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Volumn 199, Issue 4, 2013, Pages 1060-1068

Evidence for adaptive evolution of low-temperature stress response genes in a Pooideae grass ancestor

Author keywords

Adaptive evolution; Climate adaptation; Cold; Habitat shift; Pooideae; Temperate grasses

Indexed keywords

ADAPTATION; ANCESTRY; CROP PLANT; GENE EXPRESSION; GENOMICS; GRASS; HABITAT TYPE; LOW TEMPERATURE; NATURAL SELECTION; PHYLOGENY; TEMPERATE ENVIRONMENT; TEMPERATURE TOLERANCE;

EID: 84881221369     PISSN: 0028646X     EISSN: 14698137     Source Type: Journal    
DOI: 10.1111/nph.12337     Document Type: Article
Times cited : (32)

References (54)
  • 1
    • 77955925113 scopus 로고    scopus 로고
    • Drought response in the spikes of barley: gene expression in the lemma, palea, awn, and seed
    • Abebe T, Melmaiee K, Berg V, Wise R. 2010. Drought response in the spikes of barley: gene expression in the lemma, palea, awn, and seed. Functional & Integrative Genomics 10: 191-205.
    • (2010) Functional & Integrative Genomics , vol.10 , pp. 191-205
    • Abebe, T.1    Melmaiee, K.2    Berg, V.3    Wise, R.4
  • 2
    • 77958471357 scopus 로고    scopus 로고
    • Differential expression analysis for sequence count data
    • Anders S, Huber W. 2010. Differential expression analysis for sequence count data. Genome Biology 11: R106.
    • (2010) Genome Biology , vol.11
    • Anders, S.1    Huber, W.2
  • 3
    • 0034998592 scopus 로고    scopus 로고
    • Evolutionary rates and species diversity in flowering plants
    • Barraclough TG, Savolainen V. 2001. Evolutionary rates and species diversity in flowering plants. Evolution 55: 677-683.
    • (2001) Evolution , vol.55 , pp. 677-683
    • Barraclough, T.G.1    Savolainen, V.2
  • 4
    • 41149089793 scopus 로고    scopus 로고
    • SeqinR 1.0-2: a contributed package to the R project for statistical computing devoted to biological sequences retrieval and analysis
    • Bastolla U, Porto M, Roman HE, Vendruscolo M, eds. New York, NY, USA: Springer Verlag
    • Charif D, Lobry RR. 2007. SeqinR 1.0-2: a contributed package to the R project for statistical computing devoted to biological sequences retrieval and analysis. In: Bastolla U, Porto M, Roman HE, Vendruscolo M, eds. Structural approaches to sequence evolution: molecules, networks, populations. New York, NY, USA: Springer Verlag, 207-232.
    • (2007) Structural approaches to sequence evolution: molecules, networks, populations , pp. 207-232
    • Charif, D.1    Lobry, R.R.2
  • 5
    • 0033080474 scopus 로고    scopus 로고
    • Mutations affecting induction of glycolytic and fermentative genes during germination and environmental stresses in Arabidopsis
    • Conley TR, Peng H-P, Shih M-C. 1999. Mutations affecting induction of glycolytic and fermentative genes during germination and environmental stresses in Arabidopsis. Plant Physiology 119: 599-608.
    • (1999) Plant Physiology , vol.119 , pp. 599-608
    • Conley, T.R.1    Peng, H.-P.2    Shih, M.-C.3
  • 7
    • 33847042204 scopus 로고    scopus 로고
    • Fructosyltransferase and invertase genes evolved by gene duplication and rearrangements: rice, perennial ryegrass, and wheat gene families
    • Francki MG, Walker E, Forster JW, Spangenberg G, Appels R. 2006. Fructosyltransferase and invertase genes evolved by gene duplication and rearrangements: rice, perennial ryegrass, and wheat gene families. Genome 49: 1081-1091.
    • (2006) Genome , vol.49 , pp. 1081-1091
    • Francki, M.G.1    Walker, E.2    Forster, J.W.3    Spangenberg, G.4    Appels, R.5
  • 10
    • 27544444402 scopus 로고    scopus 로고
    • Using GO for statistical analyses
    • Antoch J, ed. Prague, Czech Republic: Physica Verlag Heidelberg
