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The Snapdragon Genomes Reveal the Evolutionary Dynamics of the S-Locus Supergene. Sihui Zhu , Yu’e Zhang , Lucy Copsy, Qianqian Han , Dongfeng Zheng,Enrico Coen and Yongbiao Xue . Mol. Biol. Evol. 40(4): April 4, 2023  [PDF]
McAN: a novel computational algorithm and platform for constructing and visualizing haplotype networks. Lun Li , Bo Xu , DongmeiT ian , Anke Wang , Junwei Zhu , Cuiping Li , Na Li , Wei Zhao , Leisheng Shi , Yongbiao Xue , Zhang Zhang , Yiming Bao , Wen ming Zhao and Shuhui Song Briefings in Bioinformatics; 2023, 1–9 [PDF]
Flattening the curve: imperative when China eases the severe COVID-19 control policy,Journal of Infection,S. Zhao, T. Sha, Y. Xue et al;January 12, 2023;18:7  [PDF]

  饲草自交不亲和性与近交衰退, 植物学报,赵洪,宋丽珍, 张玉娥, 程佑发, 薛勇彪;2022 ,DOI:10.11983/CBB22156
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  ZhangXiaxia,WangQi,WuJingxia,QiMeifang,ZhangChen,HuangYige,WangGuangda,WangHuan,TianJuan,YuYanjun,ChenDasong,LiYouguo,WangDong,ZhangYijing,XueYongbiao,KongZhaosheng; A legume kinesin controls vacuole morphogenesis for rhizobia endosymbiosis. Nature plants,2022(8)11:1275-1288
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  Yuyun Zhang, Zijuan Li1, Jinyi Liu, Yu’e Zhang ,Luhuan Ye,Yuan Peng, Haoyu Wang, Huishan Diao3, Yu Ma, Meiyue Wang,Yilin Xie, Tengfei Tang, Yili Zhuang, Wan Teng, Yiping Tong,Wenli Zhang , Zhaobo Lang , Yongbiao Xue & Yijing Zhang,Transposable elements orchestrate subgenome-convergent and –divergent transcription in common wheat Nature Communications ( 2022) 13:6940
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  Zhao S, Hou Y, Zhang X, Hughes A, Liu N, Peng M, Wang Q, Xue Y, Chen H. Pinpointing the animal origins of SARS-CoV-2: a genomic approach. Journal of Genetics and Genomics. 2022. doi: 10.1016/j.jgg.2022.05.002.
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  Ruan Y, Wen H, Hou M, He Z, Lu X, Xue Y, He X, Zhang Y, Wu C. The twin-beginnings of COVID-19 in Asia and Europe—one prevails quickly. National Science Review. 2022 9: nwab223. doi: 10.1093/nsr/nwab223
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  CNCB-NGDC Members and Partners. Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2022. Nucleic Acids Res. 2022 Jan 7;50(D1):D27-D38. doi: 10.1093/nar/gkab951. PMID: 34718731; PMCID: PMC8728233.
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  Liu Q, Du Z, Zhu S, Zhao W, Chen H, Xue Y. Metagenomic evidence for the co-existence of SARS and H1N1 in patients from 2007-2012 flu seasons in France. Biosaf Health. 2021 Nov 9. doi: 10.1016/j.bsheal.2021.11.002. Epub ahead of print. PMID: 34778742; PMCID: PMC8577621.
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  Zhang Y, Li Z, Zhang Y, Lin K, Peng Y, Ye L, Zhuang Y, Wang M, Xie Y, Guo J, Teng W, Tong Y, Zhang W, Xue Y, Lang Z, Zhang Y. Evolutionary rewiring of the wheat transcriptional regulatory network by lineage-specific transposable elements. Genome Res. 2021 Sep 9;31(12):2276–89. doi: 10.1101/gr.275658.121. Epub ahead of print. PMID: 34503979; PMCID: PMC8647832.
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  Wang Q, Chen H, Shi Y, Hughes AC, Liu WJ, Jiang J, Gao GF, Xue Y, Tong Y. Tracing the origins of SARS-CoV-2: lessons learned from the past. Cell Res. 2021 Nov;31(11):1139-1141. doi: 10.1038/s41422-021-00575-w. PMID: 34588626; PMCID: PMC8480455.
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  Zhao H, Zhang Y, Zhang H, Song Y, Zhao F, Zhang Y, Zhu S, Zhang H, Zhou Z, Guo H, Li M, Li J, Gao Q, Han Q, Huang H, Copsey L, Li Q, Chen H, Coen E, Zhang Y, Xue Y. Origin, Loss and Regain of Self-Incompatibility in Angiosperms. Plant Cell. 2021 Nov 4:koab266. doi: 10.1093/plcell/koab266. Epub ahead of print. PMID: 34735009.
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  Wu CI, Wen H, Lu J, Su XD, Hughes AC, Zhai W, Chen C, Chen H, Li M, Song S, Qian Z, Wang Q, Chen B, Guo Z, Ruan Y, Lu X, Wei F, Jin L, Kang L, Xue Y, Zhao G, Zhang YP. On the origin of SARS-CoV-2-The blind watchmaker argument. Sci China Life Sci. 2021 Sep;64(9):1560-1563. doi: 10.1007/s11427-021-1972-1. Epub 2021 Jul 16. PMID: 34269976; PMCID: PMC8284035.
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  Song S, Li C, Kang L, Tian D, Badar N, Ma W, Zhao S, Jiang X, Wang C, Sun Y, Li W, Lei M, Li S, Qi Q, Ikram A, Salman M, Umair M, Shireen H, Batool F, Zhang B, Chen H, Yang Y, Ali Abbasi A, Li M, Xue Y, Bao Y. Genomic Epidemiology of SARS-CoV-2 in Pakistan. Genomics Proteomics Bioinformatics. 2021 19:727-740
  
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  CNCB-NGDC Members and Partners. Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2021. Nucleic Acids Res. 2021 Jan 8;49(D1):D18-D28. doi: 10.1093/nar/gkaa1022. PMID: 33175170; PMCID: PMC7779035.
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  Xue, Y. (2000) Establishment of the self-incompatibility (S) locus-directed transposon tagging system in Antirrhinum. Acta Bot. Sin. 42:408-415
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  Yang, H. and Xue, Y. (2000) Expression of self-incompatibility ribonucleases of Antirrhinum in Escherichia coli. Chin. Sci. Bull. 45:512-515
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  Gao, Z., Xue, Y. and Dai, J. (2000) Pathogenetic site of Bipolaris maydis-derived C toxin in maize. Chin. Sci. Bull. 45:622-626
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  Cui, H., Lai, Z. and Xue, Y. (2001) A rewarding fifteen years: From SLG to SCR/SP11. Acta Bot. Sin. 43:1-5
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  Ding, X., Lu, L. and Xue, Y. (2001) Cloning of ACC oxidase gene in fruit of Litchi chinesis Sonn. And its expression in E. coli. Acta Hort. (ISHS) 558:161-165
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  Cheng, Y., Pu, T., Xue, Y. and *Zhang, C. (2001) PcTGD, a highly expressed gene in stem, is related to water stress in reed (Phragmites communis Trin.). Chin. Sci. Bull. 46:850-854.
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  Gao, Z., Xue, Y. and Dai, J. (2001) cDNA-AFLP reveals that maize resistance to Biopolaris maydis is associated with the induction of multiple defense-related genes. Chin. Sci. Bull. 46:1454-1458
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  Chen, W., Tang, D., Suo, J., Zhang, Y., Xue, Y. (2001) Expressional profiling of genes related to pollination and fertilization in rice. C. R. Acad. Sci. Ser.III, 324:1111-1116.
