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For: Taoka M, Yamauchi Y, Shinkawa T, Kaji H, Motohashi W, Nakayama H, Takahashi N, Isobe T. Only a small subset of the horizontally transferred chromosomal genes in Escherichia coli are translated into proteins. Mol Cell Proteomics 2004;3:780-7. [PMID: 15115803 DOI: 10.1074/mcp.m400030-mcp200] [Citation(s) in RCA: 65] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
Number Cited by Other Article(s)
1
Karp PD, Paley S, Caspi R, Kothari A, Krummenacker M, Midford PE, Moore LR, Subhraveti P, Gama-Castro S, Tierrafria VH, Lara P, Muñiz-Rascado L, Bonavides-Martinez C, Santos-Zavaleta A, Mackie A, Sun G, Ahn-Horst TA, Choi H, Juenemann R, Knudsen CNM, Covert MW, Collado-Vides J, Paulsen I. The EcoCyc database (2025). EcoSal Plus 2025:eesp00192024. [PMID: 40304522 DOI: 10.1128/ecosalplus.esp-0019-2024] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2024] [Accepted: 03/18/2025] [Indexed: 05/02/2025]
2
Karp PD, Paley S, Caspi R, Kothari A, Krummenacker M, Midford PE, Moore LR, Subhraveti P, Gama-Castro S, Tierrafria VH, Lara P, Muñiz-Rascado L, Bonavides-Martinez C, Santos-Zavaleta A, Mackie A, Sun G, Ahn-Horst TA, Choi H, Covert MW, Collado-Vides J, Paulsen I. The EcoCyc Database (2023). EcoSal Plus 2023;11:eesp00022023. [PMID: 37220074 PMCID: PMC10729931 DOI: 10.1128/ecosalplus.esp-0002-2023] [Citation(s) in RCA: 44] [Impact Index Per Article: 22.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2023] [Accepted: 04/04/2023] [Indexed: 01/28/2024]
3
Reus E, Nielsen MR, Frandsen RJN. Metabolic and regulatory insights from the experimental horizontal gene transfer of the aurofusarin and bikaverin gene clusters to Aspergillus nidulans. Mol Microbiol 2019;112:1684-1700. [DOI: 10.1111/mmi.14376] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 08/18/2019] [Indexed: 12/19/2022]
4
Karp PD, Ong WK, Paley S, Billington R, Caspi R, Fulcher C, Kothari A, Krummenacker M, Latendresse M, Midford PE, Subhraveti P, Gama-Castro S, Muñiz-Rascado L, Bonavides-Martinez C, Santos-Zavaleta A, Mackie A, Collado-Vides J, Keseler IM, Paulsen I. The EcoCyc Database. EcoSal Plus 2018;8:10.1128/ecosalplus.ESP-0006-2018. [PMID: 30406744 PMCID: PMC6504970 DOI: 10.1128/ecosalplus.esp-0006-2018] [Citation(s) in RCA: 63] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2018] [Indexed: 01/28/2023]
5
Inter-replicon Gene Flow Contributes to Transcriptional Integration in the Sinorhizobium meliloti Multipartite Genome. G3-GENES GENOMES GENETICS 2018;8:1711-1720. [PMID: 29563186 PMCID: PMC5940162 DOI: 10.1534/g3.117.300405] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
6
Lateral Gene Transfer Dynamics in the Ancient Bacterial Genus Streptomyces. mBio 2017;8:mBio.00644-17. [PMID: 28588130 PMCID: PMC5472806 DOI: 10.1128/mbio.00644-17] [Citation(s) in RCA: 70] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]  Open
7
Kurata T, Nakanishi S, Hashimoto M, Taoka M, Yamazaki Y, Isobe T, Kato JI. Novel essential gene Involved in 16S rRNA processing in Escherichia coli. J Mol Biol 2014;427:955-965. [PMID: 25545592 DOI: 10.1016/j.jmb.2014.12.013] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2014] [Revised: 12/15/2014] [Accepted: 12/16/2014] [Indexed: 12/21/2022]
8
Efficient and cost effective production of active-form human PKB using silkworm larvae. Sci Rep 2014;4:6016. [PMID: 25125290 PMCID: PMC4133716 DOI: 10.1038/srep06016] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2014] [Accepted: 07/23/2014] [Indexed: 01/01/2023]  Open
9