    • Gentleman R 2004. Using GO for statistical analyses. In Antoch J, ed. Proceedings of COMPSTAT 2004. Prague, Czech Republic: Physica Verlag Heidelberg, 171-180.
    • (2004) Proceedings of COMPSTAT 2004 , pp. 171-180
    • Gentleman, R.1
  • 11
    • 0034800508 scopus 로고    scopus 로고
    • Phylogeny and subfamilial classification of the frasses (Poaceae)
    • Grass Phylogeny Working Group
    • Grass Phylogeny Working Group. 2001. Phylogeny and subfamilial classification of the frasses (Poaceae). Annals of the Missouri Botanical Garden 88: 373-457.
    • (2001) Annals of the Missouri Botanical Garden , vol.88 , pp. 373-457
  • 12
    • 84155164309 scopus 로고    scopus 로고
    • 4 origins
    • Grass Phylogeny Working Group II
    • 4 origins. New Phytologist 193: 304-312.
    • (2012) New Phytologist , vol.193 , pp. 304-312
  • 15
    • 84971090432 scopus 로고
    • Studies on the origin, evolution, and distribution of the Gramineae. V. The subfamily Festucoideae
    • Hartley W. 1973. Studies on the origin, evolution, and distribution of the Gramineae. V. The subfamily Festucoideae. Australian Journal of Botany 21: 201-234.
    • (1973) Australian Journal of Botany , vol.21 , pp. 201-234
    • Hartley, W.1
  • 16
    • 34248228084 scopus 로고    scopus 로고
    • Proteomic analysis of rice seedlings during cold stress
    • Hashimoto M, Komatsu S. 2007. Proteomic analysis of rice seedlings during cold stress. Proteomics 7: 1293-1302.
    • (2007) Proteomics , vol.7 , pp. 1293-1302
    • Hashimoto, M.1    Komatsu, S.2
  • 17
    • 1642372421 scopus 로고    scopus 로고
    • Phylogenetics and chromosomal evolution in the Poaceae (grasses)
    • Hilu KW. 2004. Phylogenetics and chromosomal evolution in the Poaceae (grasses). Australian Journal of Botany 52: 13-22.
    • (2004) Australian Journal of Botany , vol.52 , pp. 13-22
    • Hilu, K.W.1
  • 18
    • 3543050694 scopus 로고    scopus 로고
    • Transgenic perennial ryegrass plants expressing wheat fructosyltransferase genes accumulate increased amounts of fructan and acquire increased tolerance on a cellular level to freezing
    • Hisano H, Kanazawa A, Kawakami A, Yoshida M, Shimamoto Y, Yamada T. 2004. Transgenic perennial ryegrass plants expressing wheat fructosyltransferase genes accumulate increased amounts of fructan and acquire increased tolerance on a cellular level to freezing. Plant Science 167: 861-868.
    • (2004) Plant Science , vol.167 , pp. 861-868
    • Hisano, H.1    Kanazawa, A.2    Kawakami, A.3    Yoshida, M.4    Shimamoto, Y.5    Yamada, T.6
  • 19
    • 84858864696 scopus 로고    scopus 로고
    • Evolution of adaptive phenotypic traits without positive Darwinian selection
    • Hughes AL. 2012. Evolution of adaptive phenotypic traits without positive Darwinian selection. Heredity 108: 347-353.
    • (2012) Heredity , vol.108 , pp. 347-353
    • Hughes, A.L.1
  • 21
    • 0035103949 scopus 로고    scopus 로고
    • Evolutionary history of the grasses
    • Kellogg EA. 2001. Evolutionary history of the grasses. Plant Physiology 125: 1198-1205.
    • (2001) Plant Physiology , vol.125 , pp. 1198-1205
    • Kellogg, E.A.1
  • 22
  • 23
    • 43149124236 scopus 로고    scopus 로고
    • Differences in spontaneous mutation frequencies as a function of environmental stress in soil fungi at "Evolution Canyon", Israel
    • Lamb BC, Mandaokar S, Bahsoun B, Grishkan I, Nevo E. 2008. Differences in spontaneous mutation frequencies as a function of environmental stress in soil fungi at "Evolution Canyon", Israel. Proceedings of the National Academy of Sciences, USA 105: 5792-5796.
    • (2008) Proceedings of the National Academy of Sciences, USA , vol.105 , pp. 5792-5796
