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2014

Original Research Articles

  1. Zhu, Xiaoquan#, Wang, Fengchao#, Zhao, Yanyang, Yang, Peng, Chen, Jun, Sun, Hanzi, Liu, Lei, Li, Wenjun, Pan, Lin, Guo, Yanru, Kou, Zhaohui, Zhang, Yu, Zhou, Cheng, He, Jiang, Zhang, Xue, Li, Jianxin, Han, Weitian, Li, Jian, Liu, Guanghui, Gao, Shaorong* & Yang, Ze*. A gain-of-function mutation in Tnni2 impeded bone development through increasing Hif3a expression in DA2B mice. PLoS Genet 10, e1004589, doi:10.1371/journal.pgen.1004589 (2014).


  2. Zhou, Yu, Wu, Chao, Zhao, Lifeng & Huang, Niu*. Exploring the early stages of the pH-induced conformational change of influenza hemagglutinin. Proteins, 82, 2412-2428, doi:10.1002/prot.24606 (2014).


  3. Zhou, Wei-Zhen, Ye, Adam Yongxin, Sun, Zhong-Kai, Tian, Hope Huiping, Pu, Tad Zhengzhang, Wu, Yu-Yu, Wang, Dan-Dan, Zhao, Ming-Zhen, Lu, Shu-Juan, Yang, Chang-Hong & Wei, Liping*. Statistical analysis of twenty years (1993 to 2012) of data from mainland China's first intervention center for children with autism spectrum disorder. Mol Autism 5, 52, doi:10.1186/2040-2392-5-52 (2014).


  4. Zheng, Sanduo & Ye, Keqiong*. Purification, crystallization and preliminary X-ray diffraction analysis of Imp3 in complex with an Mpp10 peptide involved in yeast ribosome biogenesis. Acta Crystallogr F Struct Biol Commun 70, 918-921, doi:10.1107/S2053230X14010905 (2014).


  5. Zheng, Sanduo, Villa, Raffaella, Wang, Jia, Feng, Yingang, Wang, Jinfeng, Becker, Peter B & Ye, Keqiong*. Structural basis of X chromosome DNA recognition by the MSL2 CXC domain during Drosophila dosage compensation. Genes Dev 28, 2652-2662, doi:10.1101/gad.250936.114 (2014).


  6. Zheng, Sanduo, Lan, Pengfei, Liu, Ximing & Ye, Keqiong*. Interaction between ribosome assembly factors Krr1 and Faf1 is essential for formation of small ribosomal subunit in yeast. J Biol Chem 289, 22692-22703, doi:10.1074/jbc.M114.584490 (2014).


  7. Zhang, Jia-Min, Liu, Xiao-Man, Ding, Yue-He, Xiong, Liang-Yao, Ren, Jing-Yi, Zhou, Zhi-Xiong, Wang, Hai-Tao, Zhang, Mei-Jun, Yu, Yang, Dong, Meng-Qiu & Du, Li-Lin*. Fission yeast Pxd1 promotes proper DNA repair by activating Rad16XPF and inhibiting Dna2. PLoS Biol 12, e1001946, doi:10.1371/journal.pbio.1001946 (2014).


  8. Zhang, Jing, Wu, Jinbao, Hong, Benke, Ai, Wenying, Wang, Xiaoming, Li, Houhua & Lei, Xiaoguang. Diversity-oriented synthesis of Lycopodium alkaloids inspired by the hidden functional group pairing pattern. Nat Commun 5, 4614, doi:10.1038/ncomms5614 (2014).


  9. Zhang, Cheng, Lin, Jinzhong, Liu, Weixiao, Chen, Xining, Chen, Rongchang & Ye, Keqiong*. Structure of Utp21 tandem WD domain provides insight into the organization of the UTPB complex involved in ribosome synthesis. PLoS One 9, e86540, doi:10.1371/journal.pone.0086540 (2014).


  10. Yao, Qing#, Zhang, Li#, Wan, Xiaobo, Chen, Jing, Hu, Liyan, Ding, Xiaojun, Li, Lin, Karar, Jayashree, Peng, Hongzhuang, Chen, She, Huang, Niu, Rauscher, Frank J 3rd & Shao, Feng*. Structure and specificity of the bacterial cysteine methyltransferase effector NleE suggests a novel substrate in human DNA repair pathway. PLoS Pathog 10, e1004522, doi:10.1371/journal.ppat.1004522 (2014).