Pelchovich G, Nadejda S, Dana A, Tuller T, Bravo IG, Gophna U. Ribosomal mutations affecting the translation of genes that use non-optimal codons. FEBS J 2014;281:3701-18. [PMID: 24966114 DOI: 10.1111/febs.12892] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2014] [Revised: 06/10/2014] [Accepted: 06/23/2014] [Indexed: 01/26/2023]
10
Karp PD, Weaver D, Paley S, Fulcher C, Kubo A, Kothari A, Krummenacker M, Subhraveti P, Weerasinghe D, Gama-Castro S, Huerta AM, Muñiz-Rascado L, Bonavides-Martinez C, Weiss V, Peralta-Gil M, Santos-Zavaleta A, Schröder I, Mackie A, Gunsalus R, Collado-Vides J, Keseler IM, Paulsen I. The EcoCyc Database. EcoSal Plus 2014;6:10.1128/ecosalplus.ESP-0009-2013. [PMID: 26442933 PMCID: PMC4243172 DOI: 10.1128/ecosalplus.esp-0009-2013] [Citation(s) in RCA: 45] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2014] [Indexed: 11/20/2022]
11
Wang Y, Huang KY, Huo Y. Proteomic comparison between Salmonella Typhimurium and Salmonella Typhi. J Microbiol 2014;52:71-6. [PMID: 24390840 DOI: 10.1007/s12275-014-3204-3] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2013] [Revised: 07/30/2013] [Accepted: 08/05/2013] [Indexed: 11/26/2022]
12
SUN JS, HAHN TW. Comparative Proteomic Analysis of Salmonella enterica Serovars Enteritidis, Typhimurium and Gallinarum. J Vet Med Sci 2012;74:285-91. [DOI: 10.1292/jvms.11-0366] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]  Open
13
Characterizing the Escherichia coli O157:H7 proteome including protein associations with higher order assemblies. PLoS One 2011;6:e26554. [PMID: 22087229 PMCID: PMC3210124 DOI: 10.1371/journal.pone.0026554] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2011] [Accepted: 09/28/2011] [Indexed: 11/19/2022]  Open
14
Rabhi M, Espéli O, Schwartz A, Cayrol B, Rahmouni AR, Arluison V, Boudvillain M. The Sm-like RNA chaperone Hfq mediates transcription antitermination at Rho-dependent terminators. EMBO J 2011;30:2805-16. [PMID: 21673658 DOI: 10.1038/emboj.2011.192] [Citation(s) in RCA: 84] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2010] [Accepted: 05/26/2011] [Indexed: 11/09/2022]  Open
15
Tuller T, Girshovich Y, Sella Y, Kreimer A, Freilich S, Kupiec M, Gophna U, Ruppin E. Association between translation efficiency and horizontal gene transfer within microbial communities. Nucleic Acids Res 2011;39:4743-55. [PMID: 21343180 PMCID: PMC3113575 DOI: 10.1093/nar/gkr054] [Citation(s) in RCA: 71] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]  Open
16
Zhou F, Cardoza JD, Ficarro SB, Adelmant GO, Lazaro JB, Marto JA. Online nanoflow RP-RP-MS reveals dynamics of multicomponent Ku complex in response to DNA damage. J Proteome Res 2010;9:6242-55. [PMID: 20873769 PMCID: PMC2997187 DOI: 10.1021/pr1004696] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
17
Soares MR, Facincani AP, Ferreira RM, Moreira LM, de Oliveira JC, Ferro JA, Ferro MI, Meneghini R, Gozzo FC. Proteome of the phytopathogen Xanthomonas citri subsp. citri: a global expression profile. Proteome Sci 2010;8:55. [PMID: 21062441 PMCID: PMC2996358 DOI: 10.1186/1477-5956-8-55] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2010] [Accepted: 11/09/2010] [Indexed: 01/28/2023]  Open
18
Babu MM. Early Career Research Award Lecture. Structure, evolution and dynamics of transcriptional regulatory networks. Biochem Soc Trans 2010;38:1155-78. [PMID: 20863280 DOI: 10.1042/bst0381155] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
19
Müller SA, Kohajda T, Findeiss S, Stadler PF, Washietl S, Kellis M, von Bergen M, Kalkhof S. Optimization of parameters for coverage of low molecular weight proteins. Anal Bioanal Chem 2010;398:2867-81. [PMID: 20803007 PMCID: PMC2990009 DOI: 10.1007/s00216-010-4093-x] [Citation(s) in RCA: 41] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/03/2010] [Revised: 07/26/2010] [Accepted: 08/03/2010] [Indexed: 11/16/2022]
20
Taoka M, Ikumi M, Nakayama H, Masaki S, Matsuda R, Nobe Y, Yamauchi Y, Takeda J, Takahashi N, Isobe T. In-Gel Digestion for Mass Spectrometric Characterization of RNA from Fluorescently Stained Polyacrylamide Gels. Anal Chem 2010;82:7795-803. [DOI: 10.1021/ac101623j] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
21
Iwasaki M, Miwa S, Ikegami T, Tomita M, Tanaka N, Ishihama Y. One-dimensional capillary liquid chromatographic separation coupled with tandem mass spectrometry unveils the Escherichia coli proteome on a microarray scale. Anal Chem 2010;82:2616-20. [PMID: 20222674 DOI: 10.1021/ac100343q] [Citation(s) in RCA: 118] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
22
Taoka M, Yamauchi Y, Nobe Y, Masaki S, Nakayama H, Ishikawa H, Takahashi N, Isobe T. An analytical platform for mass spectrometry-based identification and chemical analysis of RNA in ribonucleoprotein complexes. Nucleic Acids Res 2010;37:e140. [PMID: 19740761 PMCID: PMC2790879 DOI: 10.1093/nar/gkp732] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]  Open
23
Williams TA, Codoñer FM, Toft C, Fares MA. Two chaperonin systems in bacterial genomes with distinct ecological roles. Trends Genet 2009;26:47-51. [PMID: 20036437 DOI: 10.1016/j.tig.2009.11.009] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2009] [Revised: 11/27/2009] [Accepted: 11/30/2009] [Indexed: 10/20/2022]
24
Identification of functional marker proteins in the mammalian growth cone. Proc Natl Acad Sci U S A 2009;106:17211-6. [PMID: 19805073 DOI: 10.1073/pnas.0904092106] [Citation(s) in RCA: 75] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
25
The Conflict Between Horizontal Gene Transfer and the Safeguard of Identity: Origin of Meiotic Sexuality. J Mol Evol 2009;69:470-80. [DOI: 10.1007/s00239-009-9277-7] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2009] [Accepted: 09/08/2009] [Indexed: 02/05/2023]
26
Masuda T, Saito N, Tomita M, Ishihama Y. Unbiased quantitation of Escherichia coli membrane proteome using phase transfer surfactants. Mol Cell Proteomics 2009;8:2770-7. [PMID: 19767571 DOI: 10.1074/mcp.m900240-mcp200] [Citation(s) in RCA: 133] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
27
Comparative proteomic analysis on Salmonella Gallinarum and Salmonella Enteritidis exploring proteins that may incorporate host adaptation in poultry. J Proteomics 2009;72:815-21. [DOI: 10.1016/j.jprot.2009.05.002] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2009] [Revised: 04/22/2009] [Accepted: 05/18/2009] [Indexed: 11/18/2022]
28
Baños RC, Vivero A, Aznar S, García J, Pons M, Madrid C, Juárez A. Differential regulation of horizontally acquired and core genome genes by the bacterial modulator H-NS. PLoS Genet 2009;5:e1000513. [PMID: 19521501 PMCID: PMC2686267 DOI: 10.1371/journal.pgen.1000513] [Citation(s) in RCA: 88] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2009] [Accepted: 05/12/2009] [Indexed: 11/20/2022]  Open
29
Sxy induces a CRP-S regulon in Escherichia coli. J Bacteriol 2009;191:5180-95. [PMID: 19502395 DOI: 10.1128/jb.00476-09] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]  Open
30
