering plants. Nature.https://doi.org/10.1038/s41586-019-1852-5.

114. Yongji Huang#,  Hong Chen#, Jinlei Han, Ya Zhang, Shulin Ma, Guangrun Yu, Zonghua Wang*, Kai Wang*. (2019).Species-specific abundant retrotransposons elucidate the genomiccomposition of modern sugarcane cultivars. Chromosoma. doi.org/10.1007/s00412-019-00729-1.

113. Hengbo Wang, Naiyan Xiao, Yongjun Wang, Jinlong Guo, Jisen Zhang*. (2019).Establishment of a qualitative PCR assay for the detection of Xanthomonas albilineans (Ashby) Dowson in sugarcane. Crop protection. doi: https://doi.org/10.1016/j.cropro.2019.105053.

112. Ying Zhang, Wei Dong, Xinghua Zhao, Aixia Song, Kangwei Guo, Zhongjian Liu, Liangsheng Zhang*. (2019). Transcriptomic Analysis of Differentially Expressed Genes andAlternative Splicing Events Associated with Crassulacean AcidMetabolism in Orchids. Horticultural Plant Journal. 5(6):268-280.

111. Mohammad Aslam, Beenish Fakher, Bello Hassan Jakada, Shijiang Cao ,Yuan Qin*. (2019). SWR1 Chromatin Remodeling Complex:A Key Transcriptional Regulator in Plants. Cells. 8, 1621.

110. Qingfang Lin#, Jiao Yang#, Qiongli Wang, Hong Zhu, Zhiyong Chen, Yihang Dao, Kai Wang*. (2019). Overexpression of the trehalose-6-phosphate phosphatase family gene AtTPPFimproves the drought tolerance ofArabidopsis thaliana.BMC Plant Biology.19:381.

109. Xiaokai Ma, Han Lin, Yanqiong Chen, Siren Lan, Ray Ming. (2019). Thecomplete chloroplast genome of a gynodioecious deciduous orchid Satyriumciliatum (Orchidaceae)female, Mitochondrial DNA Part B-Resources, 4:2, 3876-3877.

108.Jishan Lin#, Mengting Zhu#, Mingxing Cai,Wenping Zhang, Mahpara Fatima,Haifeng Jia,Feifei Li,Ray Ming*. (2019). Identification and Expression Analysis of TCP Genes in Saccharum spontaneum L.Tropical Plant Biology.https://doi.org/10.1007/s12042-019-09238-y.

107.Zeyun Li# , Gang Li#, Mingxing Cai, Samaranayaka V.G.N. Priyadarshani,Mohammad Aslam, Qiao Zhou, Xiaoyi Huang, Xiaomei Wang, Yeqiang Liu, Yuan Qin*. (2019). Genome-Wide Analysis of the YABBY TranscriptionFactor Family in Pineapple and FunctionalIdentification of AcYABBY4 Involvement in Salt Stress. International Journal of Molecular Sciences.20, 586.

106. Yan Cheng#, Pan Yang#, Lihua Zhao, S.V.G.N. Priyadarshani , Qiao Zhou, Zeyun Li, Weimin Li ,Junjie Xiong, Zhibin Lin, Li Li, Xinyu Huang, Jindian Liu, Mohammad Aslam, Heming Zhao , Gang Li ,Jinbiao Ma, Lei Li , Yuan Qin*. (2019). Studies on genome size estimation, chromosome number, gametophyte development and plant morphology of salt-tolerant halophyte Suaeda salsa. BMC Plant Biology. 19: 473-485.

105. S.V.G.N.Priyadarshani, Hanyang Cai, Qiao Zhou, Yanhui Liu, Yan Cheng,Junjie Xiong, Dikoko Lesego Patson, Shijiang Cao, Heming Zhao ,Yuan Qin*. (2019) An Efficient Agrobacterium Mediated Transformation of Pineapple with GFP-Tagged Protein Allows Easy, Non-Destructive Screening of Transgenic Pineapple Plants. Biomolecules. 9, 617.

104. Mohammad Aslam*, Beenish Fakher, Bello Hassan Jakada, Lihua Zhao, Shijiang Cao, Yan Cheng, Yuan Qin*. (2019) Genome-Wide Identification and Expression Profiling of CBL-CIPK Gene Family in Pineapple (Ananas comosus) and the Role of AcCBL1 in Abiotic and Biotic Stress Response. Biomolecules. 9, 293.