  11. Yao, Qing, Lu, Qiuhe, Wan, Xiaobo, Song, Feng, Xu, Yue, Hu, Mo, Zamyatina, Alla, Liu, Xiaoyun, Huang, Niu, Zhu, Ping* & Shao, Feng*. A structural mechanism for bacterial autotransporter glycosylation by a dodecameric heptosyltransferase family. Elife 3, doi:10.7554/eLife.03714 (2014).


  12. Yang, Xiaoling#, Gao, Hua#, Zhang, Jie, Xu, Xiaojing, Liu, Xiaoyan, Wu, Xiru, Wei, Liping* & Zhang, Yuehua*. ATP1A3 mutations and genotype-phenotype correlation of alternating hemiplegia of childhood in Chinese patients. PLoS One 9, e97274, doi:10.1371/journal.pone.0097274 (2014).


  13. Yang, JieLing, Xu, Hao & Shao, Feng*. Immunological function of familial Mediterranean fever disease protein Pyrin. Sci China Life Sci 57, 1156-1161, doi:10.1007/s11427-014-4758-3 (2014).


  14. Yan, Huan, Peng, Bo, Liu, Yang, Xu, Guangwei, He, Wenhui, Ren, Bijie, Jing, Zhiyi, Sui, Jianhua & Li, Wenhui*. Viral entry of hepatitis B and D viruses and bile salts transportation share common molecular determinants on sodium taurocholate cotransporting polypeptide. J Virol 88, 3273-3284, doi:10.1128/JVI.03478-13 (2014).


  15. Xu, Hao, Yang, Jieling, Gao, Wenqing, Li, Lin, Li, Peng, Zhang, Li, Gong, Yi-Nan, Peng, Xiaolan, Xi, Jianzhong Jeff, Chen, She, Wang, Fengchao & Shao, Feng*. Innate immune sensing of bacterial modifications of Rho GTPases by the Pyrin inflammasome. Nature 513, 237-241, doi:10.1038/nature13449 (2014).


  16. Wu, Yanwei, Cheng, Shiya, Zhao, Hongyu, Zou, Wei, Yoshina, Sawako, Mitani, Shohei, Zhang, Hong & Wang, Xiaochen*. PI3P phosphatase activity is required for autophagosome maturation and autolysosome formation. EMBO Rep 15, 973-981, doi:10.15252/embr.201438618 (2014).


  17. Wu, Kai, Liu, Jia, Zhuang, Na & Wang, Tao*. UCP4A protects against mitochondrial dysfunction and degeneration in pink1/parkin models of Parkinson's disease. FASEB J 28, 5111-5121, doi:10.1096/fj.14-255802 (2014).


  18. Wei, Yi, Wang, Hai-Tao, Zhai, Yonggong, Russell, Paul* & Du, Li-Lin*. Mdb1, a fission yeast homolog of human MDC1, modulates DNA damage response and mitotic spindle function. PLoS One 9, e97028, doi:10.1371/journal.pone.0097028 (2014).


  19. Wang, Huayi, Sun, Liming, Su, Lijing, Rizo, Josep, Liu, Lei, Wang, Li-Feng, Wang, Fu-Sheng & Wang, Xiaodong*. Mixed lineage kinase domain-like protein MLKL causes necrotic membrane disruption upon phosphorylation by RIP3. Mol Cell 54, 133-146, doi:10.1016/j.molcel.2014.03.003 (2014).


  20. Wang, Chenhui, Guo, Xingting & Xi, Rongwen*. EGFR and Notch signaling respectively regulate proliferative activity and multiple cell lineage differentiation of Drosophila gastric stem cells. Cell Res 24, 610-627, doi:10.1038/cr.2014.27 (2014).


