2008Publications

No.

Paper Information

1.

Han P, Li Q, Zhu YX (2008) Mutation of Arabidopsis BARD1 causes meristem defects by failing to confine WUSCHEL expression to the organizing center. Plant Cell, 20: 1482-1493.

2.

Liu JJ, Zhang YY, Qin GJ, Tsuge T, Sakaguchi N, Luo G, Sun KT, Shi DQ, Aki S, Zheng NY, Aoyama T, Oka A, Yang WC, Umeda M, Xie Q, Gu HY, Qu LJ (2008) Targeted degradation of the cyclin-dependent kinase inhibitor ICK4/KRP6 by RING-type E3 ligases is essential for mitotic cell cycle progression during Arabidopsis gametogenesis. Plant Cell, 20: 1538-1554.

3.

Jiang J, Zhang X, Chen Y, Wu Y, Zhou ZH, Chang Z, Sui SF (2008) Activation of DegP chaperone-protease via formation of large cage-like oligomers upon binding to substrate proteins. Proc Natl Acad Sci U S A, 105:11939-11944.

4.

Liu Y, He J, Wang Q, Ji S, Pu H, Jiang T, Meng L, Yang X, Ji J G (2008) Comparative studies of early liver dysfunction in senescence-accelerated mouse using mitochondrial proteomics approaches. Mol Cell Proteomics, 7: 1737-1747.

5.

Li JT, Zhang Y, Kong L, Liu QR, Wei LP (2008) Trans-natural antisense transcripts including noncoding RNAs in 10 species: implications for expression regulation. Nucleic Acids Research, 36: 4833-4844.

6.

Guo AY, Chen X, Gao G, Zhang H, Zhu QH, Liu XC, Zhong YF, Gu XC, He K, Luo JC (2008) PlantTFDB: a comprehensive plant transcription factor database. Nucleic Acids Research, 36: D966-D969.

7.

Kong L, Zhang Y, Ye ZQ, Liu XQ, Zhao SQ, Wei L, Gao G (2008) CPC: assess the protein-coding potential of transcripts using sequence features and support vector machine. Nucleic Acids Research, 35: W345-W349.

8.

Li CY, Mao XZ, Wei LP (2008) Genes and (Common) pathways underlying drug addiction. Plos Computational Biology, 4: e2.

9.

Wei LP, Yu J (2008) Bioinformatics in China: A personal perspective. Plos Computational Biology, 4: e1000020.

10.

Wang J, Wu S, Jin X, Li MT, Chen SY, Teeling JL, Perry VH, Gu J (2008) Retinoic acid-inducible gene-I mediates late phase induction of TNF-alpha by lipopolysaccharide. Journal of Immunology, 180: 8011-8019.

11.

Zhao YM, Zhang JF, Li, HY, Li YY, Ren J, Luo M, Zheng XF (2008) An NADPH sensor protein (HSCARG) down-regulates nitric oxide synthesis by association with argininosuccinate synthetase and is essential for epithelial cell viability. Journal of Biological Chemistry, 283: 11004-11013.

12.

Liu C, Mao K, Zhang M, Sun ZG, Hong WZ, Li CY, Peng B, Chang ZY (2008) The SH3-like domain switches its interaction partners to modulate the repression activity of mycobacterial iron-dependent transcription regulator in response to metal ion fluctuations. Journal of Biological Chemistry, 283: 2439-2453.

13.

Li LC, Qin GJ, Tsuge T, Hou XH, Ding MY, Aoyama T, Oka A, Chen ZL, Gu HY, Zhao YD, Qu LJ (2008) SPOROCYTELESS modulates YUCCA expression to regulate the development of lateral organs in Arabidopsis. New Phytologist, 179: 751-764.

14.

Fu J, Meng X, He J, Gu J (2008) Inhibition of Inflammation by a p38 MAP Kinase Targeted Cell Permeable Peptide. J Med Chem, 4: 597-604.

15.

Yu DH, Hu XD, Cai H (2008) Efficient tuberculosis treatment in mice using chemotherapy and immunotherapy with the combined DNA vaccine encoding Ag85B, MPT-64 and MPT-83. Gene Therapy, 15: 652-659.

16.

Liu C, Li D, Liang YH, Li LF, Su XD (2008) Ring-opening mechanism revealed by crystal structures of NagB and its ES intermediate complex. Journal of Molecular Biology, 379: 73-81.