103. Bello Hassan Jakada, Mohammad Aslam, Beenish Fakher, Joseph G. Greaves,Zeyun Li, Weimin Li, Linyi Lai, Oyekunle Adenike Ayoade, Yan Cheng, Shijiang Cao, Gang Li, Jer-Ming Hu, Yuan Qin*. (2019). Identification of SWI2/SNF2-Related 1 Chromatin Remodeling Complex (SWR1-C) Subunits in Pineapple and the Role of Pineapple SWR1 COMPLEX 6 (AcSWC6) in Biotic andAbiotic Stress Response. Biomolecules. 9, 364.

102. Shijiang Cao, Han Cheng, Jiashuo Zhang, Mohammad Aslam, Maokai Yan, Anqi Hu, Lili Lin, Simon Peter Ojolo, Heming Zhao, S.V.G.N Priyadarshani, Yuan Yu*, Guangqiu Cao*, Yuan Qin*. (2019). Genome-wide identification, expression pattern analysis and evolution of the Ces/Csl gene superfamily in Pineapple (Ananas comosus). Plants. 8, 275.

101. Zhenfang Li, Dingning Li, Baiyang Li, Yanhui Liu, Xiaoping Niu,  Mohammad Aslam, Hanyang Cai, Zhenxia Su*, Yuan Qin*. (2019). Genome-wide identification, Characterization of RDR genes and their expression analysis during reproductive development and stress in Pineapple. Tropical Plant Biology. DOI: 10.1007/s12042-019-09241-3.

100.Xingtan Zhang, Ruoxi Wu, Yibin Wang, Jiaxin Yu, Haibao Tang*. (2019). Unzipping haplotypes in diploid and polyploidgenomes, Computational and Structural Biotechnology Journal. doi: https://doi.org/10.1016/j.csbj.2019.11.011.

99.Ying Wang, Ratnesh Singh, Eric Tong, Min Tang, Liwei Zheng, Hongkun Fang, Ruoyu Li,Lin Guo, Jinjin Song, Rajeswari Srinivasan, Anupma Sharma, Lianyu Lin, Jorge A. Trujillo,Richard Manshardt, Li-Yu Chen, Ray Ming, Qingyi Yu*. (2019). Positional cloning and characterization of the papaya diminutive mutant reveal a truncatingmutation in CpMMS19 gene. New Phytologist. doi.org/10.1111/nph.16325.

98.Weijian Zhuang*  , Hua Chen, Meng Yang  , Jianping Wang, Manish K. Pandey  ,Chong Zhang, Wen-Chi Chang  , Liangsheng Zhang, Xingtan Zhang, Ronghua Tang,Vanika Garg, Xingjun Wang, Haibao Tang, Chi-Nga Chow, Jinpeng Wang, Ye Deng,Depeng Wang, Aamir W. Khan , Qiang Yang, Tiecheng Cai, Prasad Bajaj  , Kangcheng Wu,Baozhu Guo, Xinyou Zhang, Jingjing Li , Fan Liang , Jiang Hu, Boshou Liao, Shengyi Liu  ,Annapurna Chitikineni, Hansong Yan, Yixiong Zheng, Shihua Shan, Qinzheng Liu,Dongyang Xie, Zhenyi Wang, Shahid Ali Khan, Niaz Ali, Chuanzhi Zhao, Xinguo Li,Ziliang Luo, Shubiao Zhang, Ruirong Zhuang, Ze Peng  , Shuaiyin Wang, Gandeka Mamadou,Yuhui Zhuang, Zifan Zhao, Weichang Yu, Faqian Xiong, Weipeng Quan, Mei Yuan, Yu Li,Huasong Zou, Han Xia, Li Zha, Junpeng Fan  , Jigao Yu, Wenping Xie, Jiaqing Yuan,Kun Chen, Shanshan Zhao, Wenting Chu, Yuting Chen, Pengchuan Sun , Fanbo Meng,Tao Zhuo, Yuhao Zhao, Chunjuan Li, Guohao He, Yongli Zhao, Congcong Wang,Polavarapu Bilhan Kavikishor, Rong-Long Pan, Andrew H. Paterson , Xiyin Wang  *,Ray Ming  * and Rajeev K. Varshney* .(2019). The genome of cultivated peanut provides insight into legume karyotypes, polyploid evolution and crop domestication. Nature Genetics 51:865-876.