  21. Sun, Yinyan, Qi, Yonghe, Liu, Chenxuan, Gao, Wenqing, Chen, Pan, Fu, Liran, Peng, Bo, Wang, Haimin, Jing, Zhiyi, Zhong, Guocai & Li, Wenhui*. Nonmuscle myosin heavy chain IIA is a critical factor contributing to the efficiency of early infection of severe fever with thrombocytopenia syndrome virus. J Virol 88, 237-248, doi:10.1128/JVI.02141-13 (2014).


  22. Sun, Hanzi, Zhao, Lifeng, Peng, Shiming & Huang, Niu*. Incorporating replacement free energy of binding-site waters in molecular docking. Proteins 82, 1765-1776, doi:10.1002/prot.24530 (2014).


  23. Shi, Jianjin, Zhao, Yue, Wang, Yupeng, Gao, Wenqing, Ding, Jingjin, Li, Peng, Hu, Liyan & Shao, Feng*. Inflammatory caspases are innate immune receptors for intracellular LPS. Nature 514, 187-192, doi:10.1038/nature13683 (2014).


  24. Shen, En-Zhi, Song, Chun-Qing, Lin, Yuan, Zhang, Wen-Hong, Su, Pei-Fang, Liu, Wen-Yuan, Zhang, Pan, Xu, Jiejia, Lin, Na, Zhan, Cheng, Wang, Xianhua, Shyr, Yu, Cheng, Heping* & Dong, Meng-Qiu*. Mitoflash frequency in early adulthood predicts lifespan in Caenorhabditis elegans. Nature 508, 128-132, doi:10.1038/nature13012 (2014).


  25. Pan, Man, Li, Shan, Li, Xiang, Shao, Feng*, Liu, Lei* & Hu, Hong-Gang*. Synthesis of and specific antibody generation for glycopeptides with arginine N-GlcNAcylation. Angew Chem Int Ed Engl 53, 14517-14521, doi:10.1002/anie.201407824 (2014).


  26. Mao, Zhuo, Pan, Lu, Wang, Weixiang, Sun, Jian, Shan, Shan, Dong, Qiang, Liang, Xiaoping, Dai, Linchang, Ding, Xiaojun, Chen, She, Zhang, Zhuqiang*, Zhu, Bing* & Zhou, Zheng*. Anp32e, a higher eukaryotic histone chaperone directs preferential recognition for H2A.Z. Cell Res 24, 389-399, doi:10.1038/cr.2014.30 (2014).


  27. Lu, Qiuhe, Yao, Qing, Xu, Yue, Li, Lin, Li, Shan, Liu, Yanhua, Gao, Wenqing, Niu, Miao, Sharon, Michal, Ben-Nissan, Gili, Zamyatina, Alla, Liu, Xiaoyun, Chen, She & Shao, Feng*. An iron-containing dodecameric heptosyltransferase family modifies bacterial autotransporters in pathogenesis. Cell Host Microbe 16, 351-363, doi:10.1016/j.chom.2014.08.008 (2014).


  28. Liu, Zhang-Wei, Shao, Chang-Rong, Zhang, Cui-Jun, Zhou, Jin-Xing, Zhang, Su-Wei, Li, Lin, Chen, She, Huang, Huan-Wei, Cai, Tao & He, Xin-Jian*. The SET domain proteins SUVH2 and SUVH9 are required for Pol V occupancy at RNA-directed DNA methylation loci. PLoS Genet 10, e1003948, doi:10.1371/journal.pgen.1003948 (2014).


  29. Liu, Z., Zhou, J., Li, Y., Hu, F., Lu, Y., Ma, M., Feng, Q., Zhang, J. E., Wang, D., Zeng, J., Bao, J., Kim, J. Y., Chen, Z. F., El Mestikawy, S. & Luo, M. Dorsal raphe neurons signal reward through 5-HT and glutamate. Neuron 81, 1360-1374, doi:10.1016/j.neuron.2014.02.010 (2014).


  30. Liu, Y., Cheng, H., Gao, S., Lu, X., He, F., Hu, L., Hou, D., Zou, Z., Li, Y., Zhang, H., Xu, J., Kang, L., Wang, Q., Yuan, W., Gao, Shaorong* & Cheng, Ting*. Reprogramming of MLL-AF9 leukemia cells into pluripotent stem cells. Leukemia 28, 1071-1080, doi:10.1038/leu.2013.304 (2014).


