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Volumn 14, Issue 1, 2018, Pages

Functional interrogation of Plasmodium genus metabolism identifies species- and stage-specific differences in nutrient essentiality and drug targeting

Author keywords

[No Author keywords available]

Indexed keywords

ANTIMALARIAL DRUG; CENTRAL CARBON METABOLISMS; DRUG-TARGETING; EFFECTIVE THERAPY; EXPERIMENTAL ANIMALS; GENOME-SCALE METABOLIC MODELING; LIFE CYCLE STAGES; PLASMODIUM FALCIPARUM; POTENTIAL TARGETS; SPECIES SPECIFICS;

EID: 85041426461     PISSN: 1553734X     EISSN: 15537358     Source Type: Journal    
DOI: 10.1371/journal.pcbi.1005895     Document Type: Article
Times cited : (28)

References (52)
  • 1
    • 85041386484 scopus 로고    scopus 로고
    • Organization WH (2015) World Malaria Report 2015
    • Organization WH (2015) World Malaria Report 2015.
  • 2
    • 84939500788 scopus 로고    scopus 로고
    • Sexual development in Plasmodium parasites: knowing when it's time to commit
    • 2627240
    • Josling GA, Llinas M, (2015) Sexual development in Plasmodium parasites: knowing when it's time to commit. Nat Rev Microbiol13: 573–587. doi: 10.1038/nrmicro3519 26272409
    • (2015) Nat Rev Microbiol , vol.13 , pp. 573-587
    • Josling, G.A.1    Llinas, M.2
  • 3
    • 78751556862 scopus 로고    scopus 로고
    • Integrative genome-scale metabolic analysis of Vibrio vulnificus for drug targeting and discovery
    • 2124584
    • Kim HU, Kim SY, Jeong H, Kim TY, Kim JJ, et al. (2011) Integrative genome-scale metabolic analysis of Vibrio vulnificus for drug targeting and discovery. Mol Syst Biol7: 460. doi: 10.1038/msb.2010.115 21245845
    • (2011) Mol Syst Biol , vol.7 , pp. 460
    • Kim, H.U.1    Kim, S.Y.2    Jeong, H.3    Kim, T.Y.4    Kim, J.J.5
  • 4
    • 75749105082 scopus 로고    scopus 로고
    • Blueprint for antimicrobial hit discovery targeting metabolic networks
    • 2008058
    • Shen Y, Liu J, Estiu G, Isin B, Ahn YY, et al. (2010) Blueprint for antimicrobial hit discovery targeting metabolic networks. Proc Natl Acad Sci U S A107: 1082–1087. doi: 10.1073/pnas.0909181107 20080587
    • (2010) Proc Natl Acad Sci U S A , vol.107 , pp. 1082-1087
    • Shen, Y.1    Liu, J.2    Estiu, G.3    Isin, B.4    Ahn, Y.Y.5
  • 5
    • 84864583593 scopus 로고    scopus 로고
    • Raloxifene attenuates Pseudomonas aeruginosa pyocyanin production and virulence
    • 2281914
    • Ho Sui SJ, Lo R, Fernandes AR, Caulfield MD, Lerman JA, et al. (2012) Raloxifene attenuates Pseudomonas aeruginosa pyocyanin production and virulence. Int J Antimicrob Agents40: 246–251. doi: 10.1016/j.ijantimicag.2012.05.009 22819149
    • (2012) Int J Antimicrob Agents , vol.40 , pp. 246-251
    • Ho Sui, S.J.1    Lo, R.2    Fernandes, A.R.3    Caulfield, M.D.4    Lerman, J.A.5
  • 6
    • 34447317247 scopus 로고    scopus 로고
    • Investigating the metabolic capabilities of Mycobacterium tuberculosis H37Rv using the in silico strain iNJ661 and proposing alternative drug targets
    • 1755560