Balleza E, López-Bojorquez LN, Martínez-Antonio A, Resendis-Antonio O, Lozada-Chávez I, Balderas-Martínez YI, Encarnación S, Collado-Vides J. Regulation by transcription factors in bacteria: beyond description. FEMS Microbiol Rev 2009;33:133-51. [PMID: 19076632 PMCID: PMC2704942 DOI: 10.1111/j.1574-6976.2008.00145.x] [Citation(s) in RCA: 138] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]  Open
31
Díaz-Mejía JJ, Babu M, Emili A. Computational and experimental approaches to chart the Escherichia coli cell-envelope-associated proteome and interactome. FEMS Microbiol Rev 2008;33:66-97. [PMID: 19054114 PMCID: PMC2704936 DOI: 10.1111/j.1574-6976.2008.00141.x] [Citation(s) in RCA: 46] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]  Open
32
Kuo CH, Ochman H. The fate of new bacterial genes. FEMS Microbiol Rev 2008;33:38-43. [PMID: 19054121 DOI: 10.1111/j.1574-6976.2008.00140.x] [Citation(s) in RCA: 71] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]  Open
33
Jungblut PR, Holzhütter HG, Apweiler R, Schlüter H. The speciation of the proteome. Chem Cent J 2008;2:16. [PMID: 18638390 PMCID: PMC2492845 DOI: 10.1186/1752-153x-2-16] [Citation(s) in RCA: 188] [Impact Index Per Article: 11.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2008] [Accepted: 07/18/2008] [Indexed: 11/13/2022]  Open
34
Grasselli E, François P, Gutacker M, Gettler B, Benagli C, Convert M, Boerlin P, Schrenzel J, Piffaretti JC. Evidence of horizontal gene transfer between human and animal commensal Escherichia coli strains identified by microarray. ACTA ACUST UNITED AC 2008;53:351-8. [PMID: 18557937 DOI: 10.1111/j.1574-695x.2008.00434.x] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
35
Kamiie J. [Progress of drug transport study based on absolute quantitative method for membrane transporter proteins]. YAKUGAKU ZASSHI 2008;128:507-12. [PMID: 18379169 DOI: 10.1248/yakushi.128.507] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
36
Ishihama Y, Schmidt T, Rappsilber J, Mann M, Hartl FU, Kerner MJ, Frishman D. Protein abundance profiling of the Escherichia coli cytosol. BMC Genomics 2008;9:102. [PMID: 18304323 PMCID: PMC2292177 DOI: 10.1186/1471-2164-9-102] [Citation(s) in RCA: 371] [Impact Index Per Article: 21.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2008] [Accepted: 02/27/2008] [Indexed: 11/10/2022]  Open
37
de Groot MJL, Daran-Lapujade P, van Breukelen B, Knijnenburg TA, de Hulster EAF, Reinders MJT, Pronk JT, Heck AJR, Slijper M. Quantitative proteomics and transcriptomics of anaerobic and aerobic yeast cultures reveals post-transcriptional regulation of key cellular processes. MICROBIOLOGY-SGM 2008;153:3864-3878. [PMID: 17975095 DOI: 10.1099/mic.0.2007/009969-0] [Citation(s) in RCA: 90] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
38
Kaji H, Kamiie JI, Kawakami H, Kido K, Yamauchi Y, Shinkawa T, Taoka M, Takahashi N, Isobe T. Proteomics Reveals N-Linked Glycoprotein Diversity in Caenorhabditis elegans and Suggests an Atypical Translocation Mechanism for Integral Membrane Proteins. Mol Cell Proteomics 2007;6:2100-9. [PMID: 17761667 DOI: 10.1074/mcp.m600392-mcp200] [Citation(s) in RCA: 86] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
39
Shapira R, Mimran E. Isolation and characterization of Escherichia coli mutants exhibiting altered response to thymol. Microb Drug Resist 2007;13:157-65. [PMID: 17949301 DOI: 10.1089/mdr.2007.731] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]  Open
40
Maillet I, Berndt P, Malo C, Rodriguez S, Brunisholz RA, Pragai Z, Arnold S, Langen H, Wyss M. From the genome sequence to the proteome and back: evaluation of E. coli genome annotation with a 2-D gel-based proteomics approach. Proteomics 2007;7:1097-106. [PMID: 17366475 DOI: 10.1002/pmic.200600599] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