17.

Zhou YF, Nan BY, Nan J, Ma QJ, Panjikar S, Liang YH, Wang YP, Su XD (2008) C-4-Dicarboxylates Sensing Mechanism Revealed by the Crystal Structures of DctB Sensor Domain. Journal of Molecular Biology, 383; 49-61.

18.

Lei J, Li LF, Su XD (2008) Crystal Structures of Phosphotransferase System Enzymes PtxB (IIB(Asc)) and PtxA (IIA(Asc)) from Streptococcus mutans.J Mol Biol. 2008 , online.

19.

Wu Y, Hong W, Zhang L, Chang Z (2008) Conserved Amphiphilic Feature Is Essential for Periplasmic Chaperone HdeA to Support Acid Resistance in Enteric Bacteria. Biochem. J, 412:389-397.

20.

Jiao WW, Hong WZ, Li PL, Sun SH, Ma J, Qian MD, Hu MD, Chang ZY (2008) The dramatically increased chaperone activity of small heat-shock protein IbpB is retained for an extended period of time after the stress condition is removed. Biochemical Journal, 410: 63-70.

21.

He XC, Qin YM, Xu Y, Hu CY, and Y Zhu YX (2008) Molecular cloning, expression profiling, and yeast complementation of 19 beta-tubulin cDNAs from developing cotton ovules. Journal of Experimental Botany, 59: 2687-2695.

22.

Li X, Qin GJ, Chen ZL, Gu HY, Qu LJ (2008) A gain-of-function mutation of transcriptional factor PTL results in curly leaves, dwarfism and male sterility by affecting auxin homeostasis. Plant Molecular Biology, 66: 315-327.

23.

Zhang XM , Du P, Lu L, Xiao Q, Wang WJ, Cao XS, Ren B, Wei CH, Li Y (2008) Contrasting effects of HC-Pro and 2b viral suppressors from Sugarcane mosaic virus and Tomato aspermy cucumovirus on the accumulation of siRNAs. Virology, 374:351-360.

24.

Li D, Liu C, Liang YH, Li LF, Su XD (2008) Crystal structure of B-subtilis YjcG characterizing the YjcG-like group of 2H phosphoesterase superfamily. Proteins-Structure Function and Bioinformatics, 72: 1071-1076.

25.

Mi W, Liang YH, Li LF, Su XD (2008) The crystal structure of human chloride intracellular channel protein 2: A disulfide bond with functional implications. Proteins-Structure Function and Bioinformatics, 71: 509-513.

26.

Yang N, Nan J, Brostromer E, Hatti-Kaul R, Su XD (2008) Crystal structure of an alkaline serine protease from Nesterenkonia sp. defines a novel family of secreted bacterial proteases. Proteins, 73:1072-1075.

27.

Wang J, Liu X, Liang YH, Li LF, Su XD (2008) Acceptor substrate binding revealed by crystal structure of human glucosamine-6-phosphate N-acetyltransferase 1. Febs Letters, 528: 2973-2978.

28.

Xie XL, Li SA, Liu SY, Lu Y, Shen PP, Ji JG (2008) Proteomic analysis of mouse islets after multiple low-dose streptozotocin injection. Biochimica ET Biophysica ACTA-Proteins and Proteomics, 1784: 276-284.

29.

Duan QH, Wanhg DH, Xu ZH, Bai SN (2008) Stamen development in Arabidopsis is arrested by organ-specific overexpression of a cucumber ethylene synthesis gene CsACO2. Planta, 228: 537-543.

30.

Qin YM, Hu CY, Zhu YX (2008) The ascorbate peroxidase regulated by H2O2 and ethylene is involved in cotton fiber cell elongation by modulating ROS homeostasis. Plant Signaling & Behavior, 3: 194-196.

31.

Xu L, Wang Y, Wang LJ, Gao Y, An CC (2008) TYchi, a novel chitinase with RNA N-glycosidase and anti-tumor activities. Frontiers in Bioscience, 13: 3127-3135.

32.

Guo AY, Zhu QH, Gu XC, Ge S, Yang J, Luo JC (2008) Genome-wide identification and evolutionary analysis of the plant specific SBP-box transcription factor family. Gene, 418: 1-8.

33.