    • Jamshidi N, Palsson BO, (2007) Investigating the metabolic capabilities of Mycobacterium tuberculosis H37Rv using the in silico strain iNJ661 and proposing alternative drug targets. BMC Syst Biol1: 26. doi: 10.1186/1752-0509-1-26 17555602
    • (2007) BMC Syst Biol , vol.1 , pp. 26
    • Jamshidi, N.1    Palsson, B.O.2
  • 7
    • 77958537509 scopus 로고    scopus 로고
    • Insight into human alveolar macrophage and M. tuberculosis interactions via metabolic reconstructions
    • 2095982
    • Bordbar A, Lewis NE, Schellenberger J, Palsson BO, Jamshidi N, (2010) Insight into human alveolar macrophage and M. tuberculosis interactions via metabolic reconstructions. Mol Syst Biol6: 422. doi: 10.1038/msb.2010.68 20959820
    • (2010) Mol Syst Biol , vol.6 , pp. 422
    • Bordbar, A.1    Lewis, N.E.2    Schellenberger, J.3    Palsson, B.O.4    Jamshidi, N.5
  • 8
    • 61449115916 scopus 로고    scopus 로고
    • A genome-scale metabolic reconstruction of Mycoplasma genitalium, iPS189
    • 1921421
    • Suthers PF, Dasika MS, Kumar VS, Denisov G, Glass JI, et al. (2009) A genome-scale metabolic reconstruction of Mycoplasma genitalium, iPS189. PLoS Comput Biol5: e1000285. doi: 10.1371/journal.pcbi.1000285 19214212
    • (2009) PLoS Comput Biol , vol.5 , pp. e1000285
    • Suthers, P.F.1    Dasika, M.S.2    Kumar, V.S.3    Denisov, G.4    Glass, J.I.5
  • 9
    • 63549108441 scopus 로고    scopus 로고
    • GrowMatch: an automated method for reconciling in silico/in vivo growth predictions
    • 1928296
    • Kumar VS, Maranas CD, (2009) GrowMatch: an automated method for reconciling in silico/in vivo growth predictions. PLoS Comput Biol5: e1000308. doi: 10.1371/journal.pcbi.1000308 19282964
    • (2009) PLoS Comput Biol , vol.5 , pp. e1000308
    • Kumar, V.S.1    Maranas, C.D.2
  • 10
    • 78049255973 scopus 로고    scopus 로고
    • Probabilistic integrative modeling of genome-scale metabolic and regulatory networks in Escherichia coli and Mycobacterium tuberculosis
    • 2087609
    • Chandrasekaran S, Price ND, (2010) Probabilistic integrative modeling of genome-scale metabolic and regulatory networks in Escherichia coli and Mycobacterium tuberculosis. Proc Natl Acad Sci U S A107: 17845–17850. doi: 10.1073/pnas.1005139107 20876091
    • (2010) Proc Natl Acad Sci U S A , vol.107 , pp. 17845-17850
    • Chandrasekaran, S.1    Price, N.D.2
  • 11
    • 84930607857 scopus 로고    scopus 로고
    • Metabolic Needs and Capabilities of Toxoplasma gondii through Combined Computational and Experimental Analysis
    • 2600108
    • Tymoshenko S, Oppenheim RD, Agren R, Nielsen J, Soldati-Favre D, et al. (2015) Metabolic Needs and Capabilities of Toxoplasma gondii through Combined Computational and Experimental Analysis. PLoS Comput Biol11: e1004261. doi: 10.1371/journal.pcbi.1004261 26001086
    • (2015) PLoS Comput Biol , vol.11 , pp. e1004261
    • Tymoshenko, S.1    Oppenheim, R.D.2    Agren, R.3    Nielsen, J.4    Soldati-Favre, D.5
  • 12
    • 84899131429 scopus 로고    scopus 로고
    • Comparisons of Shewanella strains based on genome annotations, modeling, and experiments
    • 2462129
