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Volumn 105, Issue , 2014, Pages 144-150

Proteome variance differences within populations of European whitefish (Coregonus lavaretus) originating from contrasting salinity environments

Author keywords

Adaptation; Baltic Sea; Early life development; G protein coupled receptors; Label free proteomics; Salinity stress

Indexed keywords

PROTEOME; FISH PROTEIN;

EID: 84901827281     PISSN: 18743919     EISSN: 18767737     Source Type: Journal    
DOI: 10.1016/j.jprot.2013.12.019     Document Type: Article
Times cited : (13)

References (56)
  • 1
    • 79955613183 scopus 로고    scopus 로고
    • Impact of gene expression noise on organismal fitness and the efficacy of natural selection
    • Wang Z., Zhang J.Z. Impact of gene expression noise on organismal fitness and the efficacy of natural selection. Proc Natl Acad Sci U S A 2011, 108:E67-E76.
    • (2011) Proc Natl Acad Sci U S A , vol.108
    • Wang, Z.1    Zhang, J.Z.2
  • 2
    • 33645524495 scopus 로고    scopus 로고
    • Variation within and among species in gene expression: raw material for evolution
    • Whitehead A., Crawford D.L. Variation within and among species in gene expression: raw material for evolution. Mol Ecol 2006, 15:1197-1211.
    • (2006) Mol Ecol , vol.15 , pp. 1197-1211
    • Whitehead, A.1    Crawford, D.L.2
  • 3
    • 3042591076 scopus 로고    scopus 로고
    • Common pattern of evolution of gene expression level and protein sequence in Drosophila
    • Nuzhdin S.V., Wayne M.L., Harmon K.L., McIntyre L.M. Common pattern of evolution of gene expression level and protein sequence in Drosophila. Mol Biol Evol 2004, 21:1308-1317.
    • (2004) Mol Biol Evol , vol.21 , pp. 1308-1317
    • Nuzhdin, S.V.1    Wayne, M.L.2    Harmon, K.L.3    McIntyre, L.M.4
  • 4
    • 53549123008 scopus 로고    scopus 로고
    • Nature, nurture, or chance: stochastic gene expression and its consequences
    • Raj A., van Oudenaarden A. Nature, nurture, or chance: stochastic gene expression and its consequences. Cell 2008, 135:216-226.
    • (2008) Cell , vol.135 , pp. 216-226
    • Raj, A.1    van Oudenaarden, A.2
  • 5
    • 0037030713 scopus 로고    scopus 로고
    • Hsp90 as a capacitor of phenotypic variation
    • Queitsch C., Sangster T.A., Lindquist S. Hsp90 as a capacitor of phenotypic variation. Nature 2002, 417:618-624.
    • (2002) Nature , vol.417 , pp. 618-624
    • Queitsch, C.1    Sangster, T.A.2    Lindquist, S.3
  • 6
    • 33745220278 scopus 로고    scopus 로고
    • Single-cell proteomic analysis of S-cerevisiae reveals the architecture of biological noise
    • Newman J.R.S., Ghaemmaghami S., Ihmels J., Breslow D.K., Noble M., DeRisi J.L., et al. Single-cell proteomic analysis of S-cerevisiae reveals the architecture of biological noise. Nature 2006, 441:840-846.
    • (2006) Nature , vol.441 , pp. 840-846
    • Newman, J.R.S.1    Ghaemmaghami, S.2    Ihmels, J.3    Breslow, D.K.4    Noble, M.5    DeRisi, J.L.6
  • 7
    • 2942555282 scopus 로고    scopus 로고
    • Stochastic gene expression in fluctuating environments
    • Thattai M., van Oudenaarden A. Stochastic gene expression in fluctuating environments. Genetics 2004, 167:523-530.
    • (2004) Genetics , vol.167 , pp. 523-530
    • Thattai, M.1    van Oudenaarden, A.2
  • 8
    • 25444489027 scopus 로고    scopus 로고
    • Phenotypic diversity, population growth, and information in fluctuating environments
    • Kussell E., Leibler S. Phenotypic diversity, population growth, and information in fluctuating environments. Science 2005, 309:2075-2078.
    • (2005) Science , vol.309 , pp. 2075-2078
    • Kussell, E.1    Leibler, S.2
  • 11
    • 70350651269 scopus 로고    scopus 로고
    • Global patterns of cis variation in human cells revealed by high-density allelic expression analysis
    • 1216-U78
    • Ge B., Pokholok D.K., Kwan T., Grundberg E., Morcos L., Verlaan D.J., et al. Global patterns of cis variation in human cells revealed by high-density allelic expression analysis. Nat Genet 2009, 41:1216-U78.
    • (2009) Nat Genet , vol.41
    • Ge, B.1    Pokholok, D.K.2    Kwan, T.3    Grundberg, E.4    Morcos, L.5    Verlaan, D.J.6
  • 13
    • 77950460661 scopus 로고    scopus 로고
    • Understanding mechanisms underlying human gene expression variation with RNA sequencing
    • Pickrell J.K., Marioni J.C., Pai A.A., Degner J.F., Engelhardt B.E., Nkadori E., et al. Understanding mechanisms underlying human gene expression variation with RNA sequencing. Nature 2010, 464:768-772.
    • (2010) Nature , vol.464 , pp. 768-772
    • Pickrell, J.K.1    Marioni, J.C.2    Pai, A.A.3    Degner, J.F.4    Engelhardt, B.E.5    Nkadori, E.6
  • 15
    • 0036007438 scopus 로고    scopus 로고
    • Microarrays in ecology and evolution: a preview
    • Gibson G. Microarrays in ecology and evolution: a preview. Mol Ecol 2002, 11:17-24.
    • (2002) Mol Ecol , vol.11 , pp. 17-24
    • Gibson, G.1
  • 16
    • 29244468298 scopus 로고    scopus 로고
    • Uncovering evolutionary patterns of gene expression using microarrays
    • Ranz J.M., Machado C.A. Uncovering evolutionary patterns of gene expression using microarrays. Trends Ecol Evol 2006, 21:29-37.
    • (2006) Trends Ecol Evol , vol.21 , pp. 29-37
    • Ranz, J.M.1    Machado, C.A.2
  • 17
    • 47649132170 scopus 로고    scopus 로고
    • The environmental contribution to gene expression profiles
    • Gibson G. The environmental contribution to gene expression profiles. Nat Rev Genet 2008, 9:575-581.
    • (2008) Nat Rev Genet , vol.9 , pp. 575-581
    • Gibson, G.1
  • 18
    • 0036789519 scopus 로고    scopus 로고
    • Variation in gene expression within and among natural populations
    • Oleksiak M.F., Churchill G.A., Crawford D.L. Variation in gene expression within and among natural populations. Nat Genet 2002, 32:261-266.
    • (2002) Nat Genet , vol.32 , pp. 261-266
    • Oleksiak, M.F.1    Churchill, G.A.2    Crawford, D.L.3
  • 19
    • 79952181726 scopus 로고    scopus 로고
    • Population proteomics: quantitative variation within and among populations in cardiac protein expression
    • Rees B.B., Andacht T., Skripnikova E., Crawford D.L. Population proteomics: quantitative variation within and among populations in cardiac protein expression. Mol Biol Evol 2011, 28:1271-1279.
    • (2011) Mol Biol Evol , vol.28 , pp. 1271-1279
    • Rees, B.B.1    Andacht, T.2    Skripnikova, E.3    Crawford, D.L.4
  • 20
    • 46249106059 scopus 로고    scopus 로고
    • Gene expression variation in African and European populations of Drosophila melanogaster
    • Hutter S., Saminadin-Peter S.S., Stephan W., Parsch J. Gene expression variation in African and European populations of Drosophila melanogaster. Genome Biol 2008, 9.
    • (2008) Genome Biol , vol.9
    • Hutter, S.1    Saminadin-Peter, S.S.2    Stephan, W.3    Parsch, J.4
  • 22
    • 11244260808 scopus 로고    scopus 로고
    • Natural variation in cardiac metabolism and gene expression in Fundulus heteroclitus
    • Oleksiak M.F., Roach J.L., Crawford D.L. Natural variation in cardiac metabolism and gene expression in Fundulus heteroclitus. Nat Genet 2005, 37:67-72.
    • (2005) Nat Genet , vol.37 , pp. 67-72
    • Oleksiak, M.F.1    Roach, J.L.2    Crawford, D.L.3
  • 23
    • 78049444975 scopus 로고    scopus 로고
    • Gene expression variability within and between human populations and implications toward disease susceptibility
    • Li J.J., Liu Y., Kim T., Min R.Q., Zhang Z.L. Gene expression variability within and between human populations and implications toward disease susceptibility. PLoS Comput Biol 2010, 6.
    • (2010) PLoS Comput Biol , vol.6
    • Li, J.J.1    Liu, Y.2    Kim, T.3    Min, R.Q.4    Zhang, Z.L.5
  • 24
    • 84863724279 scopus 로고    scopus 로고
    • A proteomics approach reveals divergent molecular responses to salinity in populations of European whitefish (Coregonus lavaretus)
    • Papakostas S., Vasemagi A., Vaha J.-P., Himberg M., Peil L., Primmer C.R. A proteomics approach reveals divergent molecular responses to salinity in populations of European whitefish (Coregonus lavaretus). Mol Ecol 2012, 21:3516-3530.
    • (2012) Mol Ecol , vol.21 , pp. 3516-3530
    • Papakostas, S.1    Vasemagi, A.2    Vaha, J.-P.3    Himberg, M.4    Peil, L.5    Primmer, C.R.6
  • 26
    • 1442301549 scopus 로고    scopus 로고
    • Extracellular Ca2+-sensing receptors - an overview
    • Chang W.H., Shoback D. Extracellular Ca2+-sensing receptors - an overview. Cell Calcium 2004, 35:183-196.
    • (2004) Cell Calcium , vol.35 , pp. 183-196
    • Chang, W.H.1    Shoback, D.2
  • 27
    • 39949083370 scopus 로고    scopus 로고
    • Extracellular calcium-sensing receptors in fishes
    • Loretz C.A. Extracellular calcium-sensing receptors in fishes. Comp Biochem Physiol A Mol Integr Physiol 2008, 149:225-245.
    • (2008) Comp Biochem Physiol A Mol Integr Physiol , vol.149 , pp. 225-245
    • Loretz, C.A.1
  • 28
    • 84856560698 scopus 로고    scopus 로고
    • PathVar: analysis of gene and protein expression variance in cellular pathways using microarray data
    • Glaab E., Schneider R. PathVar: analysis of gene and protein expression variance in cellular pathways using microarray data. Bioinformatics 2012, 28:446-447.
    • (2012) Bioinformatics , vol.28 , pp. 446-447
    • Glaab, E.1    Schneider, R.2
  • 29
    • 34548183872 scopus 로고    scopus 로고
    • Protocol for micro-purification, enrichment, pre-fractionation and storage of peptides for proteomics using StageTips
    • Rappsilber J., Mann M., Ishihama Y. Protocol for micro-purification, enrichment, pre-fractionation and storage of peptides for proteomics using StageTips. Nat Protoc 2007, 2:1896-1906.
    • (2007) Nat Protoc , vol.2 , pp. 1896-1906
    • Rappsilber, J.1    Mann, M.2    Ishihama, Y.3
  • 30
    • 71549117585 scopus 로고    scopus 로고
    • Combination of FASP and stagetip-based fractionation allows in-depth analysis of the hippocampal membrane proteome
    • Wisniewski J.R., Zougman A., Mann M. Combination of FASP and stagetip-based fractionation allows in-depth analysis of the hippocampal membrane proteome. J Proteome Res 2009, 8:5674-5678.
    • (2009) J Proteome Res , vol.8 , pp. 5674-5678
    • Wisniewski, J.R.1    Zougman, A.2    Mann, M.3
  • 31
    • 77956873627 scopus 로고    scopus 로고
    • Tackling the widespread and critical impact of batch effects in high-throughput data
    • Leek J.T., Scharpf R.B., Bravo H.C., Simcha D., Langmead B., Johnson W.E., et al. Tackling the widespread and critical impact of batch effects in high-throughput data. Nat Rev Genet 2010, 11:733-739.
    • (2010) Nat Rev Genet , vol.11 , pp. 733-739
    • Leek, J.T.1    Scharpf, R.B.2    Bravo, H.C.3    Simcha, D.4    Langmead, B.5    Johnson, W.E.6
  • 32
    • 84865576726 scopus 로고    scopus 로고
    • Quantitative mass spectrometry in proteomics: critical review update from 2007 to the present
    • Bantscheff M., Lemeer S., Savitski M.M., Kuster B. Quantitative mass spectrometry in proteomics: critical review update from 2007 to the present. Anal Bioanal Chem 2012, 404:939-965.
    • (2012) Anal Bioanal Chem , vol.404 , pp. 939-965
    • Bantscheff, M.1    Lemeer, S.2    Savitski, M.M.3    Kuster, B.4
  • 34
    • 57449099865 scopus 로고    scopus 로고
    • MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification
    • Cox J., Mann M. MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification. Nat Biotechnol 2008, 26:1367-1372.
    • (2008) Nat Biotechnol , vol.26 , pp. 1367-1372
    • Cox, J.1    Mann, M.2
  • 35
    • 77956322236 scopus 로고    scopus 로고
    • Proteomic profiling of early life stages of European grayling (Thymallus thymallus)
    • Papakostas S., Vollestad L.A., Primmer C.R., Leder E.H. Proteomic profiling of early life stages of European grayling (Thymallus thymallus). J Proteome Res 2010, 9:4790-4800.
    • (2010) J Proteome Res , vol.9 , pp. 4790-4800
    • Papakostas, S.1    Vollestad, L.A.2    Primmer, C.R.3    Leder, E.H.4
  • 36
    • 27644555055 scopus 로고    scopus 로고
    • Interpretation of shotgun proteomic data - the protein inference problem
    • Nesvizhskii A.I., Aebersold R. Interpretation of shotgun proteomic data - the protein inference problem. Mol Cell Proteomics 2005, 4:1419-1440.
    • (2005) Mol Cell Proteomics , vol.4 , pp. 1419-1440
    • Nesvizhskii, A.I.1    Aebersold, R.2
  • 37
    • 79952708051 scopus 로고    scopus 로고
    • Extracting gene function from protein-protein interactions using Quantitative BAC InteraCtomics (QUBIC)
    • Hubner N.C., Mann M. Extracting gene function from protein-protein interactions using Quantitative BAC InteraCtomics (QUBIC). Methods 2011, 53:453-459.
    • (2011) Methods , vol.53 , pp. 453-459
    • Hubner, N.C.1    Mann, M.2
  • 39
    • 0042424602 scopus 로고    scopus 로고
    • Statistical significance for genomewide studies
    • Storey J.D., Tibshirani R. Statistical significance for genomewide studies. Proc Natl Acad Sci U S A 2003, 100:9440-9445.
    • (2003) Proc Natl Acad Sci U S A , vol.100 , pp. 9440-9445
    • Storey, J.D.1    Tibshirani, R.2
  • 40
    • 84879015776 scopus 로고    scopus 로고
    • Annotated genes and nonannotated genomes: cross-species use of Gene Ontology in ecology and evolution research
    • Primmer C.R., Papakostas S., Leder E.H., Davis M.J., Ragan M.A. Annotated genes and nonannotated genomes: cross-species use of Gene Ontology in ecology and evolution research. Mol Ecol 2013, 22:3216-3241.
    • (2013) Mol Ecol , vol.22 , pp. 3216-3241
    • Primmer, C.R.1    Papakostas, S.2    Leder, E.H.3    Davis, M.J.4    Ragan, M.A.5
  • 41
  • 43
    • 79960610118 scopus 로고    scopus 로고
    • REVIGO summarizes and visualizes long lists of Gene Ontology terms
    • Supek F., Bosnjak M., Skunca N., Smuc T. REVIGO summarizes and visualizes long lists of Gene Ontology terms. PLoS One 2011, 6.