97. Zhu Fang, Ray Ming*. (2019). Global Identification and Expression Analysis of Pineapple Aquaporins Revealed Their Roles in CAM Photosynthesis, Boron Uptake and Fruit Domestication. Euphytica. 215:132.

96.Wenping Zhang, Jishan Lin, Fei Dong, Qing Ma, Songlin Wu,Xinyi Ma, Mahpara Fatima, Haifeng Jia, Ray Ming*. (2019). Genomic and Allelic Analyses of Laccase Genes in Sugarcane (Saccharum spontaneum L.). Tropical Plant Biology.12:219-229.

95. Ping Zhou, Mahpara Fatima, Xinyi Ma, Juan Liu, Ray Ming*. (2019). Auxin regulation involved in gynoeciummorphogenesis of papaya flowers. Horticulture Research. 6:119.

94. ZhuangMeng, JinleiHan, YujingLin, YiyongZhao, QingfangLin, XiaokaiMa, JianpingWang, MuqingZhang, LiangshengZhang, QinghuiYang, KaiWang*.(2019). Characterization of aSaccharum spontaneum withabasicchromosome number ofx = 10 provides new insights ongenomeevolution ingenus Saccharum.Theoretical and Applied Genetics. DOI: 10.1007/s00122-019-03450-w.

93. Li-Yu Chen#  , Robert VanBuren#, Margot Paris#, Hongye Zhou#, Xingtan Zhang,Ching Man Wai  , Hansong Yan, Shuai Chen, Michael Alonge, Srividya Ramakrishnan,Zhenyang Liao, Juan Liu, Jishan Lin, Jingjing Yue, Mahpara Fatima, Zhicong Lin,Jisen Zhang, Lixian Huang, Hao Wang, Teh-Yang Hwa, Shu-Min Kao, Jae Young Choi  ,Anupma Sharma, Jian Song, Lulu Wang, Won C. Yim  , John C. Cushman, Robert E. Paull,Tracie Matsumoto, Yuan Qin, Qingsong Wu, Jianping Wang  , Qingyi Yu , Jun Wu,Shaoling Zhang, Peter Boches, Chih-Wei Tung, Ming-Li Wang, Geo Coppens d’Eeckenbrugge,Garth M. Sanewski, Michael D. Purugganan , Michael C. Schatz, Jeffrey L. Bennetzen*,Christian Lexer*, Ray Ming*. (2019). The bracteatus pineapple genome and domestication of clonally propagated crops. Nature Genetics.51, 1549-1558.

92. Gang Wang#, Jingxian Lin#, Yang Shi, Xiaoguang Chang, Yuanyuan Wang, Lin Guo, Wenhui Wang, Meijie Dou, Youjin Deng, Ray Ming, Jisen Zhang*. (2019) Mitochondrial genome in Hypsizygus marmoreus and Its Evolution in Dikarya. BMC genomics. DOI:10.1186/s12864-019-6133-z.

91 Xingtan Zhang, Shengcheng Zhang, Qian Zhao, Ray Ming  , Haibao Tang*. (2019). Assembly of allele-aware, chromosomal-scaleautopolyploid genomes based on Hi-C data.Nature Plants. DOI: 10.1038/s41477-019-0487-8.

90. Yun Yingzi, Song Aixia, Bao Jiandong, Chen Shasha, Lu Songmao, Cheng Chunzhen, Zheng Wenhui, Wang Zonghua*, Zhang Liangsheng*. (2019). Genome data of Fusarium oxysporum f. sp. cubense race 1 and tropical race 4 isolates using long-read sequencing. Molecular Plant-Microbe Interacttions.

DOI: 10.1094/MPMI-03-19-0063-A.

89. Chen Fei*, Chen Junhao, Wang Zhengjia, Zhang Jiawei, Li Xiaojiang, Lin Mmeigui, Song Yunfeng, Zhang Liangsheng*. (2019). Genomics: cracking the mysteries of walnuts. Journal of Genetics, 98, 33.

88. Wang Song, Jin Weiwei, Wang Kai* (2019). Centromere histone H3- and phospholipase-mediated haploid induction in plants. Plant Methods. 15: 42.