    • Ong WK, Vu TT, Lovendahl KN, Llull JM, Serres MH, et al. (2014) Comparisons of Shewanella strains based on genome annotations, modeling, and experiments. BMC Syst Biol8: 31. doi: 10.1186/1752-0509-8-31 24621294
    • (2014) BMC Syst Biol , vol.8 , pp. 31
    • Ong, W.K.1    Vu, T.T.2    Lovendahl, K.N.3    Llull, J.M.4    Serres, M.H.5
  • 13
    • 35348893696 scopus 로고    scopus 로고
    • Metabolite essentiality elucidates robustness of Escherichia coli metabolism
    • 1769881
    • Kim PJ, Lee DY, Kim TY, Lee KH, Jeong H, et al. (2007) Metabolite essentiality elucidates robustness of Escherichia coli metabolism. Proc Natl Acad Sci U S A104: 13638–13642. doi: 10.1073/pnas.0703262104 17698812
    • (2007) Proc Natl Acad Sci U S A , vol.104 , pp. 13638-13642
    • Kim, P.J.1    Lee, D.Y.2    Kim, T.Y.3    Lee, K.H.4    Jeong, H.5
  • 14
    • 77956456621 scopus 로고    scopus 로고
    • Antimalarial drug targets in Plasmodium falciparum predicted by stage-specific metabolic network analysis
    • 2080740
    • Huthmacher C, Hoppe A, Bulik S, Holzhutter HG, (2010) Antimalarial drug targets in Plasmodium falciparum predicted by stage-specific metabolic network analysis. BMC Syst Biol4: 120. doi: 10.1186/1752-0509-4-120 20807400
    • (2010) BMC Syst Biol , vol.4 , pp. 120
    • Huthmacher, C.1    Hoppe, A.2    Bulik, S.3    Holzhutter, H.G.4
  • 15
    • 75149129569 scopus 로고    scopus 로고
    • A protocol for generating a high-quality genome-scale metabolic reconstruction
    • 2005738
    • Thiele I, Palsson BO, (2010) A protocol for generating a high-quality genome-scale metabolic reconstruction. Nat Protoc5: 93–121. doi: 10.1038/nprot.2009.203 20057383
    • (2010) Nat Protoc , vol.5 , pp. 93-121
    • Thiele, I.1    Palsson, B.O.2
  • 16
    • 84952760334 scopus 로고    scopus 로고
    • Malaria Parasite Metabolic Pathways (MPMP) Upgraded with Targeted Chemical Compounds
    • 2653086
    • Ginsburg H, Abdel-Haleem AM, (2016) Malaria Parasite Metabolic Pathways (MPMP) Upgraded with Targeted Chemical Compounds. Trends Parasitol32: 7–9. doi: 10.1016/j.pt.2015.10.003 26530861
    • (2016) Trends Parasitol , vol.32 , pp. 7-9
    • Ginsburg, H.1    Abdel-Haleem, A.M.2
  • 17
    • 77956419824 scopus 로고    scopus 로고
    • Reconstruction and flux-balance analysis of the Plasmodium falciparum metabolic network
    • 2082384
    • Plata G, Hsiao TL, Olszewski KL, Llinas M, Vitkup D, (2010) Reconstruction and flux-balance analysis of the Plasmodium falciparum metabolic network. Mol Syst Biol6: 408. doi: 10.1038/msb.2010.60 20823846
    • (2010) Mol Syst Biol , vol.6 , pp. 408
    • Plata, G.1    Hsiao, T.L.2    Olszewski, K.L.3    Llinas, M.4    Vitkup, D.5
  • 18
    • 85016725723 scopus 로고    scopus 로고
    • Bioenergetics-based modeling of Plasmodium falciparum metabolism reveals its essential genes, nutritional requirements, and thermodynamic bottlenecks
    • 2833392
    • Chiappino-Pepe A, Tymoshenko S, Ataman M, Soldati-Favre D, Hatzimanikatis V, (2017) Bioenergetics-based modeling of Plasmodium falciparum metabolism reveals its essential genes, nutritional requirements, and thermodynamic bottlenecks. PLoS Comput Biol13: e1005397. doi: 10.1371/journal.pcbi.1005397 28333921