    • (2011) PLoS One , vol.6
    • Supek, F.1    Bosnjak, M.2    Skunca, N.3    Smuc, T.4
  • 44
    • 34748903523 scopus 로고    scopus 로고
    • New insights into fish ion regulation and mitochondrion-rich cells
    • Hwang P.P., Lee T.H. New insights into fish ion regulation and mitochondrion-rich cells. Comp Biochem Physiol A Mol Integr Physiol 2007, 148:479-497.
    • (2007) Comp Biochem Physiol A Mol Integr Physiol , vol.148 , pp. 479-497
    • Hwang, P.P.1    Lee, T.H.2
  • 45
    • 77954947810 scopus 로고    scopus 로고
    • The HSP70 chaperone machinery: J proteins as drivers of functional specificity
    • Kampinga H.H., Craig E.A. 'The HSP70 chaperone machinery: J proteins as drivers of functional specificity. Nat Rev Mol Cell Biol 2010, 11:579-592.
    • (2010) Nat Rev Mol Cell Biol , vol.11 , pp. 579-592
    • Kampinga, H.H.1    Craig, E.A.2
  • 46
    • 33646200035 scopus 로고    scopus 로고
    • Prolactin and growth hormone in fish osmoregulation
    • Sakamoto T., McCormick S.D. Prolactin and growth hormone in fish osmoregulation. Gen Comp Endocrinol 2006, 147:24-30.
    • (2006) Gen Comp Endocrinol , vol.147 , pp. 24-30
    • Sakamoto, T.1    McCormick, S.D.2
  • 47
    • 84880141750 scopus 로고    scopus 로고
    • Common functional targets of adaptive micro- and macro-evolutionary divergence in killifish
    • Whitehead A., Zhang S.J., Roach J.L., Galvez F. Common functional targets of adaptive micro- and macro-evolutionary divergence in killifish. Mol Ecol 2013, 22:3780-3796.
    • (2013) Mol Ecol , vol.22 , pp. 3780-3796
    • Whitehead, A.1    Zhang, S.J.2    Roach, J.L.3    Galvez, F.4
  • 49
    • 44849142385 scopus 로고    scopus 로고
    • Cascading transcriptional effects of a naturally occurring frameshift mutation in Saccharomyces cerevisiae
    • Brown K.M., Landry C.R., Hartl D.L., Cavalieri D. Cascading transcriptional effects of a naturally occurring frameshift mutation in Saccharomyces cerevisiae. Mol Ecol 2008, 17:2985-2997.
    • (2008) Mol Ecol , vol.17 , pp. 2985-2997
    • Brown, K.M.1    Landry, C.R.2    Hartl, D.L.3    Cavalieri, D.4
  • 52
    • 84888291044 scopus 로고    scopus 로고
    • Genetic biodiversity in the Baltic Sea: species-specific patterns challenge management
    • Wennerström Lovisa, Ryman Nils, Utter Fred M., Ab Ghani Nurul Izza, André Carl, DeFaveri Jacquelin, et al. Genetic biodiversity in the Baltic Sea: species-specific patterns challenge management. Biodivers Conserv 2013, 22:3045-3065.
    • (2013) Biodivers Conserv , vol.22 , pp. 3045-3065
    • Wennerström, L.1    Ryman, N.2    Utter, F.M.3    Ab Ghani, N.I.4    André, C.5    DeFaveri, J.6
  • 53
    • 34547572949 scopus 로고    scopus 로고
    • Is proteomics the new genomics?
    • Cox J., Mann M. Is proteomics the new genomics?. Cell 2007, 130:395-398.
    • (2007) Cell , vol.130 , pp. 395-398
    • Cox, J.1    Mann, M.2
  • 54
    • 84871297843 scopus 로고    scopus 로고
    • Next-generation proteomics: towards an integrative view of proteome dynamics
    • Altelaar A.F.M., Munoz J., Heck A.J.R. Next-generation proteomics: towards an integrative view of proteome dynamics. Nat Rev Genet 2013, 14:35-48.
    • (2013) Nat Rev Genet , vol.14 , pp. 35-48
    • Altelaar, A.F.M.1    Munoz, J.2    Heck, A.J.R.3


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