87. Hanyang Cai#, Man Zhang#, Mengnan Chai, Qing He, Xinyu Huang, Lihua Zhao, Yuan Qin*. (2019). Epigenetic regulation of anthocyanin biosynthesis by an antagonistic interaction between H2A.Z and H3K4me3. New Phytologist. 221: 295-308.

86. Mohammad Aslam#, Beenish Fakher#, Sivalingam Anandhan, Veena Pande, Zakwan Ahmed, Yuan Qin*. (2019). Ectopic Expression of Cold Responsive LlaCIPK Gene Enhances Cold Stress Tolerance in Nicotiana tabacum. Genes. 10, 446.

85. Hanyang Cai, Man Zhang, Yanhui Liu, Qing He, Mengnan Chai, Liping Liu, Fangqian Chen, Youmei Huang, Maokai Yan, Heming Zhao, Jerming Hu, Yuan Qin*. (2019). Genome-Wide Classification and Evolutionary and Functional Analyses of the VQ Family.Tropical Plant Biology. DOI: 10.1007/s12042-019-09224-4.

84. Huihuang Chen, Bingyan Hu, Lihua Zhao, Duoduo Shi, Zeyuan She, Xiaoyi Huang, S.V.G.N. Priyadarshani, Xiaoping Niu, Yuan Qin*. (2019). Differential Expression Analysis of Reference Genes in Pineapple (Ananas comosus L.) during Reproductive Development and Response to Abiotic Stress, Hormonal Stimuli. Tropical Plant Biology. DOI: 10.1007/s12042-019-09218-2.

83. Dong Zhou, Yanhong Shen, Ping Zhou, Mahpara Fatima, Jishan Lin, Jingjing Yue, Xingtan Zhang, Li-Yu Chen, Ray Ming*. (2019). Papaya CpbHLH1/2 regulate carotenoid biosynthesis-related genes during papaya fruit ripening. Horticulture Reseaerch. DOI: 101038/s41438-019-0162-2.

82.Yan Shi, Huimin Xu, Qiaochu Shen, Jingxian Lin, Yongjun Wang, Xiuting Hua, Wei Yao, Qingyi Yu, Ray Ming, Jisen Zhang*. (2019). Comparative Analysis of SUS Gene Family between Saccharum officinarum and Saccharum spontaneum.Tropical Plant Biology. DOI: 10.1007/s12042-019-09230-6.

81. Panpan Ma, Yuan Yuan, Qiaochu Shen, Qing Jiang, Xiuting Hua ,Qing Zhang, Muqing Zhang, Ray Ming, Jisen Zhang*. (2019). Evolution and Expression Analysis of Starch Synthase Gene Families in Saccharum spontaneum. Tropical Plant Biology. DOI: 10.1007/s12042-019-09225-3.

80. Yongjun Wang, Xiuting Hua, Jingsheng Xu, Zhichang Chen, Tianqu Fan, Zhaohui Zeng, Hengbo Wang, Ai-Ling Hour, Qingyi Yu, Ray Ming, Jisen Zhang*. (2019). Comparative Genomics revealed the Gene Evolution and Functional Divergence of Magnesium Transporter Families in Saccharum. BMC Genomics. DOI: 10.1186/s12864-019-5437-3.

79. Simon P. Ojolo# , Shijiang Cao#, S. V. G. N. Priyadarshani, Weimin Li, Maokai Yan, Mohammad Aslam, Heming Zhao, Yuan Qin*. (2018). Regulation of Plant Growth andDevelopment: A Review From aChromatin Remodeling Perspective. Frontiers in Plant Science. DOI: 10.3389/fpls.2018.01232.

78. Fei Chen, Liangsheng Zhang, Zhenguo Lin, Zong-Ming Max Cheng*. (2018). Identification of a novel fused gene family implicates convergent evolution in eukaryotic calcium signaling. BMC Genomics. 19(1): 306.

77. Jianping Wang*, Stig Uggerhøj Andersen, Pascal Ratet. (2018). Editorial: Molecular and Cellular Mechanisms of the Legume-Rhizobia Symbiosis. Frontiers in Plant Science. DOI: 10.3389/fpls.2018.01839.

76. Wei Dong, Alessandro Vannozzi, Fei Chen, Yue Hu, Zihua Chen, Liangsheng Zhang*. (2018). MORC domain definition and evolutionary analysis of the MORC gene family in green plants. Genome Biology and Evolution. 10(7): 1730-1744.

75. Weimin Li#, Maokai Yan#, Bingyan Hu, S. V. G. N. Priyadarshani, Zhimin Hou, Simon Peter Ojolo, Junjie Xiong, Heming Zhao, Yuan Qin*. (2018). Characterization and the Expression Analysis of Nitrate Transporter (NRT) Gene Family in Pineapple. Tropical Plant Biology. 11: 177-191.

74. Simon P. Ojolo#, Shijiang Cao#, S. V. G. N. Priyadarshani, Weimin Li, Maokai Yan, Mohammad Aslam, Heming Zhao, Yuan Qin*. (2018). Plant growth and development regulation: A review from chromatin remodeling perspective. Frontiers in Plant Science. 19: 159-173.

73. Zhuang Meng#, Zhiliang Zhang#, Tianying Yan, Qingfang Lin, Yu Wang, Weiyuan Huang, Yongji Huang, Zhanjie Li, Qingyi Yu, Jianping Wang, Kai Wang*. (2018). Comprehensively Characterizing the Cytological Features of Saccharum spontaneum by the Development of a Complete Set of Chromosome-Specific Oligo Probes. Frontiers in Plant Science. DOI: 10.3389/fpls.2018.01624.

72. Fei Chen*#, Jiawei Zhang#, Junhao Chen#, Xiaojiang Li#, Wei Dong, Jian Hu, Meigui Lin, Yanhui Liu, Guowei Li, Zhengjia Wang, Liangsheng Zhang*. (2018). realDB: a genome and transcriptome resource for the red algae (phylum Rhodophyta). Database. DOI: 10.1093/database/bay072.

71. Yangyang Zheng#, Xianju Lin#, Huimin Liang, Fangfei Wang, Li-Yu Chen*. (2018). The Long Journey of Pollen Tube in the Pistil. International Journal of Molecular Sciences. DOI: 10.3390/ijms19113529.

70. Xing Liu#, Zhichao Sun#, Wei Dong#, Zhengjia Wang, and Liangsheng Zhang*. (2018). Expansion and Functional Divergence of the SHORT VEGETATIVE PHASE (SVP) Genes in Eudicots. Genome Biol. Evol. 10(11): 3026-3037.

69. S. V. G. N. Priyadarshani#, Bingyan Hu#, Weimin Li, Hina Ali, Haifeng Jia, Lihua Zhao, Simon Peter Ojolo, Syed Muhammad Azam, Junjie Xiong , Moakai Yan, Zia ur Rahman, Qingsong Wu*, Yuan Qin*. (2018). Simple protoplast isolation system for gene expression and protein interaction studies in pineapple (Ananas comosus L.). Plant Methods. 14: 95.

68. Weichang Hu#, Xiuting Hua#, Qing Zhang, Jianping Wang, Qiaochu Shen, Xingtan Zhang, Kai Wang, Qingyi Yu, Yann-Rong Lin, Ray Ming, Jisen Zhang*. (2018). New Insights into the Evolution and Functional Divergence of the SWEET family in Saccharum Based on Comparative Genomics. BMC Plant Biology. DOI: 10.1186/s12870-018-1495-y.

67. Fan Zhu, Ching Man Wai, Jisen Zhang, Tyler C. Jones, Chifumi Nagai, Ray Ming*. (2018). Differential expression of hormone related genes between extreme segregants of a Saccharum interspecific F2 population. Euphytica. 214: 55.

66. Youjin Deng, Tom Hsiang, Shuxian Li, Longji Lin, Qingfu Wang, Qinghe Chen, Baogui Xie*, Ray Ming*. (2018). Comparison of the Mitochondrial Genome Sequences of Six Annulohypoxylon stygium Isolates Suggests Short Fragment Insertions as a Potential Factor Leading to Larger Genomic Size. Frontiers in Microbiology. 9: 2079.

65. Jisen Zhang*#, Xingtan Zhang#, Haibao Tang#, Qing Zhang#, Xiuting Hua, Xiaokai Ma, Fan Zhu, Tyler Jones, Xinguang Zhu, John Bowers, Ching Man Wai, Chunfang Zheng, Yan Shi, Shuai Chen, Xiuming Xu, Jingjing Yue, David R. Nelson, Lixian Huang, Zhen Li, Huimin Xu, Dong Zhou, Yongjun Wang, Weichang Hu, Jishan Lin, Youjin Deng, Neha Pandey, Melina Mancini, Dessireé Zerpa, Julie K. Nguyen, Liming Wang, Liang Yu, Yinghui Xin, Liangfa Ge, Jie Arro, Jennifer O. Han, Setu Chakrabarty, Marija Pushko, Wenping Zhang, Yanhong Ma, Panpan Ma, Mingju Lv, Faming Chen, Guangyong Zheng, Jingsheng Xu, Zhenhui Yang, Fang Deng, Xuequn Chen, Zhenyang Liao, Xunxiao Zhang, Zhicong Lin, Hai Lin, Hansong Yan, Zheng Kuang, Weimin Zhong, Pingping Liang, Guofeng Wang, Yuan Yuan, Jiaxian Shi, Jinxiang Hou, Jingxian Lin, Jingjing Jin, Peijian Cao, Qiaochu Shen, Qing Jiang, Ping Zhou, Yaying Ma, Xiaodan Zhang, Rongrong Xu, Juan Liu, Yongmei Zhou, Haifeng Jia, Qing Ma, Rui Qi, Zhiliang Zhang, Jingping Fang, Hongkun Fang, Jinjin Song, Mengjuan Wang, Guangrui Dong, Gang Wang, Zheng Chen, Teng Ma, Hong Liu, Singha R. Dhungana, Sarah E. Huss, Xiping Yang, Anupma Sharma, Jhon H. Trujillo, Maria C. Martinez, Matthew Hudson, John J. Riascos, Mary Schuler, Li-Qing Chen, David M. Braun, Lei Li, Qingyi Yu, Jianping Wang, Kai Wang, Michael C. Schatz, David Heckerman, Marie-Anne Van Sluys, Glaucia Mendes Souza, Paul H. Moore, David Sankoff, Robert VanBuren, Andrew H. Paterson, Chifumi Nagai*, Ray Ming*. (2018). Allele-defined genome of the autopolyploid sugarcane Saccharum spontaneum L.. Nature Genetics. 50(11):1565-1573.

64. Huimin Xu, Qingyi Yu, Yan Shi, Xiuting Hua, Haibao Tang, Long Yang*, Ray Ming*, Jisen Zhang*. (2018). PGD: Pineapple Genomics Database. Horticulture Research. DOI: 10.1038/s41438-018-0078-2.

63. William H. Wadlington, Ray Ming*. (2018). Development of an X specifc marker and identifcation of YY individuals in spinach. Theoretical and Applied Genetics. 131: 1987-1994.

62. Syed Muhammad Azam#, Yanhui Liu#, Zia Ur Rahman#, Hina Ali, Cheng Yan, Lulu Wang, S. V. G. N. Priyadarshani, Binyan Hu, Xinyu Huang, Junjie Xiong, Yuan Qin*. (2018). Identification, Characterization and Expression Profiles of Dof Transcription Factors in Pineapple (Ananas comosus L). Tropical Plant Biology. 11, 49-64.

61. Chenyong Miao, Jingping Fang, Delin Li, Pingping Liang, Xingtan Zhang, Jinliang Yang, James C. Schnable, Haibao Tang*. (2018). Genotype-Corrector: improved genotype calls for genetic mapping in F2 and RIL populations. Scientific Reports. DOI: 10.1038/s41598-018-28294-01.

60. Man Zhang#, Yanhui Liu#, Hang Shi, Mingliang Guo, Mengnan Chai, Qing He, Maokai Yan, Du Cao, Lihua Zhao, Hanyang Cai*, Yuan Qin*. (2018). Evolutionary and expression analyses of soybean basic leucine zipper transcription factor family. BMC Genomics. DOI: 10.1186/s12864-018-4511-6.

59. Zhuang Meng, Xiaoxu Hu, Zhiliang Zhang, Zhanjie Li, Qingfang Lin, Mei Yang, Pingfang Yang, Ray Ming, Qingyi Yu, Kai Wang*. (2018). Chromosome nomenclature and cytological characterization of sacred lotus. Cytogenetic and Genome Research. 153(4).