  31. Liu, Wenqiang, Yin, Jiqing, Kou, Xiaochen, Jiang, Yonghua, Gao, Haibo, Zhao, Yanhong, Huang, Bo, He, Wenteng, Wang, Hong, Han, Zhiming & Gao, Shaorong*. Asymmetric reprogramming capacity of parental pronuclei in mouse zygotes. Cell Rep 6, 1008-1016, doi:10.1016/j.celrep.2014.02.018 (2014).


  32. Liu, Chao, Song, Chun-Qing, Yuan, Zuo-Fei, Fu, Yan, Chi, Hao, Wang, Le-Heng, Fan, Sheng-Bo, Zhang, Kun, Zeng, Wen-Feng, He, Si-Min, Dong, Meng-Qiu* & Sun, Rui-Xiang*. pQuant improves quantitation by keeping out interfering signals and evaluating the accuracy of calculated ratios. Anal Chem 86, 5286-5294, doi:10.1021/ac404246w (2014).


  33. Li, Jun, Yu, Yang, Suo, Fang, Sun, Ling-Ling, Zhao, Dan & Du, Li-Lin*. Genome-wide screens for sensitivity to ionizing radiation identify the fission yeast nonhomologous end joining factor Xrc4. G3 (Bethesda) 4, 1297-1306, doi:10.1534/g3.114.011841 (2014).


  34. Li, Jun & Du, Li-Lin*. piggyBac transposon-based insertional mutagenesis for the fission yeast Schizosaccharomyces pombe. Methods Mol Biol 1163, 213-222, doi:10.1007/978-1-4939-0799-1_16 (2014).


  35. Li, Chao*, Xu, Jiang, Li, Jian, Li, Qingyun & Yang, Hongchun. Involvement of Arabidopsis HAC family genes in pleiotropic developmental processes. Plant Signal Behav 9, e28173, doi:10.4161/psb.28173 (2014).


  36. Li, Chao & Lei, Xiaoguang*. Strategies toward the biomimetic syntheses of oligomeric sesquiterpenoids. J Org Chem 79, 3289-3295, doi:10.1021/jo5002092 (2014).


  37. Le, Rongrong, Kou, Zhaohui, Jiang, Yonghua, Li, Ming, Huang, Bo, Liu, Wenqiang, Li, Hui, Kou, Xiaochen, He, Wanzhong, Rudolph, Karl Lenhard, Ju, Zhenyu* & Gao, Shaorong*. Enhanced telomere rejuvenation in pluripotent cells reprogrammed via nuclear transfer relative to induced pluripotent stem cells. Cell Stem Cell 14, 27-39, doi:10.1016/j.stem.2013.11.005 (2014).


  38. Jiang, Xian, Jiang, Hui, Shen, Zhirong & Wang, Xiaodong*. Activation of mitochondrial protease OMA1 by Bax and Bak promotes cytochrome c release during apoptosis. Proc Natl Acad Sci U S A 111, 14782-14787, doi:10.1073/pnas.1417253111 (2014).


  39. Huang, Chang & Zhu, Bing*. H3.3 turnover: a mechanism to poise chromatin for transcription, or a response to open chromatin? Bioessays 36, 579-584, doi:10.1002/bies.201400005 (2014).


  40. Huang, August Y, Xu, Xiaojing, Ye, Adam Y, Wu, Qixi, Yan, Linlin, Zhao, Boxun, Yang, Xiaoxu, He, Yao, Wang, Sheng, Zhang, Zheng, Gu, Bowen, Zhao, Han-Qing, Wang, Meng, Gao, Hua, Gao, Ge, Zhang, Zhichao, Yang, Xiaoling, Wu, Xiru, Zhang, Yuehua* & Wei, Liping*. Postzygotic single-nucleotide mosaicisms in whole-genome sequences of clinically unremarkable individuals. Cell Res 24, 1311-1327, doi:10.1038/cr.2014.131 (2014).


  41. He, Xin-Jian*, Ma, Ze-Yang & Liu, Zhang-Wei. Non-coding RNA transcription and RNA-directed DNA methylation in Arabidopsis. Mol Plant 7, 1406-1414, doi:10.1093/mp/ssu075 (2014).