41
Graham RLJ, Graham C, McMullan G. Microbial proteomics: a mass spectrometry primer for biologists. Microb Cell Fact 2007;6:26. [PMID: 17697372 PMCID: PMC1971468 DOI: 10.1186/1475-2859-6-26] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2007] [Accepted: 08/15/2007] [Indexed: 11/29/2022]  Open
42
Fournier ML, Gilmore JM, Martin-Brown SA, Washburn MP. Multidimensional Separations-Based Shotgun Proteomics. Chem Rev 2007;107:3654-86. [PMID: 17649983 DOI: 10.1021/cr068279a] [Citation(s) in RCA: 143] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
43
Wolff S, Antelmann H, Albrecht D, Becher D, Bernhardt J, Bron S, Büttner K, van Dijl JM, Eymann C, Otto A, Tam LT, Hecker M. Towards the entire proteome of the model bacterium Bacillus subtilis by gel-based and gel-free approaches. J Chromatogr B Analyt Technol Biomed Life Sci 2007;849:129-40. [PMID: 17055787 DOI: 10.1016/j.jchromb.2006.09.029] [Citation(s) in RCA: 41] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2006] [Revised: 08/25/2006] [Accepted: 09/08/2006] [Indexed: 11/29/2022]
44
Wilson GA, Feil EJ, Lilley AK, Field D. Large-scale comparative genomic ranking of taxonomically restricted genes (TRGs) in bacterial and archaeal genomes. PLoS One 2007;2:e324. [PMID: 17389915 PMCID: PMC1824705 DOI: 10.1371/journal.pone.0000324] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2007] [Accepted: 02/18/2007] [Indexed: 11/19/2022]  Open
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Dworzanski JP, Snyder AP. Classification and identification of bacteria using mass spectrometry-based proteomics. Expert Rev Proteomics 2007;2:863-78. [PMID: 16307516 DOI: 10.1586/14789450.2.6.863] [Citation(s) in RCA: 56] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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Stegmeier JF, Glück A, Sukumaran S, Mäntele W, Andersen C. Characterisation of YtfM, a second member of the Omp85 family in Escherichia coli. Biol Chem 2007;388:37-46. [PMID: 17214547 DOI: 10.1515/bc.2007.004] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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Oyama M, Kozuka-Hata H, Suzuki Y, Semba K, Yamamoto T, Sugano S. Diversity of translation start sites may define increased complexity of the human short ORFeome. Mol Cell Proteomics 2007;6:1000-6. [PMID: 17317662 DOI: 10.1074/mcp.m600297-mcp200] [Citation(s) in RCA: 81] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
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Marri PR, Hao W, Golding GB. The role of laterally transferred genes in adaptive evolution. BMC Evol Biol 2007;7 Suppl 1:S8. [PMID: 17288581 PMCID: PMC1796617 DOI: 10.1186/1471-2148-7-s1-s8] [Citation(s) in RCA: 51] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]  Open
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Kaji H, Yamauchi Y, Takahashi N, Isobe T. Mass spectrometric identification of N-linked glycopeptides using lectin-mediated affinity capture and glycosylation site–specific stable isotope tagging. Nat Protoc 2007;1:3019-27. [PMID: 17406563 DOI: 10.1038/nprot.2006.444] [Citation(s) in RCA: 125] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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Suen G, Arshinoff BI, Taylor RG, Welch RD. Practical Applications of Bacterial Functional Genomics. Biotechnol Genet Eng Rev 2007;24:213-42. [DOI: 10.1080/02648725.2007.10648101] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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