    • (2017) PLoS Comput Biol , vol.13 , pp. e1005397
    • Chiappino-Pepe, A.1    Tymoshenko, S.2    Ataman, M.3    Soldati-Favre, D.4    Hatzimanikatis, V.5
  • 19
    • 85025100842 scopus 로고    scopus 로고
    • Novel Plasmodium falciparum metabolic network reconstruction identifies shifts associated with clinical antimalarial resistance
    • 2872435
    • Carey MA, Papin JA, Guler JL, (2017) Novel Plasmodium falciparum metabolic network reconstruction identifies shifts associated with clinical antimalarial resistance. BMC Genomics18: 543. doi: 10.1186/s12864-017-3905-1 28724354
    • (2017) BMC Genomics , vol.18 , pp. 543
    • Carey, M.A.1    Papin, J.A.2    Guler, J.L.3
  • 20
    • 84890929025 scopus 로고    scopus 로고
    • Kinetic flux profiling elucidates two independent acetyl-CoA biosynthetic pathways in Plasmodium falciparum
    • 2416337
    • Cobbold SA, Vaughan AM, Lewis IA, Painter HJ, Camargo N, et al. (2013) Kinetic flux profiling elucidates two independent acetyl-CoA biosynthetic pathways in Plasmodium falciparum. J Biol Chem288: 36338–36350. doi: 10.1074/jbc.M113.503557 24163372
    • (2013) J Biol Chem , vol.288 , pp. 36338-36350
    • Cobbold, S.A.1    Vaughan, A.M.2    Lewis, I.A.3    Painter, H.J.4    Camargo, N.5
  • 21
    • 77249113329 scopus 로고    scopus 로고
    • Uptake of purines in Plasmodium falciparum-infected human erythrocytes is mostly mediated by the human equilibrative nucleoside transporter and the human facilitative nucleobase transporter
    • 2011350
    • Quashie NB, Ranford-Cartwright LC, de Koning HP, (2010) Uptake of purines in Plasmodium falciparum-infected human erythrocytes is mostly mediated by the human equilibrative nucleoside transporter and the human facilitative nucleobase transporter. Malar J9: 36. doi: 10.1186/1475-2875-9-36 20113503
    • (2010) Malar J , vol.9 , pp. 36
    • Quashie, N.B.1    Ranford-Cartwright, L.C.2    de Koning, H.P.3
  • 22
    • 0020959094 scopus 로고
    • Culture of Plasmodium falciparum: the role of pH, glucose, and lactate
    • 637121
    • Jensen MD, Conley M, Helstowski LD, (1983) Culture of Plasmodium falciparum: the role of pH, glucose, and lactate. J Parasitol69: 1060–1067. 6371212
    • (1983) J Parasitol , vol.69 , pp. 1060-1067
    • Jensen, M.D.1    Conley, M.2    Helstowski, L.D.3
  • 23
    • 84959473542 scopus 로고    scopus 로고
    • High-Throughput Assay and Discovery of Small Molecules that Interrupt Malaria Transmission
    • 2674944
    • Plouffe DM, Wree M, Du AY, Meister S, Li F, et al. (2016) High-Throughput Assay and Discovery of Small Molecules that Interrupt Malaria Transmission. Cell Host Microbe19: 114–126. doi: 10.1016/j.chom.2015.12.001 26749441
    • (2016) Cell Host Microbe , vol.19 , pp. 114-126
    • Plouffe, D.M.1    Wree, M.2    Du, A.Y.3    Meister, S.4    Li, F.5
  • 24
    • 58149093352 scopus 로고    scopus 로고
    • Plasmodium falciparum purine nucleoside phosphorylase is critical for viability of malaria parasites
    • 1895743
    • Madrid DC, Ting LM, Waller KL, Schramm VL, Kim K, (2008) Plasmodium falciparum purine nucleoside phosphorylase is critical for viability of malaria parasites. J Biol Chem283: 35899–35907. doi: 10.1074/jbc.M807218200 18957439
    • (2008) J Biol Chem , vol.283 , pp. 35899-35907
    • Madrid, D.C.1    Ting, L.M.2    Waller, K.L.3    Schramm, V.L.4    Kim, K.5
  • 25
    • 84878818779 scopus 로고    scopus 로고
    • Mitochondrial metabolism of sexual and asexual blood stages of the malaria parasite Plasmodium falciparum
    • 2376394
    • MacRae JI, Dixon MW, Dearnley MK, Chua HH, Chambers JM, et al. (2013) Mitochondrial metabolism of sexual and asexual blood stages of the malaria parasite Plasmodium falciparum. BMC Biol11: 67. doi: 10.1186/1741-7007-11-67 23763941
    • (2013) BMC Biol , vol.11 , pp. 67
    • MacRae, J.I.1    Dixon, M.W.2    Dearnley, M.K.3    Chua, H.H.4    Chambers, J.M.5
  • 26
    • 84856215610 scopus 로고    scopus 로고
    • Directional gene expression and antisense transcripts in sexual and asexual stages of Plasmodium falciparum
    • 2212931
    • Lopez-Barragan MJ, Lemieux J, Quinones M, Williamson KC, Molina-Cruz A, et al. (2011) Directional gene expression and antisense transcripts in sexual and asexual stages of Plasmodium falciparum. BMC Genomics12: 587. doi: 10.1186/1471-2164-12-587 22129310
    • (2011) BMC Genomics , vol.12 , pp. 587
    • Lopez-Barragan, M.J.1    Lemieux, J.2    Quinones, M.3    Williamson, K.C.4    Molina-Cruz, A.5
  • 27
    • 84931274354 scopus 로고    scopus 로고
    • Nowhere to hide: interrogating different metabolic parameters of Plasmodium falciparum gametocytes in a transmission blocking drug discovery pipeline towards malaria elimination
    • 2599451
    • Reader J, Botha M, Theron A, Lauterbach SB, Rossouw C, et al. (2015) Nowhere to hide: interrogating different metabolic parameters of Plasmodium falciparum gametocytes in a transmission blocking drug discovery pipeline towards malaria elimination. Malar J14: 213. doi: 10.1186/s12936-015-0718-z 25994518
    • (2015) Malar J , vol.14 , pp. 213
    • Reader, J.1    Botha, M.2    Theron, A.3    Lauterbach, S.B.4    Rossouw, C.5
  • 28
    • 8544223537 scopus 로고    scopus 로고
    • Hierarchical thinking in network biology: the unbiased modularization of biochemical networks
    • 1554495
    • Papin JA, Reed JL, Palsson BO, (2004) Hierarchical thinking in network biology: the unbiased modularization of biochemical networks. Trends Biochem Sci29: 641–647. doi: 10.1016/j.tibs.2004.10.001 15544950
    • (2004) Trends Biochem Sci , vol.29 , pp. 641-647
    • Papin, J.A.1    Reed, J.L.2    Palsson, B.O.3
  • 29
    • 33846086384 scopus 로고    scopus 로고
    • Systems biology of SNPs
    • 1682077
    • Jamshidi N, Palsson BO, (2006) Systems biology of SNPs. Mol Syst Biol2: 38. doi: 10.1038/msb4100077 16820779
    • (2006) Mol Syst Biol , vol.2 , pp. 38
    • Jamshidi, N.1    Palsson, B.O.2
  • 30
    • 0031679770 scopus 로고    scopus 로고
    • Direction choice for accelerated convergence in hit-and-run sampling
    • Kaufman D SR (1998) Direction choice for accelerated convergence in hit-and-run sampling. Op Research 1.
    • (1998) Op Research , pp. 1
    • Kaufman, D.S.R.1
  • 31
    • 19344365153 scopus 로고    scopus 로고
    • Data mining of the transcriptome of Plasmodium falciparum: the pentose phosphate pathway and ancillary processes
    • 1577402
    • Bozdech Z, Ginsburg H, (2005) Data mining of the transcriptome of Plasmodium falciparum: the pentose phosphate pathway and ancillary processes. Malar J4: 17. doi: 10.1186/1475-2875-4-17 15774020
    • (2005) Malar J , vol.4 , pp. 17
    • Bozdech, Z.1    Ginsburg, H.2
  • 32
    • 84890428942 scopus 로고    scopus 로고
    • Targeting Plasmodium PI(4)K to eliminate malaria
    • 2428463
    • McNamara CW, Lee MC, Lim CS, Lim SH, Roland J, et al. (2013) Targeting Plasmodium PI(4)K to eliminate malaria. Nature504: 248–253. doi: 10.1038/nature12782 24284631
    • (2013) Nature , vol.504 , pp. 248-253
    • McNamara, C.W.1    Lee, M.C.2    Lim, C.S.3    Lim, S.H.4    Roland, J.5
  • 33
    • 73149087664 scopus 로고    scopus 로고
    • Rodent and nonrodent malaria parasites differ in their phospholipid metabolic pathways
    • 1956132
    • Dechamps S, Maynadier M, Wein S, Gannoun-Zaki L, Marechal E, et al. (2010) Rodent and nonrodent malaria parasites differ in their phospholipid metabolic pathways. J Lipid Res51: 81–96. doi: 10.1194/jlr.M900166-JLR200 19561325
    • (2010) J Lipid Res , vol.51 , pp. 81-96
    • Dechamps, S.1    Maynadier, M.2    Wein, S.3    Gannoun-Zaki, L.4    Marechal, E.5
  • 34
    • 23644432567 scopus 로고    scopus 로고
    • Differences in biochemical properties of the Plasmodial falcipain-2 and berghepain-2 orthologues: implications for in vivo screens of inhibitors
    • 1601916
    • Chan C, Goh LL, Sim TS, (2005) Differences in biochemical properties of the Plasmodial falcipain-2 and berghepain-2 orthologues: implications for in vivo screens of inhibitors. FEMS Microbiol Lett249: 315–321. doi: 10.1016/j.femsle.2005.06.024 16019160
    • (2005) FEMS Microbiol Lett , vol.249 , pp. 315-321
    • Chan, C.1    Goh, L.L.2    Sim, T.S.3
  • 35
    • 33748331115 scopus 로고    scopus 로고
    • Duplication, gene conversion, and genetic diversity in the species-specific acyl-CoA synthetase gene family of Plasmodium falciparum
    • 1686041
    • Bethke LL, Zilversmit M, Nielsen K, Daily J, Volkman SK, et al. (2006) Duplication, gene conversion, and genetic diversity in the species-specific acyl-CoA synthetase gene family of Plasmodium falciparum. Mol Biochem Parasitol150: 10–24. doi: 10.1016/j.molbiopara.2006.06.004 16860410
    • (2006) Mol Biochem Parasitol , vol.150 , pp. 10-24
    • Bethke, L.L.1    Zilversmit, M.2    Nielsen, K.3    Daily, J.4    Volkman, S.K.5
  • 36
    • 84885869433 scopus 로고    scopus 로고
    • Chemical and genetic validation of thiamine utilization as an antimalarial drug target
    • 2380407
    • Chan XW, Wrenger C, Stahl K, Bergmann B, Winterberg M, et al. (2013) Chemical and genetic validation of thiamine utilization as an antimalarial drug target. Nat Commun4: 2060. doi: 10.1038/ncomms3060 23804074
    • (2013) Nat Commun , vol.4 , pp. 2060
    • Chan, X.W.1    Wrenger, C.2    Stahl, K.3    Bergmann, B.4    Winterberg, M.5
  • 37
    • 33846629425 scopus 로고    scopus 로고
    • Inhibition of Plasmodium falciparum choline kinase by hexadecyltrimethylammonium bromide: a possible antimalarial mechanism
    • 1714579
    • Choubey V, Maity P, Guha M, Kumar S, Srivastava K, et al. (2007) Inhibition of Plasmodium falciparum choline kinase by hexadecyltrimethylammonium bromide: a possible antimalarial mechanism. Antimicrob Agents Chemother51: 696–706. doi: 10.1128/AAC.00919-06 17145794
    • (2007) Antimicrob Agents Chemother , vol.51 , pp. 696-706