    • Lamb, B.C.1    Mandaokar, S.2    Bahsoun, B.3    Grishkan, I.4    Nevo, E.5
  • 25
    • 79961123152 scopus 로고    scopus 로고
    • RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome
    • Li B, Dewey CN. 2011. RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome. BMC Bioinformatics 12: 323.
    • (2011) BMC Bioinformatics , vol.12 , pp. 323
    • Li, B.1    Dewey, C.N.2
  • 27
    • 1842477452 scopus 로고    scopus 로고
    • The plasma membrane-bound phospholipase D delta enhances freezing tolerance in Arabidopsis thaliana
    • Li W, Li M, Zhang W, Welti R, Wang X. 2004. The plasma membrane-bound phospholipase D delta enhances freezing tolerance in Arabidopsis thaliana. Nature Biotechnology 22: 427-433.
    • (2004) Nature Biotechnology , vol.22 , pp. 427-433
    • Li, W.1    Li, M.2    Zhang, W.3    Welti, R.4    Wang, X.5
  • 28
    • 0141519279 scopus 로고    scopus 로고
    • OrthoMCL: identification of ortholog groups for eukaryotic genomes
    • Li L, Stoeckert CJ Jr, Roos DS. 2003. OrthoMCL: identification of ortholog groups for eukaryotic genomes. Genome Research 13: 2178-2189.
    • (2003) Genome Research , vol.13 , pp. 2178-2189
    • Li, L.1    Stoeckert Jr, C.J.2    Roos, D.S.3
  • 30
    • 23144455729 scopus 로고    scopus 로고
    • OrfPredictor: predicting protein-coding regions in EST-derived sequences
    • Min XJ, Butler G, Storms R, Tsang A. 2005. OrfPredictor: predicting protein-coding regions in EST-derived sequences. Nucleic Acids Research 33(Suppl. 2): W677-W680.
    • (2005) Nucleic Acids Research , vol.33 , Issue.SUPPL. 2
    • Min, X.J.1    Butler, G.2    Storms, R.3    Tsang, A.4
  • 33
    • 0015722319 scopus 로고
    • Slightly deleterious mutant substitutions in evolution
    • Ohta T. 1973. Slightly deleterious mutant substitutions in evolution. Nature 246: 96-98.
    • (1973) Nature , vol.246 , pp. 96-98
    • Ohta, T.1
  • 34
    • 1042304216 scopus 로고    scopus 로고
    • APE: analyses of phylogenetics and evolution in R language
    • Paradis E, Claude J, Strimmer K. 2004. APE: analyses of phylogenetics and evolution in R language. Bioinformatics 20: 289-290.
    • (2004) Bioinformatics , vol.20 , pp. 289-290
    • Paradis, E.1    Claude, J.2    Strimmer, K.3
  • 36
    • 84863304598 scopus 로고    scopus 로고
    • R Development Core Team. Vienna, Austria: R Foundation for Statistical Computing.
    • R Development Core Team. 2012. R: a language and environment for statistical computing. Vienna, Austria: R Foundation for Statistical Computing.
    • (2012) R: a language and environment for statistical computing
  • 37
    • 57749098695 scopus 로고    scopus 로고
    • Rpl33, a nonessential plastid-encoded ribosomal protein in tobacco, is required under cold stress conditions
    • Rogalski M, Schöttler MA, Thiele W, Schulze WX, Bock R. 2008. Rpl33, a nonessential plastid-encoded ribosomal protein in tobacco, is required under cold stress conditions. Plant Cell 20: 2221-2237.
    • (2008) Plant Cell , vol.20 , pp. 2221-2237
    • Rogalski, M.1    Schöttler, M.A.2    Thiele, W.3    Schulze, W.X.4    Bock, R.5
  • 38
    • 52149101564 scopus 로고    scopus 로고
    • Tracking the evolution of a cold stress associated gene family in cold tolerant grasses
    • Sandve SR, Rudi H, Asp T, Rognli OA. 2008. Tracking the evolution of a cold stress associated gene family in cold tolerant grasses. BMC Evolutionary Biology 8: 245.
    • (2008) BMC Evolutionary Biology , vol.8 , pp. 245
    • Sandve, S.R.1    Rudi, H.2    Asp, T.3    Rognli, O.A.4
  • 39
    • 77952002714 scopus 로고    scopus 로고
    • Did gene family expansions during the Eocene-Oligocene boundary climate cooling play a role in Pooideae adaptation to cool climates?
    • Sandve SR, