| [1] Stackebrandt E, Goebel BM. Taxonomic Note: A place for DNA~DNA reassociation and 16S rRNA sequence analy-sis in the present species definition in bacteriology. Int J Syst Bacteriol, 1994, 44(4): 846-849.[2] Yap WH, Zhang ZS, Wang Y. Distinct types of rRNA op-erons exist in the genome of the actinomycete Thermono-spora Chromogena and evidence for horizontal transfer of an entire rRNA operon. J Bacteriol, 1999, 181(17): 5201- 5209.[3] Gaunt MW, Turner SL, Rigottier-Gois L, Lloyd-Macgilp SA, Young JP. Phylogenies of atpD and recA support the small subunit rRNA-based classification of rhizobia. Int J Syst Evol Microbiol, 2001, 51(6): 2037-2048.[4] Matthew AP. rRNA and dnaK relationships of Bradyrhizobium sp. nodule bacteria from four Papilionoid legume trees in Costa Rica. Syst Appl Microbiol, 2004, 27(3): 334-342.[5] Andam CP, Mondo SJ, Parker MA. Monophyly of nodA and nifH genes across Texan and Costa Rican populations of Cupriavidus nodule symbionts. Appl Environ Microbiol, 2007, 73(14): 4686-4690.[6] Sánchez B, Zúniga M, González-Candelas F, de los Reyes-Gavilán CG, Margolles A. Bacterial and eukaryotic phos-phoketolases: phylogeny, distribution and evolution. J Mol Microbiol Biotechnol, 2010, 18(1): 37-51.[7] 邹新慧,葛颂. 基因树冲突与系统发育基因组学研究. 植物分类学报, 2008, 46(6): 795-807.[8] Pancholi V. Multifunctional α-enolase: its role in diseases. Cell Mol Life Sci, 2001, 58(7): 902-920.[9] Subramanian A, Miller DM. Structural analysis of α- enolase, mapping the functional domains involved in down-regulation of the c-myc protooncogene. J Biol Chem, 2000, 275(8): 5958-5965.[10] Hannaert V, Brinkmann H, Nowitzki U, Lee JA, Albert MA, Sensen CW, Gaasterland T, Muller M, Michels P, Martin W. Enolase from Trypanosoma brucei, from the amitochondriate protist Mastigamoeba balamuthi, and from the chloroplast and cytosol of Euglena gracilis: pieces in the evolutionary puzzle of the eukaryotic glycolytic pathway. Mol Biol Evol, 2000, 17(7): 989-1000.[11] Piast M, Kustrzeba-Wójcicka I, Matusiewicz M, Bana? T. Molecular evolution of enolase. Acta Biochim Pol, 2005, 52(2): 507-513.[12] Gerlt JA, Babbitt PC, Jacobson MP, Almo SC. Divergent evolution in enolase superfamily: strategies for assigning functions. J Biol Chem, 2012, 287(1): 29-34.[13] Brewer JM. Yeast enolase: Mechanism of activation by metal ion. CRC Crit Rev Biochem, 1981, 11(3): 209-254.[14] Gandhi NS, Young K, Warmington JR, Mancera RL. Characterization of sequence and structural features of the Candida krusei enolase. In Silico Biol, 2008, 8(5-6): 449-460.[15] Van Der Straeten D, Rodrigues-Pousada RA, Goodman HM, van Montagu M. Plant enolase: Gene structure, ex-pression, and evolution. Plant Cell, 1991, 3(7): 719-735.[16] Bishop JG, Corces VG. The nucleotide sequence of a Drosophila melanogaster enolase gene. Nucleic Acids Res, 1990, 18(1):191.[17] Sakimura K, Kushiya E, Obinata M, Takahashi Y. Molecular cloning and the nudeotide sequence of cDNA to mRNA for don-nearonal enolase (αα enolase) of rat brain and liver. Nucleic Acids Res, 1985, 13(12): 4365-4378.[18] Giallongo A, Oliva D, Cali L, Barba G, Barbieri G, Feo S. Structure of the human gene for α-enolase. Eur J Bio-chem, 1990, 190(3): 567-573.[19] Bapteste E, Philippe H. The potential value of indels as phylogenetic markers: Position of Trichomonads as a case study. Mol Biol Evol, 2002, 19(6): 972-977.[20] Keeling PJ, Palmer JD. Lateral transfer at the gene and subgenic levels in the evolution of eukaryotic enolase. Proc Natl Acad Sci USA, 2001, 98(19): 10745-10750.[21] Jeffery CJ. Moonlighting proteins. Trends Biochem Sci, 1999, 24(1): 8-11.[22] Sundstrom P, Aliaga GR. Molecular cloning of cDNA and analysis of protein secondary structure of Candida al-bicans enolase, an abundant, immunodominant gly-colytic enzyme. J Bacteriol, 1992, 174(21): 6789-6799.[23] Bisseret F, Keith G, Rihn B, Amiri I, Werneburg B, Girardot R, Baldacini O, Green G, Nguyen VK, Monteil H. Clostridium difficile toxin B: Characterization and sequence of three peptides. J Chromatogr, 1989, 490(1): 91-100.[24] Ehinger S, Schubert WD, Bergmann S, Hammerschmidt S, Heinz DW. Plasmin (ogen)-binding α-enolase from strep-tococcus pneumoniae: crystal structure and evaluation of plasmin (ogen)-binding sites. J Mol Biol, 2004, 343(4): 997-1005.[25] Seweryn E, Pietkiewicz J, Szamborska A, Gamian A. Enolase on the surface of prokaryotic and eukaryotic cells is a receptor for human plasminogen. Postepy Hig Med Dosw, 2007, 15(61): 672-682.[26] Floden AM, Watt JA, Brissette CA. Borrelia burgdorferi enolase is a surface exposed plasminogen binding protein. PLoS One, 2011, 6(11): e27502.[27] Kaberdin VR, Lin-Chao S. Unraveling new roles for mi-nor components of the E. coli RNA degradosome. RNA Biol, 2009, 6(4): 402-405.[28] 李志江, 海权, 刁现民. 基因水平转移的评判方法和转移方式研究进展. 遗传, 2008, 30(9): 1108-1114.[29] Garcia-Vallve S, Guzman E, Montero MA, Romeu A. HGT-DB: a database of putative horizontally transferred genes in prokaryotic complete genomes. Nucleic Acids Res, 2003, 31(1): 187-189.[30] Lal SK, Johnson S, Conway T, Kelley PM. Characterization of a maize cDNA that complements an enolase-deficient mutant of Escherichia coli. Plant Mol Biol, 1991, 16(5): 787-795.[31] Afgan E, Baker D, Coraor N, Goto H, Paul IM, Makova KD, Nekrutenko A, Taylor J. Harnessing cloud computing with Galaxy Cloud. Nat Biotechnol, 2011, 29(11): 972-974.[32] Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. The CLUSTAL X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res, 1997, 25(24): 4876- 4882.[33] Alm EJ, Huang KH, Price MN, Koche RP, Keller K, Dubchak IL, Arkin AP. The MicrobesOnline Web site for comparative genomics. Genome Res, 2005, 15(7): 1015-1022.[34] Dehal PS, Joachimiak MP, Price MN, Bates JT, Baumohl JK, Chivian D, Friedland GD, Huang KH, Keller K, No-vichkov PS, Dubchak IL, Alm EJ, Arkin AP. Microbe-sOnline: an integrated portal for comparative and func-tional genomics. Nucleic Acids Res, 2010, 38(Suppl. 1): D396-D400.[35] 段海蓉, 丘德彬, 贡成良, 黄茉莉. 家蚕核型多角体病毒水平转移基因分析. 遗传, 2011, 33(6): 636-647.[36] Mizi A, Zouros E, Moschonas N, Rodakis GC. The complete maternal and paternal mitochondrial genomes of the mediterranean mussel Mytilus galloprovincialis: implications for the doubly uniparental inheritance mode of mtDNA. Mol Biol Evol, 2005, 22(4): 952-967.[37] Yukawa H, Omumasaba CA, Nonaka H, Ko´s P, Okai N, Suzuki N, Suda M, Tsuge Y, Watanabe J, Ikeda Y, Verte`s AA, Inui M. Comparative analysis of the Corynebacterium glutamicum group and complete genome sequence of strain R. Microbiology, 2007, 153(4): 1042-1058.[38] Garcia-Vallve S, Romeu A, Palau J. Horizontal gene transfer in bacterial and archaeal complete genomes. Genome Res, 2000, 10(11): 1719-1725.[39] Beiko RG, Harlow TJ, Ragan MA. Highways of gene sharing in prokaryotes. Proc Natl Acad Sci USA, 2005, 102(40): 14332-14337.[40] Lerat E, Daubin V, Ochman H, Moran NA. Evolutionary origins of genomic repertoires in bacteria. PLoS Biol, 2005, 3(5): e130.[41] Whitchurch CB, Tolker-Nielsen T, Ragas PC, Mattick JS. Extracellular DNA required for bacterial biofilm forma-tion. Science, 2002, 295(5559): 1487-1487.[42] 杨成运, 李友国, 魏力, 程国军, 周俊初. 华癸中生根瘤菌2020三个内源质粒的功能及其与豌豆根瘤菌共生质粒之间的相互关系. 中国科学c辑: 生命科学, 2008, 38(3): 250-258.[43] Koonin EV, Wolf YI. Genomics of bacteria and archaea: the emerging dynamic view of the prokaryotic world. Nucleic Acids Res, 2008, 36(21): 6688-6719.[44] Lake JA, Rivera MC. Deriving the genomic tree of life in the presence of horizontal gene transfer: conditioned re-construction. Mol Biol Evol, 2004, 21(4): 681-690.[45] 程廷才, 夏庆友, 刘春, 赵萍, 查幸福, 徐汉福, 向仲怀. 家蚕chi、gluE和fruA基因与微生物相应基因的同源性及基因水平转移初探. 遗传学报, 2004, 31(10): 1082-1088.[46] International Human Genome Sequencing Consortium. Initial sequencing and analysis of the human genome. Nature, 2001, 409(6822): 860-921.[47] Diao X, Freeling M, Lisch D. Horizontal transfer of a plant transposon. PLoS Biol, 2006, 4(1): e5.[48] Smillie CS, Smith MB, Friedman J, Cordero OX, David LA, Alm EJ. Ecology drives a global network of gene ex-change connecting the human microbiome. Nature, 2011, 480(7376): 241-244. |