Mi W, Li LF, Su XD (2008) 5,5 '-Dithio-bis(2-nitrobenzoic acid) modification of cysteine improves the crystal quality of human chloride intracellular channel protein 2. Biochemical and Biophysical Research Communications, 368: 919-922.

34.

Chen B, Lian M, Xu SL, Luo M, Zheng XF (2008) A chemical lipid modification of recombinant preS antigen to study the mechanism of HBV attachment to the host cell. Journal of Biotechnology, 137: 8-13.

35.

Liu XY, Kong SL, Shi M, Fu LW, Gao Y, An CC (2008) Genomic Analysis of Freshwater Cyanophage Pf-WMP3 Infecting Cyanobacterium Phormidium foveolarum: The Conserved Elements for a Phage. Microbial Ecology, 56: 671-680.

36.

Li LC, Hou XH, Tsugeh T, Ding MY, Aoyama T, Oka A, Gu HY, Zhao YD, Qu LJ (2008) The possible action mechanisms of indole-3-acetic acid methyl ester in Arabidopsis. Plant Cell Reports, 27: 575-584.

37.

Wang Z, Cao GG, Wang XL, Miao J, Liu XT, Chen ZL, Qu LJ, Gu HG (2008) Identification and characterization of COI1-dependent transcription factor genes involved in JA-mediated response to wounding in Arabidopsis plants. Plant Cell Reports, 27: 125-135.

38.

Li M, Yu DH, Cai H (2008) The synthetic antimicrobial peptide KLKL5KLK enhances the protection and efficacy of the combined DNA vaccine against Mycobacterium tuberculosis. DNA and Cell Biology, 27: 405-413.

39.

Wang QS, Liu YS, Zou X, Wang Q, An MR, Guan X, He JT, Tong YP, Ji JG (2008) The hippocampal proteomic analysis of senescence-accelerated mouse: Implications of Uchl3 and mitofilin in cognitive disorder and mitochondria dysfunction in SAMP8. Neurochemical Research, 33: 1776-1782.

40.

Lian M, Zhou X, Chen B, Li C, Gu XC, Luo M, Zheng XF (2008) Identification of the critical regions in hepatitis B virus preS required for its stability. Journal of Peptide Science, 14: 307-312

41.

Meng G, Zhai RT, Liu B, Zheng XF (2008) Identification of a novel nuclear-localized adenylate kinase from Drosophila melanogaster. Biochemistry-Moscow, 73: 38-43.

42.

Yang XH, Sun C, Hu YL, Lin ZP (2008) Molecular cloning and characterization of a gene encoding RING zinc finger ankyrin protein from drought-tolerant Artemisia desertorum. Journal of Biosciences, 33: 103-112.

43.

Dong CX, Zhao JD (2008) ApcD is required for state transition but not involved in blue-light induced quenching in the cyanobacterium Anabaena sp PCC7120. Chinese Science Bulletin, 53: 3422-3424.

44.

He F, Kang JQ, Zhou X, Su Z, Qu LJ, Gu HY (2008) Variation at the transcriptional level among Chinese natural populations of Arabidopsis thaliana in response to cold stress. Chinese Science Bulletin, 53: 2989-2999.

45.

Zhu ZQ, Guo HW (2008) Genetic basis of ethylene perception and signal transduction in Arabidopsis. Journal of Integrative Plant Biology, 50: 808-815.

46.

Qiao WH, Fan LM (2008) Nitric oxide signaling in plant responses to abiotic stresses. Journal of Integrative Plant Biology, 50: 1238-1246.

47.

Zhou YF, Li LF, Yang C, Liang YH, Su XD (2008) Preliminary X-ray crystallographic analysis of SMU.573, a putative sugar kinase from Streptococcus mutans. Acta Crystallographica Section F-Structural Biology and Crystallization Communications, 64: 47-49.

48.

Liu J, Qu LJ (2008) Meiotic and mitotic cell cycle mutants involved in gametophyte development in Arabidopsis. Molecular Plant, 1: 564-574.

49.

Feng S, Martinez C, Gusmaroli G, Wang Y, Zhou J, Wang F, Chen L, Yu L, Iglesias-Pedraz JM, Kircher S, Schäfer E, Fu X, Fan LM, Deng XW (2008) Coordinated regulation of Arabidopsis thaliana development by light and gibberellins. Nature, 451: 475-479.

50.

Li CY, Liu QR, Zhang PW, Li XM, Wei L, George R Uhl (2008) OKCAM: An Ontology-based, Human-centered Knowledgebase for Cell Adhesion Molecules. Nucleic Acid Research, 37: D251-D260.

51.

Fan LM, Zhang W, Chen JG, Taylor JP, Jones AM, Assmann SM. (2008) Abscisic acid regulation of guard-cell K+ and anion channels in Gβ and RGS–deficient Arabidopsis lines. Proc Natl Acad Sci USA,, 105: 8476-8481.

52.

Li H, Wong W, Zhu L, Guo H, Ecker JR, Li N (2008) Phosphoproteomic analysis of ethylene-regulated protein phosphorylation in etiolated seedlings of Arabidopsis mutant ein2 using two-dimensional separations coupled with a hybrid quadrupole time-of-flight mass spectrometer. Proteomics, 9: 1646-1661

53.

You C, Sekowska A, Francetic O, Martin-Verstraete I, Wang YP, Danchin A. (2008) Spx mediates oxidative stress regulation of the methionine sulfoxide reductases operon in Bacillus subtilis. BMC Microbiol, 8: 128.

54.

Ryan, RP, Ryan DJ, Sun YC, Li FM, Wang YP, Dowling DN (2007) An acquired efflux system is responsible for copper resistance in Xanthomonas strain IG-8 isolated from China. FEMS Microbiol. Lett. 268: 40-46.

55.

Wu CW, Li LF, Liu X, Gao XZ, Lei J, Su XD, Zhao X, Liang YH (2008) Protein Preparation, Crystallization and Preliminary X-Ray Crystallographic Analysis of N-Acetylglutamate Kinase from Streptococcus mutans. Protein Pept Lett, 15: 541-543.

56.

Gong W, He K, Covington M, Dinesh-Kumar SP, Snyder M, Harmer SL, Zhu YX, Deng XW (2008) The development of protein microarrays and their applications in DNA-protein and protein-protein interaction analyses of Arabidopsis transcription factors. Molecular Plant, 1: 27-41.

57.

Yan Y, Yang J, Dou Y, Chen M, Ping S, Peng J, Lu W, Zhang W, Yao Z, Li H, Liu W, He S, Geng L, Zhang X, Yang F, Yu H, Zhan Y, Li D, Lin Z, Wang YP, Elmerich C, Lin M, Jin Q (2008) Nitrogen fixation island and rhizosphere competence traits in the genome of root-associated Pseudomonas stutzeri A1501. Proc Natl Acad Sci USA, 105: 7564-7569.

58.

Xie Z, Li X, Glover BJ, Bai S, Rao GY, Luo J, Yang J (2008) Duplication and functional diversification of HAP3 genes leading to the origin of the seed-developmental regulatory gene, LEAFY COTYLEDON1 (LEC1), in nonseed plant genomes. Mol Biol Evol, 25:1581-1592.

59.

Xu Z, Kohel RJ, Song G, Cho J, Alabady M, Yu J, Koo P, Chu J, Yu S, Wilkins TA, Zhu YX, Yu JZ (2008) Gene-rich islands for fiber development in the cotton genome. Genomics, 92: 173–183.

60.

Dou YT, Yan YL, Ping SZ, Lu W, Chen M, Zhang W, Wang YP, Jin Q, Lin M (2008) Expression profile analysis of the oxygen response in the nitrogen-fixing Pseudomonas stutzeri A1501 by genome-wide DNA microarray. Chinese Science Bulletin, 53: 1197-1204.

61.

Yang N, Hou hQM, Nan J, Su XD (2008) Progress in structural and functional study of ubiquitin ligases. Progress in Biochemistry and Biophysics, 35: 14-20.

62.

Wang YP (2008) ARCHITECTURE OF sigma(54)-DEPENDENT PROMOTERS: INTERPLAY BETWEEN CRP-cAMP AND P-11-NTR SYSTEMS FORMS A NOVEL REGULATORY NETWORK BETWEEN CARBON METABOLISM AND NITROGEN ASSIMILATION IN ESCHERICHIA COLI. Biological Nitrogen Fixation: Towards Poverty Alleviation through Sustainable Agriculture, 42: 341-342.