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  Xue, G., Xue, Y., Xu, Z., Holmes, R., Hammond, G. L. and Lim, H. A. (eds.) (2001) Gene Families: Studies of DNA, RNA, Enzymes and Proteins., World Scientific
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  Xue, Y., Cui, H., Lai, Z., Ma, W., Liang, L., Yang, H., Zhang, Y. (2001) S-RNases and self and non-self pollen recognition in flowering plants. Pages 149-155 in G. Xue et al. (eds.) Gene families: Studies of DNA, RNA, Enzymes and Proteins, World Scientific
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  Wang, H., Huang, J., Lai, Z., Xue, Y. (2002) F-box proteins in flowering plants. Chin. Sci. Bull. 47:1497-1501
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  Xue, Y., Z. Xu (2002) An introduction to the China Rice Functional Genomics Program. Comp. Fun. Genom. 3:161-163
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  Xu, H., Weterings, K., Vriezen, W., Feron, R., Xue, Y., Derksen, J., Mariani, C. (2002) Isolation and characterization of male-germ-cell transcripts in Nicotiana tabacum. Sex. Plant Reprod. 14:339-346.
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  Lai, Z., Ma, W., Han, B., Liang, L., Zhang, Y., Hong, G., Xue, Y. (2002) An F-box gene linked to the self-incompatibility (S) locus of Antirrhinum is expressed specifically in pollen and tapetum. Plant Mol. Biol. 50:29-41
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  Zhao, Q., Zhang, Y., Cheng, Z., Chen, M., Wang, S., Feng, Q., Huang, Y., Li, Y., Tang, Y., Zhou,B., Chen, Z., Yu, S., Zhu,J., Hu, X., Mu,J., Ying, K., Hao, P., Zhang, L., Lu, Y., Zhang, L. S., Liu, Y., Yu, Z., Fan, D., Weng, Q., Chen, L., Lu, T., Liu, X., Jia, P., Sun, T., Wu, Y., Zhang, Y., Lu, Y., Li, C., Wang, R., Lei,H., Li, T., Hu, H., Wu, M., Zhang, R., Guan, J., Zhu, J., Fu, G., Gu, M., Hong, G., Xue, Y., Wing, R., Jiang, J., Han, B. (2002) A fine physical map of the rice chromosome 4. Genome Res. 12:817-823
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  Feng, Q., Zhang, Y., Hao, P., Wang, S., Fu, G., Huang, Y., Li, Y., Zhe, J., Liu, Y., Hu, X., Jia, P., Zhang, Y., Zhao, Q., Ying, K., Yu, S., Tnag, Y., Weng, Q., Zhang, L., Lu, Y., Mu, J., Lu, Y., Zhang L. S., Yu, Z., Fan, D., Liu, X., Lu, T., Li, C., Wu, Y., Sun, T., Lei, H., Li, T., Hu, H., Guan, J., Wu, M., Zhang, R., Zhou, B., Chen, Z., Chen, L., Jin, Z., Wang, R., Yin, H., Cai, Z., Ren, S., Lv, G., Gu, W., Zhu, G., Ti, Y., Jia, J., Zhang, Y., Chen, J., Kang, H., Chen, X., Shao, C., Sun, Y., Hu, Q., Zhang, X., Zhang, W., Wang, L., Ding, C., Sheng, H., Gu, J., Chen, S., Ni, L., Zhu, F., Chen, W., Lan, L., Lai, Y., Cheng, Z., Gu, M., Jiang, J., Li, J., Hong, G., Xue, Y., Han, B. (2002) Sequence and analysis of rice chromosome 4. Nature 420:316-320
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  Liang, L., Lai, Z., Ma, W., Zhang, Y. and Xue, Y. (2002) AhSL28, a senescence-and phosphosphate starvation-induced S-like RNase gene in Antirrhinum. BBA 1579:64-71
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  Han, B. and Xue, Y. (2003) Genome-wide intraspecific DNA-sequence variations in rice. Curr. Opin. Plant Biol. 6:134-138
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  Xue, Y., Li, J., Xu, Z. (2003) Recent highlights of the China Rice Functional Genomics Program. Trends Genet. 19:390-394
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  Pu, L., Suo, J., Xue, Y. (2003) Molecular control of plant trichome development. JGG 30:1078-1084 (in Chinese)
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  Duan, Y., Li, W., Wu, W., Pan, R., Zhou, Y., Qi, J., Lin, L., Chen, Z., Mao, D., Liu, H., Zhang, D., Xue, Y. (2003) Genetic analysis and mapping of gene Fzp(t) controlling spikelet differentiation in rice. Sci China (C) 46:328-334
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  Ma, W., Zhou, J., Lai, Z., Zhang, Y., Xue, Y. (2003) The self-incompatibility (S) locus resides in a pericentromeric region in Antirrhinum. Acta Bot. Sin. 45:47-52
