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Volumn 79, Issue 6, 2013, Pages 1850-1858

Monitoring the single-cell stress response of the diatom Thalassiosira pseudonana by quantitative real-time reverse transcription-PCR

Author keywords

[No Author keywords available]

Indexed keywords

CELL POPULATIONS; CELL RESPONSE; ENVIRONMENTAL STRESS; EXPRESSION LEVELS; EXPRESSION PATTERNS; IRON DEPLETION; MODEL SPECIES; QUANTITATIVE MEASUREMENT; SINGLE CELLS; SINGLE-CELL LEVEL; STRESS CONDITION; STRESS RESPONSE; THALASSIOSIRA PSEUDONANA;

EID: 84874806641     PISSN: 00992240     EISSN: 10985336     Source Type: Journal    
DOI: 10.1128/AEM.03399-12     Document Type: Article
Times cited : (20)

References (70)
  • 1
    • 4544370545 scopus 로고    scopus 로고
    • Single-cell microbiology: tools, technologies, and applications
    • Brehm-Stecher BF, Johnson EA. 2004. Single-cell microbiology: tools, technologies, and applications. Microbiol. Mol. Biol. Rev. 68:538-559.
    • (2004) Microbiol. Mol. Biol. Rev. , vol.68 , pp. 538-559
    • Brehm-Stecher, B.F.1    Johnson, E.A.2
  • 2
    • 25444468618 scopus 로고    scopus 로고
    • Noise in gene expression: origins, consequences, and control
    • Raser JM, O'Shea EK. 2005. Noise in gene expression: origins, consequences, and control. Science 309:2010-2013.
    • (2005) Science , vol.309 , pp. 2010-2013
    • Raser, J.M.1    O'Shea, E.K.2
  • 4
    • 48249156189 scopus 로고    scopus 로고
    • Quantification of mRNA in single cells and modelling of RT-qPCR induced noise
    • Bengtsson M, Hemberg M, Rorsman P, Ståhlberg A. 2008. Quantification of mRNA in single cells and modelling of RT-qPCR induced noise. BMC Mol. Biol. 9:63.
    • (2008) BMC Mol. Biol. , vol.9 , pp. 63
    • Bengtsson, M.1    Hemberg, M.2    Rorsman, P.3    Ståhlberg, A.4
  • 11
    • 15544388848 scopus 로고    scopus 로고
    • Noise propagation in gene networks
    • Pedraza JM, van Oudenaarden A. 2005. Noise propagation in gene networks. Science 307:1965-1969.
    • (2005) Science , vol.307 , pp. 1965-1969
    • Pedraza, J.M.1    van Oudenaarden, A.2
  • 13
    • 34948874233 scopus 로고    scopus 로고
    • Cell-to-cell heterogeneity in growth rate and gene expression in Methylobacterium extorquens AM1
    • Strovas TJ, Sauter LM, Guo X, Lidstrom ME. 2007. Cell-to-cell heterogeneity in growth rate and gene expression in Methylobacterium extorquens AM1. J. Bacteriol. 189:7127-7133.
    • (2007) J. Bacteriol. , vol.189 , pp. 7127-7133
    • Strovas, T.J.1    Sauter, L.M.2    Guo, X.3    Lidstrom, M.E.4
  • 14
    • 0036790975 scopus 로고    scopus 로고
    • Intrinsic and extrinsic contributions to stochasticity in gene expression
    • U. S. A.
    • Swain PS, Elowitz MB, Siggia ED. 2002. Intrinsic and extrinsic contributions to stochasticity in gene expression. Proc. Natl. Acad. Sci. U. S. A. 99:12795-12800.
    • (2002) Proc. Natl. Acad. Sci. , vol.99 , pp. 12795-12800
    • Swain, P.S.1    Elowitz, M.B.2    Siggia, E.D.3
  • 16
    • 79959425832 scopus 로고    scopus 로고
    • Cellular heterogeneity and live cell arrays
    • Walling MA, Shepard JRE. 2011. Cellular heterogeneity and live cell arrays. Chem. Soc. Rev. 40:4049-4076.