58. Jinlei Han, Zhiliang Zhang, Kai Wang*. (2018). 3C and 3C-based techniques: the powerful tools for spatial genome organization deciphering. Molecular Cytogenetics, DOI: 10.1186/s13039-018-0368-2.

57. Li-Yu Chen*. (2018). Small peptides, big roles-ralfs regulate pollen tube growth and burst in plant reproduction. Journal of Genetics and Genomics. DOI: 10.1016/j.jgg.2018.02.006.

56. Fei Chen, Yue Hu, Alessandro Vannozzi, Kangcheng Wu, Hanyang Cai, Yuan Qin, Alison Mullis, Zhenguo Lin, Liangsheng Zhang*. (2018). The WRKY Transcription Factor Family in Model Plants and Crops. Critical Reviews in Plant Sciences. 36(5), 1-25.

55. Fei Chen#, Wei Dong#, Jiawei Zhang, Xinyue Guo, Junhao Chen, Zhengjia Wang, Zhenguo Lin, Haibao Tang, Liangsheng Zhang*. (2018). The sequenced angiosperm genomes and genome databases. Frontiers in Plant Science. DOI: 10. 3389/fpls. 2018. 00418.

54. Juan Liu#, Laura Chatham#, Rishi Aryal#, Qingyi Yu, Ray Ming* (2018). Differential methylation and expression of HUA1 ortholog in three sex types of papaya. Plant Science. 272, 99-106.

53. Jisen Zhang, Qing Zhang, Leiting Li, Haibao Tang, Qiong Zhang, Yang Chen, Jie Arrow, Xingtan Zhang, Aiqin Wang, Chenyong Miao, Ray Ming*. (2018). Recent Polyploidization Events in Three Saccharum Founding Species. Plant Biotechnology Journal. DOI: 10.1111/pbi.12962.

52. Guangrui Dong, Jiao Shen, Qing Zhang, Jianping Wang, Qingyi Yu, Ray Ming, Kai Wang, Jisen Zhang*. (2018). Development and applications of chromosome-specific cytogenetic BAC-FISH probes in S. spontaneum. Frontiers in Plant Science. DOI: 10.3389/fpls.2018.00218.

51. Huiling Liu, Xiping Yang, Qian You, Jian Song, Liping Wang, Jisen Zhang, Zuhu Deng, Ray Ming, Jianping Wang*. (2018). Pedigree, marker recruitment, and genetic diversity of modern sugarcane cultivars in China and the United States. Euphytica 214:48.

50. Yinjia Li#, Sheng Zuo#, Zhiliang Zhang#, Zhanjie Li, Jinlei Han, Zhaoqing Chu, Hasterok Robert, Kai Wang*. (2018). Centromeric DNA characterization in the model grass Brachypodium distachyon provides new insights on Brachypodium genus evolution. The Plant Journal. DOI: 10.1111/tpj.13832.

49. Juan Liu, Anupma Sharma, Marie Jamille Niewiara, Ratnesh Singh, Ray Ming, Qingyi Yu*. (2018). Papain-like cysteine proteases in Carica papaya: lineage-specific gene duplication and expansion. BMC Genomics. DOI: 10.1186/s12864-017-4394-y.

48. Pingping Liang, Hafiz Sohaib Ahmed Saqib, Xingtan Zhang, Liangsheng Zhang, Haibao Tang*. (2018). Single-base resolution map of evolutionary constraints and annotation of conserved elements across major grass genomes. Genome Biology and Evolution, 10(2), 473-488.

47. Lihua Zhao#, Hanyang Cai#, Zhenxia Su#, Lulu Wang, Xinyu Huang, Man Zhang, Piaojuan Chen, Xiaozhuan Dai, Heming Zhao, Ravishankar Palanivelu, Xuemei Chen*, Yuan Qin*. (2018). KLU suppresses megasporocyte cell fate through SWR1-mediated activation of WRKY28 expression in Arabidopsis. Proceedings of the National Academy of Sciences of the United States of America. DOI: 10.1073/pnas.1716054115.

46. Piaojuan Chen#, Yi Li#, Lihua Zhao, Zhimin Hou, Maokai Yan, Bingyan Hu, Yanhui Liu, Syed Muhammad Azam, Ziyan Zhang, Zia ur Rahman, Liping Liu, Yuan Qin*. (2017). Genome-wide identification and expression profiling of ATP-binding cassette (ABC) transporter gene family in pineapple (Ananas comosus (L.) Merr.) reveal the role of AcABCG38 in pollen development. Frontiers in Plant Science. DOI: 10.3389/fpls.2017.02150.