  42. Han, Yong-Feng, Dou, Kun, Ma, Ze-Yang, Zhang, Su-Wei, Huang, Huan-Wei, Li, Lin, Cai, Tao, Chen, She, Zhu, Jian-Kang & He, Xin-Jian*. SUVR2 is involved in transcriptional gene silencing by associating with SNF2-related chromatin-remodeling proteins in Arabidopsis. Cell Res 24, 1445-1465, doi:10.1038/cr.2014.156 (2014).


  43. Gao, Shuai, Chang, Gang, Tian, Jianhui, Gao, Shaorong & Cai, Tao*. Identification of the new gene Zrsr1 to associate with the pluripotency state in induced pluripotent stem cells (iPSCs) using high throughput sequencing technology. Genom Data 2, 73-77, doi:10.1016/j.gdata.2014.04.008 (2014).


  44. Duan, Jinzhi, Lu, Guangqing, Xie, Zhan, Lou, Mingliang, Luo, Jiao, Guo, Lei & Zhang, Yu*. Genome-wide identification of CRISPR/Cas9 off-targets in human genome. Cell Res 24, 1009-1012, doi:10.1038/cr.2014.87 (2014).


  45. Ding, Yang, Wang, Meng, He, Yao, Ye, Adam Yongxin, Yang, Xiaoxu, Liu, Fenglin, Meng, Yuqi, Gao, Ge* & Wei, Liping*. "Bioinformatics: introduction and methods," a bilingual Massive Open Online Course (MOOC) as a new example for global bioinformatics education. PLoS Comput Biol 10, e1003955, doi:10.1371/journal.pcbi.1003955 (2014).


  46. Ding, Xiao#, Yang, Yuan#, Han, Baoda#, Du, Chengzhi, Xu, Naiqing, Huang, Huanwei, Cai, Tao, Zhang, Aiqun, Han, Ze-Guang, Zhou, Weiping* & Chen, Liang*. Transcriptomic characterization of hepatocellular carcinoma with CTNNB1 mutation. PLoS One 9, e95307, doi:10.1371/journal.pone.0095307 (2014).


  47. Ding, JingJin, Luo, Andrew F, Hu, LiYan, Wang, DaCheng* & Shao, Feng*. Structural basis of the ultrasensitive calcium indicator GCaMP6. Sci China Life Sci 57, 269-274, doi:10.1007/s11427-013-4599-5 (2014).


  48. Coffman, Kimberly, Yang, Bing, Lu, Jie, Tetlow, Ashley L, Pelliccio, Emelia, Lu, Shan, Guo, Da-Chuan, Tang, Chun, Dong, Meng-Qiu* & Tamanoi, Fuyuhiko*. Characterization of the Raptor/4E-BP1 interaction by chemical cross-linking coupled with mass spectrometry analysis. J Biol Chem 289, 4723-4734, doi:10.1074/jbc.M113.482067 (2014).


  49. Cheng, Heping*, Wang, Wang, Wang, Xianhua, Sheu, Shey-Shing, Dirksen, Robert T & Dong, Meng-Qiu*. Cheng et al. reply. Nature 514, E14-15, doi:10.1038/nature13859 (2014).


  50. Chang, Gang, Gao, Shuai, Hou, Xinfeng, Xu, Zijian, Liu, Yanfeng, Kang, Lan, Tao, Yu, Liu, Wenqiang, Huang, Bo, Kou, Xiaochen, Chen, Jiayu, An, Lei, Miao, Kai, Di, Keqian, Wang, Zhilong, Tan, Kun, Cheng, Tao, Cai, Tao, Gao, Shaorong* & Tian, Jianhui*. High-throughput sequencing reveals the disruption of methylation of imprinted gene in induced pluripotent stem cells. Cell Res 24, 293-306, doi:10.1038/cr.2013.173 (2014).


  51. Cao, Ran, Huang, Niu & Wang, Yanli*. Evaluation and application of MD-PB/SA in structure-based hierarchical virtual screening. J Chem Inf Model 54, 1987-1996, doi:10.1021/ci5003203 (2014).


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