    • (2011) Chem. Soc. Rev. , vol.40 , pp. 4049-4076
    • Walling, M.A.1    Shepard, J.R.E.2
  • 18
    • 34547683600 scopus 로고    scopus 로고
    • Diversity of the human gastrointestinal tract microbiota revisited
    • Rajilić-Stojanović M, Smidt H, De Vos WM. 2007. Diversity of the human gastrointestinal tract microbiota revisited. Environ. Microbiol. 9:2125-2136.
    • (2007) Environ. Microbiol , vol.9 , pp. 2125-2136
    • Rajilić-Stojanović, M.1    Smidt, H.2    De Vos, W.M.3
  • 20
    • 80455122815 scopus 로고    scopus 로고
    • Wholegenome expression analysis reveals a role for death-related genes in stress acclimation of the diatom Thalassiosira pseudonana
    • Thamatrakoln K, Korenovska O, Niheu AK, Bidle KD. 2012. Wholegenome expression analysis reveals a role for death-related genes in stress acclimation of the diatom Thalassiosira pseudonana. Environ. Microbiol. 14:67- 81.
    • (2012) Environ. Microbiol. , vol.14
    • Thamatrakoln, K.1    Korenovska, O.2    Niheu, A.K.3    Bidle, K.D.4
  • 21
    • 78650936859 scopus 로고    scopus 로고
    • Broad-scale environmental response and niche conservatism in lacustrine diatom communities
    • Bennett JR, Cumming BF, Ginn BK, Smol JP. 2010. Broad-scale environmental response and niche conservatism in lacustrine diatom communities. Global Ecol. Biogeogr. 19:724-732.
    • (2010) Global Ecol. Biogeogr. , vol.19 , pp. 724-732
    • Bennett, J.R.1    Cumming, B.F.2    Ginn, B.K.3    Smol, J.P.4
  • 22
    • 0030456630 scopus 로고    scopus 로고
    • Biodiversity, biogeography and conservation of diatoms
    • Mann D, Droop S. 1996. Biodiversity, biogeography and conservation of diatoms. Hydrobiologia 336:19-32.
    • (1996) Hydrobiologia , vol.336 , pp. 19-32
    • Mann, D.1    Droop, S.2
  • 24
    • 0029540174 scopus 로고
    • Production and dissolution of biogenic silica in the ocean-revised global estimates, comparison with regional data and relationship to biogenic sedimentation
    • Nelson D, Treguer P, Brzezinski M, Leynaert A, Queguiner B. 1995. Production and dissolution of biogenic silica in the ocean-revised global estimates, comparison with regional data and relationship to biogenic sedimentation. Glob. Biogeochem. Cycle 9:359-372.
    • (1995) Glob. Biogeochem. Cycle , vol.9 , pp. 359-372
    • Nelson, D.1    Treguer, P.2    Brzezinski, M.3    Leynaert, A.4    Queguiner, B.5
  • 26
    • 84855296494 scopus 로고    scopus 로고
    • The response of diatom central carbon metabolism to nitrogen starvation is different from that of green algae and higher plants
    • Hockin NL, Mock T, Mulholland F, Kopriva S, Malin G. 2012. The response of diatom central carbon metabolism to nitrogen starvation is different from that of green algae and higher plants. Plant Physiol. 158: 299-312.
    • (2012) Plant Physiol. , vol.158 , pp. 299-312
    • Hockin, N.L.1    Mock, T.2    Mulholland, F.3    Kopriva, S.4    Malin, G.5
  • 27
    • 0346343570 scopus 로고    scopus 로고
    • Influence of CO2, nitrate, phosphate, and silicate limitation on intracellular dimethylsulfoniopropionate in batch cultures of the coastal diatom Thalassiosira pseudonana
    • Bucciarelli E, Sunda WG. 2003. Influence of CO2, nitrate, phosphate, and silicate limitation on intracellular dimethylsulfoniopropionate in batch cultures of the coastal diatom Thalassiosira pseudonana. Limnol. Oceanogr. 48:2256-2265.
    • (2003) Limnol. Oceanogr. , vol.48 , pp. 2256-2265
    • Bucciarelli, E.1    Sunda, W.G.2
  • 31
    • 3242880793 scopus 로고    scopus 로고
    • Effect of iron limitation on cells of the diatom Cyclotella meneghiniana Kützing
    • Lewandowska J, Kosakowska A. 2004. Effect of iron limitation on cells of the diatom Cyclotella meneghiniana Kützing. Oceanologia 46:269-287.
    • (2004) Oceanologia , vol.46 , pp. 269-287
    • Lewandowska, J.1    Kosakowska, A.2
  • 33
    • 0030845742 scopus 로고    scopus 로고
    • What controls dissolved iron concentrations in the world ocean?
    • Johnson KS, Gordon RM, Coale KH. 1997. What controls dissolved iron concentrations in the world ocean? Mar. Chem. 57:137-161.
    • (1997) Mar. Chem. , vol.57 , pp. 137-161
    • Johnson, K.S.1    Gordon, R.M.2    Coale, K.H.3
  • 37
    • 79955094707 scopus 로고    scopus 로고
    • RT-qPCR based quantitative analysis of gene expression in single bacterial cells
    • Gao W, Zhang W, Meldrum DR. 2011. RT-qPCR based quantitative analysis of gene expression in single bacterial cells. J. Microbiol. Methods 85:221-227.
    • (2011) J. Microbiol. Methods , vol.85 , pp. 221-227
    • Gao, W.1    Zhang, W.2    Meldrum, D.R.3
  • 39
    • 73049174685 scopus 로고
    • Studies of marine planktonic diatoms.I. Cyclotella nana Hustedt and Detonula confervacea Cleve
    • Guillard RRL. 1962. Studies of marine planktonic diatoms. I. Cyclotella nana Hustedt and Detonula confervacea Cleve. Can. J. Microbiol. 8:229- 239.
    • (1962) Can. J. Microbiol. , vol.8
    • Guillard, R.R.L.1
  • 41
    • 77954383219 scopus 로고    scopus 로고
    • Automated selection and placement of single cells using vision-based feedback control
    • Anis Y, Holl M, Meldrum D. 2010. Automated selection and placement of single cells using vision-based feedback control. IEEE Trans. Automat. Sci. Eng. 7:598-606.
    • (2010) IEEE Trans. Automat. Sci. Eng. , vol.7 , pp. 598-606
    • Anis, Y.1    Holl, M.2    Meldrum, D.3
  • 43
    • 33845956004 scopus 로고
    • Nonparametric statistics
    • Siegel S. 1957. Nonparametric statistics. Am. Statistician 11:13-19.
    • (1957) Am. Statistician , vol.11 , pp. 13-19
    • Siegel, S.1
  • 44
    • 14044265394 scopus 로고    scopus 로고
    • Pitfalls of quantitative real-time reversetranscription polymerase chain reaction
    • Bustin SA, Nolan T. 2004. Pitfalls of quantitative real-time reversetranscription polymerase chain reaction. J. Biomol. Technol. 15:155-166.
    • (2004) J. Biomol. Technol. , vol.15 , pp. 155-166
    • Bustin, S.A.1    Nolan, T.2
  • 45
    • 1542328972 scopus 로고    scopus 로고
    • Properties of the reverse transcription reaction inmRNAquantification
    • Ståhlberg A, Håkansson J, Xian X, Semb H, Kubista M. 2004. Properties of the reverse transcription reaction inmRNAquantification. Clin. Chem. 50:509-515.
    • (2004) Clin. Chem. , vol.50 , pp. 509-515
    • Ståhlberg, A.1    Håkansson, J.2    Xian, X.3    Semb, H.4    Kubista, M.5
  • 49
    • 0036668567 scopus 로고    scopus 로고
    • Quantification of mRNA using real-time reverse transcription PCR (RT-PCR): trends and problems
    • Bustin SA. 2002. Quantification of mRNA using real-time reverse transcription PCR (RT-PCR): trends and problems. J. Mol. Endocrinol. 29: 23-39.