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  Liang, L., Huang, J., Xue, Y. (2003) Identification and evolutionary analysis of a relic S-RNase in Antirrhinum. Sex. Plant Reprod. 16:17-22
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  Suo, J., Liang, X., Pu, L., Zhang, Y., Xue, Y. (2003) Identification of GhMYB109 encoding a R2R3 MYB transcription factor that expressed specifically in fiber initials and elongating fibers in cotton. BBA 1630:25-34
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  Duan, Y., Wu, W., Liu, H., Zhang, D., Zhou, Y., Pan, R., Lin, L., Chen, Z., Guan, H., Mao, D., Li, W., Xue, Y. (2003) Genetic analysis and gene mapping of leafy head (lhd), a mutant blocking the differentiation of rachis branches in rice (Oryza sativa L.). Chin. Sci. Bull. 48:2201-2205
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  Zhou, J., Wang, F., Ma, W., Zhang, Y., Han, B., Xue, Y. (2003) Structural and transcriptional analysis of S locus F-box (SLF) genes in Antirrhinum. Sex. Plant Reprod. 16:165-177
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  Chen, G., Ma, W., Huang, Z., Xu, T., Xue, Y., Shen, Y. (2003) Isolation and characterization of TaGSK1 involved in wheat salt tolerance. Plant Sci. 165:1369-1375
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  Wang, H., Ouyang, J., Xue, Y. (2004) A facile procedure for efficient plantlet regeneration from self-incompatible hybrids in Antirrhinum. Plant Cell Organ Tissue Cult. 76:61-65
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  Suo, J., Pu, L., Liang, X., Xue, Y. (2004) Identification of an endothelium-specific gene GhIAA16 in cotton (Gossypium hirsutum L.). Acta Bot. Sin. 46:472-479
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  Qiao, H., Wang, H., Zhao, L., Zhou, J., Huang, J., Zhang, Y., Xue, Y. (2004) The F-box protein AhSLF-S2 physically interacts with S-RNases that are inhibited by the ubiquitin/26S proteasome pathway of protein degradation during compatible pollination in Antirrhinum. Plant Cell 16:582-595
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  Zhang, Y., Huang, Y., Zhang, L., Li, Y., Lu, T., Lu, Y., Feng, Q., Zhang, Q., Cheng, Z., Xue, Y., Wing, R. A., Han, B. (2004) Structural features of the rice chromosome 4 centromere. Nucl Acids Res 32:2023-2030
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  Lan, L., Chen, W., Lai, Y., Suo, J., Kong, Z., Li, C., Lu, Y., Zhang, Y., Zhao, X., Zhang, X., Han, B., Cheng, J., Xue, Y. (2004) Monitoring of gene expression profiles and isolation of candidate genes involved in pollination and fertilization in rice (Oryza sativa L.) using a 10K cDNA microarray. Plant Mol Biol 54:471-487
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  Qiao, H., Wang, F., Zhao, L., Zhou, J., Lai, Z., Zhang, Y., Robbins, T., Y., Xue, Y. (2004) The F-box protein AhSLF-S2 controls the pollen function of S-RNase-based self-incompatibility. Plant Cell 16:2307-2322
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  Wang, H. and Xue, Y. (2005) Subcellular localization of the S-locus F-box protein AhSLF-S2 in pollen and pollen tubes of self-incompatible Antirrhinum. J. Integrative Plant Biol. 47:76-83
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  Jiao, Y., Jia, P., Wang, X., Su, N., Yu, S., Zhang, D., Ma, L., Feng, Q., Jin, Z., Li, L., Xue, Y., Cheng, Z., Zhao, H., Han, B., Deng, X. W. (2005) A tiling microarray expression analysis of rice chromosome 4 suggests a chromosomal level regulation of transcription. Plant Cell 17:1641-1657
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  Wang, Z., Liang, Y., Li, C., Xu, Y., Lan, L., Chen, C., Xu, Z., Xue, Y., Chong, K. (2005) Identification of anther development-related genes by gene expression profiling with a 10-K cDNA microarray in rice (Oryza sativa L.). Plant Mol Biol 58:721-737
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  Lan, L., Li, M., Lai, Y., Xu, W., Kong, Z., Ying, K., Han, B., Xue, Y. (2005) Microarray analysis reveals similarities and variations in genetic programs involved in pollination/fertilization and stress responses in rice (Oryza sativa L.). Plant Mol Biol 59:151-164
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  Huang, J., Zhao, L., Xue, Y. (2007) Molecular control of S-RNase-based self-incompatibility. Pages 63-67 in Z. Xu et al. (eds.) Biotechnology and sustainable agriculture 2006 and beyond, Springer
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  Han, B., Xue, Y., Li, J., Deng, X., Zhang, Q. (2007) Rice functional genomics research in China. Phil. Trans. R. Soc. B. 362:1009-1021
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  Dai, S., Chen, T., Chong, K., Xue, Y., Li, S., Wang, T. (2007) Proteomic identification of differentially expressed proteins associated with pollen germination and tube growth reveals characteristics of germinated Oryza sativa pollen. Mol. Cell. Proteomics 6:207-230
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  Dai, X., Xu. Y., Ma, Q., Xu, W., Wang, T., Xue, Y., Chong, K. (2007) Overexpression of a R1R2R3 MYB gene, OsMYB3R-2, increases tolerance to freezing, drought, and salt stress in transgenic Arabidopsis. Plant Physiol. 143:1739-1753
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  Kong, Z., Xu, W., Li, Q., Xue, Y. (2007) Identification, expression and functional analysis of a receptor-like cytoplasmic kinase, OsRLCK1, in rice (Oryza sativa L.). J. Integrative Plant Biol. 49:898-907
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  Yang, Q., Zhang, D., Li, Q., Cheng, Z., Xue, Y. (2007) Heterochromatic and genetic features are consistent with recombination suppression of the self-incompatibility (S)-locus in Antirrhinum. Plant J. 51:140-151
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  Li, M., Xu, W., Yang, W., Kong, Z., Xue, Y. (2007) Genome-wide gene expression profiling reveals conserved and novel molecular functions of the stigma in rice (Oryza sativa L.). Plant Physiol. 144:1797-1812
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  Liu, B., Chen, Z., Song, X., Liu, C., Zhao, X., Fang, J., Xu, W., Zhang, H., Wang,X., Chu, C., Deng, X. W., Xue, Y., Cao, X. (2007) Oryza sativa Dicer-like 4 reveals a key role for siRNA silencing in plant development. Plant Cell 19:2705-2718
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  Zhang, Y., Xue, Y. (2008) Molecular biology of S-RNase-based self-incompatibility. Pages 193-215 in Franklin-Tong, V. E. (ed.) Self-Incompatibility in Flowering Plants: Evolution, Diversity and Mechanisms, Springer-Verlag
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  Li, C., Zhao, J., Jiang, H., Geng, Y., Dai, Y., Fan, H., Zhang, D., Chen, J., Lu, F., Shi, J., Sun, S., Chen, J., Yang, X., Lu, C., Chen, C., Cheng, Z., Ling, H., Wang, Y., Xue, Y., Li, C. (2008) A snapshot of the Chinese SOL Project. JGG 35: 387-390
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  Zhang, Q., Li, J., Xue, Y., Han, B., Deng, X. (2008) Rice 2020: A call for an international coordinated effort in rice functional genomics. Mol Plant 1:715-719
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  Liu, F., Xu, W., Tan, L., Xue, Y., Sun, C., Su, Z. (2008) Case study for identification of indel-caused alternative expression isoforms in rice subspecies japonica and indica by integrative genome analysis. Genomics 91:186-194
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  Zhang, D., Yang, Q., Ding, Y., Cao, X., Xue, Y., Cheng, Z. (2008) Cytological characterization of the tandem repetitive sequences and their methylation status in Antirrhinum majus genome. Genomics 92:107-114
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  Yang, W., Lai, Y., Li, M., Xu, W., Xue, Y. (2008) A novel C2-domain phospholipid binding protein, OsPBP1, is required for pollen fertility in rice. Mol Plant 1:770-785
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