    • Choubey, V.1    Maity, P.2    Guha, M.3    Kumar, S.4    Srivastava, K.5
  • 38
    • 84988649528 scopus 로고    scopus 로고
    • Genetic Characterization of Plasmodium Putative Pantothenate Kinase Genes Reveals Their Essential Role in Malaria Parasite Transmission to the Mosquito
    • 2764431
    • Hart RJ, Cornillot E, Abraham A, Molina E, Nation CS, et al. (2016) Genetic Characterization of Plasmodium Putative Pantothenate Kinase Genes Reveals Their Essential Role in Malaria Parasite Transmission to the Mosquito. Sci Rep6: 33518. doi: 10.1038/srep33518 27644319
    • (2016) Sci Rep , vol.6 , pp. 33518
    • Hart, R.J.1    Cornillot, E.2    Abraham, A.3    Molina, E.4    Nation, C.S.5
  • 39
    • 84899912134 scopus 로고    scopus 로고
    • Type II fatty acid biosynthesis is essential for Plasmodium falciparum sporozoite development in the midgut of Anopheles mosquitoes
    • 2429744
    • van Schaijk BC, Kumar TR, Vos MW, Richman A, van Gemert GJ, et al. (2014) Type II fatty acid biosynthesis is essential for Plasmodium falciparum sporozoite development in the midgut of Anopheles mosquitoes. Eukaryot Cell13: 550–559. doi: 10.1128/EC.00264-13 24297444
    • (2014) Eukaryot Cell , vol.13 , pp. 550-559
    • van Schaijk, B.C.1    Kumar, T.R.2    Vos, M.W.3    Richman, A.4    van Gemert, G.J.5
  • 40
    • 84964584528 scopus 로고    scopus 로고
    • Integrated analysis of the Plasmodium species transcriptome
    • 2732247
    • Hoo R, Zhu L, Amaladoss A, Mok S, Natalang O, et al. (2016) Integrated analysis of the Plasmodium species transcriptome. EBioMedicine7: 255–266. doi: 10.1016/j.ebiom.2016.04.011 27322479
    • (2016) EBioMedicine , vol.7 , pp. 255-266
    • Hoo, R.1    Zhu, L.2    Amaladoss, A.3    Mok, S.4    Natalang, O.5
  • 41
    • 0036796061 scopus 로고    scopus 로고
    • A pantothenate auxotroph of Mycobacterium tuberculosis is highly attenuated and protects mice against tuberculosis
    • 1221908
    • Sambandamurthy VK, Wang X, Chen B, Russell RG, Derrick S, et al. (2002) A pantothenate auxotroph of Mycobacterium tuberculosis is highly attenuated and protects mice against tuberculosis. Nat Med8: 1171–1174. doi: 10.1038/nm765 12219086
    • (2002) Nat Med , vol.8 , pp. 1171-1174
    • Sambandamurthy, V.K.1    Wang, X.2    Chen, B.3    Russell, R.G.4    Derrick, S.5
  • 42
    • 78650002545 scopus 로고    scopus 로고
    • Large-scale in silico modeling of metabolic interactions between cell types in the human brain
    • 2110245
    • Lewis NE, Schramm G, Bordbar A, Schellenberger J, Andersen MP, et al. (2010) Large-scale in silico modeling of metabolic interactions between cell types in the human brain. Nat Biotechnol28: 1279–1285. doi: 10.1038/nbt.1711 21102456
    • (2010) Nat Biotechnol , vol.28 , pp. 1279-1285
    • Lewis, N.E.1    Schramm, G.2    Bordbar, A.3    Schellenberger, J.4    Andersen, M.P.5
  • 43
    • 84976877544 scopus 로고    scopus 로고
    • BiGG Models: A platform for integrating, standardizing and sharing genome-scale models
    • 2647645
    • King ZA, Lu J, Drager A, Miller P, Federowicz S, et al. (2016) BiGG Models: A platform for integrating, standardizing and sharing genome-scale models. Nucleic Acids Res44: D515–522. doi: 10.1093/nar/gkv1049 26476456
    • (2016) Nucleic Acids Res , vol.44 , pp. D515-D522
    • King, Z.A.1    Lu, J.2    Drager, A.3    Miller, P.4    Federowicz, S.5
  • 44
    • 84858439602 scopus 로고    scopus 로고
    • Constraining the metabolic genotype-phenotype relationship using a phylogeny of in silico methods
    • 2236711
    • Lewis NE, Nagarajan H, Palsson BO, (2012) Constraining the metabolic genotype-phenotype relationship using a phylogeny of in silico methods. Nat Rev Microbiol10: 291–305. doi: 10.1038/nrmicro2737 22367118