    • (2002) J. Mol. Endocrinol. , vol.29 , pp. 23-39
    • Bustin, S.A.1
  • 51
    • 21344471138 scopus 로고    scopus 로고
    • Real-time RT-PCR normalisation; strategies and considerations
    • Huggett J, Dheda K, Bustin S, Zumla A. 2005. Real-time RT-PCR normalisation; strategies and considerations. Genes Immun. 6:279-284.
    • (2005) Genes Immun. , vol.6 , pp. 279-284
    • Huggett, J.1    Dheda, K.2    Bustin, S.3    Zumla, A.4
  • 52
    • 0035710746 scopus 로고    scopus 로고
    • Analysis of relative gene expression data using real-time quantitative PCR and the 2(Delta Delta C(T)) method
    • Livak KJ, Schmittgen TD. 2001. Analysis of relative gene expression data using real-time quantitative PCR and the 2(Delta Delta C(T)) method. Methods 25:402- 408.
    • (2001) Methods , vol.25
    • Livak, K.J.1    Schmittgen, T.D.2
  • 53
    • 17344392308 scopus 로고    scopus 로고
    • A new mathematical model for relative quantification in real-time RT-PCR
    • doi:10.1093/nar/29.9.e45
    • Pfaffl MW. 2001. A new mathematical model for relative quantification in real-time RT-PCR. Nucleic Acids Res. 29:e45. doi:10.1093/nar/29.9.e45.
    • (2001) Nucleic Acids Res. , vol.29
    • Pfaffl, M.W.1
  • 54
    • 0035423813 scopus 로고    scopus 로고
    • Ribosomal 18S RNA prevails over glyceraldehyde-3-phosphate dehydrogenase and beta-actin genes as internal standard for quantitative comparison of mRNA levels in invasive and noninvasive human melanoma cell subpopulations
    • Goidin D, Mamessier A, Staquet MJ, Schmitt D, Berthier-Vergnes O. 2001. Ribosomal 18S RNA prevails over glyceraldehyde-3-phosphate dehydrogenase and beta-actin genes as internal standard for quantitative comparison of mRNA levels in invasive and noninvasive human melanoma cell subpopulations. Anal. Biochem. 295:17-21.
    • (2001) Anal. Biochem. , vol.295 , pp. 17-21
    • Goidin, D.1    Mamessier, A.2    Staquet, M.J.3    Schmitt, D.4    Berthier-Vergnes, O.5
  • 55
    • 0344531001 scopus 로고    scopus 로고
    • Normalization of reverse transcription quantitative-PCR with housekeeping genes in rice
    • Kim B-R, Nam H-Y, Kim S-U, Kim S-I, Chang Y-J. 2003. Normalization of reverse transcription quantitative-PCR with housekeeping genes in rice. Biotechnol. Lett. 25:1869-1872.
    • (2003) Biotechnol. Lett. , vol.25 , pp. 1869-1872
    • Kim, B.-R.1    Nam, H.-Y.2    Kim, S.-U.3    Kim, S.-I.4    Chang, Y.-J.5
  • 56
    • 33748180185 scopus 로고    scopus 로고
    • Development and evaluation of different normalization strategies for gene expression studies in Candida albicans biofilms by real-time PCR
    • Nailis H, Coenye T, Van Nieuwerburgh F, Deforce D, Nelis HJ. 2006. Development and evaluation of different normalization strategies for gene expression studies in Candida albicans biofilms by real-time PCR. BMC Mol. Biol. 7:25.
    • (2006) BMC Mol. Biol. , vol.7 , pp. 25
    • Nailis, H.1    Coenye, T.2    Van Nieuwerburgh, F.3    Deforce, D.4    Nelis, H.J.5
  • 57
    • 34547572323 scopus 로고    scopus 로고
    • Sequence analysis and transcriptional regulation of iron acquisition gens in two marine diatoms
    • Kustka AB, Allen AE, Morel FMM. 2007. Sequence analysis and transcriptional regulation of iron acquisition gens in two marine diatoms. J. Phycol. 43:715-729.
    • (2007) J. Phycol. , vol.43 , pp. 715-729
    • Kustka, A.B.1    Allen, A.E.2    Morel, F.M.M.3
  • 61
    • 25844433114 scopus 로고    scopus 로고
    • Gene expression profiling in single cells from the pancreatic islets of Langerhans reveals lognormal distribution of mRNA levels
    • Bengtsson M, Ståhlberg A, Rorsman P, Kubista M. 2005. Gene expression profiling in single cells from the pancreatic islets of Langerhans reveals lognormal distribution of mRNA levels. Genome Res. 15:1388- 1392.
    • (2005) Genome Res. , vol.15
    • Bengtsson, M.1    Ståhlberg, A.2    Rorsman, P.3    Kubista, M.4
  • 63
    • 0000801645 scopus 로고
    • Effects of growth irradiance and nitrogen limitation on photosynthetic energy conversion in photosystem II
    • Kolber Z, Zehr J, Falkowski P. 1988. Effects of growth irradiance and nitrogen limitation on photosynthetic energy conversion in photosystem II. Plant Physiol. 88:923-929.
    • (1988) Plant Physiol. , vol.88 , pp. 923-929
    • Kolber, Z.1    Zehr, J.2    Falkowski, P.3
  • 64
    • 0000114636 scopus 로고
    • Effect of iron limitation on photosynthesis in a marine diatom
    • Greene RM, Geider RJ, Falkowski PG. 1991. Effect of iron limitation on photosynthesis in a marine diatom. Limnol. Oceanogr. 36:1772-1782.
    • (1991) Limnol. Oceanogr. , vol.36 , pp. 1772-1782
    • Greene, R.M.1    Geider, R.J.2    Falkowski, P.G.3
  • 65
    • 79958810475 scopus 로고    scopus 로고
    • Real-time PCR of single bacterial cells on an array of adhering droplets
    • Shi X, Lin LI, Chen SY, Chao SH, Zhang W, Meldrum DR. 2011.Real-time PCR of single bacterial cells on an array of adhering droplets. Lab Chip 11:2276-2281.
    • (2011) Lab Chip , vol.11 , pp. 2276-2281
    • Shi, X.1    Lin, L.I.2    Chen, S.Y.3    Chao, S.H.4    Zhang, W.5    Meldrum, D.R.6
  • 68
    • 78649499977 scopus 로고    scopus 로고
    • Overview of single-cell analyses: microdevices and applications
    • Lindström S, Andersson-Svahn H. 2010. Overview of single-cell analyses: microdevices and applications. Lab Chip 10:3363-3372.
    • (2010) Lab Chip , vol.10 , pp. 3363-3372
    • Lindström, S.1    Andersson-Svahn, H.2
  • 69
    • 32644481938 scopus 로고    scopus 로고
    • Genome-wide identification and testing of superior reference genes for transcript normalization in Arabidopsis
    • Czechowski T, Stitt M, Altmann T, Udvardi MK, Scheible W-R. 2005. Genome-wide identification and testing of superior reference genes for transcript normalization in Arabidopsis. Plant Physiol. 139: 5-17.
    • (2005) Plant Physiol. , vol.139 , pp. 5-17
    • Czechowski, T.1    Stitt, M.2    Altmann, T.3    Udvardi, M.K.4    Scheible, W.-R.5
  • 70
    • 34247645532 scopus 로고    scopus 로고
    • Universal reference method for real-time PCR gene expression analysis of preimplantation embryos
    • Bower NI, Moser RJ, Hill JR, Lehnert SA. 2007. Universal reference method for real-time PCR gene expression analysis of preimplantation embryos. Biotechniques 42:199-206.
    • (2007) Biotechniques , vol.42 , pp. 199-206
    • Bower, N.I.1    Moser, R.J.2    Hill, J.R.3    Lehnert, S.A.4


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