45. Zia ur Rahman#, Syed Muhammad Azam#, Yanhui Liu#, Yan Cheng, Hina Ali, Lihua Zhao, Piaojuan Chen, Yi Li, S. V. G. N. Priyadarshani, Yuan Qin*. (2017). Expression profiles of Wuschel-Related Homeobox gene family in pineapple (Ananas comosus L). Tropical Plant Biology. 10: 204-215.

44. Zhenxia Su#, Lulu Wang#, Weimin Li, Lihua Zhao, Xinyu Huang, Syed Muhammad Azam, Yuan Qin*. (2017). Genome-Wide Identification of Auxin Response Factor (ARF) Genes Family and its Tissue-Specific Prominent Expression in Pineapple (Ananas comosus). Tropical Plant Biology. 15(4): 481-493.

43. Ching Man Wai, Jisen Zhang, Tyler C. Jones, Chifumi Nagai, Ray Ming*. (2017). Cell wall metabolism and hexose allocation contribute to biomass accumulation in high yielding extreme segregants of a Saccharum interspecific F2 population. BMC Genomics. DOI: org/10.1186/s12864-017-4158-8.

42. Hina Ali, Yanhui Liu, Syed Muhammad Azam, Zia ur Rahman, S. V. G. N. Priyadarshani, Weimin Li, Xinyu Huang, Bingyan Hu, Junjie Xiong, Umair Ali, Yuan Qin*. (2017). Genomic survey, characterization and expression profile analysis of the SBP genes in pineapple (Ananas comosus L.). International Journal of Genomics. DOI: 10.1155/2017/1032846.

41. Fei Chen, Xing Liu, Cuiwei Yu, Yuchu Chen, Haibao Tang, Liangsheng Zhang*. Water lilies as emerging models for Darwins abominable mystery. Horticulture Research. (2017). 4, 17051.

40. Fei Chen, Xingtan Zhang, Xing Liu, Liangsheng Zhang*. Evolutionary Analysis of MIKCc-Type MADS-Box Genes in Gymnosperms and Angiosperms. (2017). Frontiers in Plant Science. 8: 895.

39. Xiaozhuan Dai#, Youhuang Bai#, Lihua Zhao#, Xianying Dou#, Yanhui Liu, Lulu Wang, Yi Li, Weimin Li, Yanan Hui, Xinyu Huang, Zonghua Wang*, Yuan Qin*. (2017). H2A.Z represses gene expression by modulating promoter nucleosome structure and enhancer histone modifications in Arabidopsis.Molecular Plant.10(10): 1274-1292.

38. Xingtan Zhang, Xuequn Chen, Pingping Liang, Haibao Tang*. (2017). Cataloging Plant Genome Structural Variations.. Curr Issues Mol Biol. 27: 181-194.

37. Haibao Tang. (2017). Disentangling a polyploid genome. Nature Plants. 3:688-689.

36. Ching M. Wai, R. VanBuren, Jisen Zhang, Lixian Huang, Wenjing Miao, P. P. Edger, W.C. Yim, H. Priest, B. Meyers, T.C.Mockler, J.A.C. Smith, J. Cushman, R. Ming*. (2017). Temporal and spatial transcriptomic and microRNA dynamics of CAM photosynthesis in pineapple. The Plant Journal. 92(1).

35. Aijuan Xue, Zhen Li, Muchen Cai, Qing Zhang, Xingtan Zhang, R. Ming, Jisen Zhang*. (2017). Identification and Characterization of microRNAs from Saccharum officinarum L by Deep Sequencing. Tropical Plant Biology. 11(2-3): 134-150.

34. Zhenyang Liao, Qingyi Yu, Ray Ming*. (2017) Development of male-specific markers and identificationb of sex reversal mutants in papaya. Euphytica. 213(2): 53.

33. Liming Wang, Yuexia Zheng, Shihui Ding; Qing Zhang, Youqiang Chen, Jisen Zhang*. (2017). Molecular cloning, structure, phylogeny and expression analysis of the invertase gene family in sugarcane. BMC Plant Biology. 17 (1): 109.

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.