    • (2012) Nat Rev Microbiol , vol.10 , pp. 291-305
    • Lewis, N.E.1    Nagarajan, H.2    Palsson, B.O.3
  • 45
    • 34347258175 scopus 로고    scopus 로고
    • Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox
    • 1740663
    • Becker SA, Feist AM, Mo ML, Hannum G, Palsson BO, et al. (2007) Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox. Nat Protoc2: 727–738. doi: 10.1038/nprot.2007.99 17406635
    • (2007) Nat Protoc , vol.2 , pp. 727-738
    • Becker, S.A.1    Feist, A.M.2    Mo, M.L.3    Hannum, G.4    Palsson, B.O.5
  • 46
    • 79551662521 scopus 로고    scopus 로고
    • Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2.0
    • 2188609
    • Schellenberger J, Que R, Fleming RM, Thiele I, Orth JD, et al. (2011) Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2.0. Nat Protoc6: 1290–1307. doi: 10.1038/nprot.2011.308 21886097
    • (2011) Nat Protoc , vol.6 , pp. 1290-1307
    • Schellenberger, J.1    Que, R.2    Fleming, R.M.3    Thiele, I.4    Orth, J.D.5
  • 47
    • 84884972118 scopus 로고    scopus 로고
    • Plasmodium falciparum: generation of pure gametocyte culture by heparin treatment
    • 2405521
    • Miao J, Wang Z, Liu M, Parker D, Li X, et al. (2013) Plasmodium falciparum: generation of pure gametocyte culture by heparin treatment. Exp Parasitol135: 541–545. doi: 10.1016/j.exppara.2013.09.010 24055216
    • (2013) Exp Parasitol , vol.135 , pp. 541-545
    • Miao, J.1    Wang, Z.2    Liu, M.3    Parker, D.4    Li, X.5
  • 48
    • 78651301328 scopus 로고    scopus 로고
    • The sequence read archive
    • 2106282
    • Leinonen R, Sugawara H, Shumway M, International Nucleotide Sequence Database C (2011) The sequence read archive. Nucleic Acids Res39: D19–21. doi: 10.1093/nar/gkq1019 21062823
    • (2011) Nucleic Acids Res , vol.39 , pp. D19-21
    • Leinonen, R.1    Sugawara, H.2    Shumway, M.3
  • 49
    • 84876996918 scopus 로고    scopus 로고
    • TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
    • 2361840
    • Kim D, Pertea G, Trapnell C, Pimentel H, Kelley R, et al. (2013) TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions. Genome Biol14: R36. doi: 10.1186/gb-2013-14-4-r36 23618408
    • (2013) Genome Biol , vol.14 , pp. R36
    • Kim, D.1    Pertea, G.2    Trapnell, C.3    Pimentel, H.4    Kelley, R.5
  • 50
    • 68549104404 scopus 로고    scopus 로고
    • The Sequence Alignment/Map format and SAMtools
    • 1950594
    • Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, et al. (2009) The Sequence Alignment/Map format and SAMtools. Bioinformatics25: 2078–2079. doi: 10.1093/bioinformatics/btp352 19505943
    • (2009) Bioinformatics , vol.25 , pp. 2078-2079
    • Li, H.1    Handsaker, B.2    Wysoker, A.3    Fennell, T.4    Ruan, J.5
  • 51
    • 84928987900 scopus 로고    scopus 로고
    • HTSeq—a Python framework to work with high-throughput sequencing data
    • 2526070
    • Anders S, Pyl PT, Huber W, (2015) HTSeq—a Python framework to work with high-throughput sequencing data. Bioinformatics31: 166–169. doi: 10.1093/bioinformatics/btu638 25260700
    • (2015) Bioinformatics , vol.31 , pp. 166-169
    • Anders, S.1    Pyl, P.T.2    Huber, W.3
  • 52
    • 84865571240 scopus 로고    scopus 로고
    • Network context and selection in the evolution to enzyme specificity
    • 2293677
    • Nam H, Lewis NE, Lerman JA, Lee DH, Chang RL, et al. (2012) Network context and selection in the evolution to enzyme specificity. Science337: 1101–1104. doi: 10.1126/science.1216861 22936779
    • (2012) Science , vol.337 , pp. 1101-1104
    • Nam, H.1    Lewis, N.E.2    Lerman, J.A.3    Lee, D.H.4    Chang, R.L.5


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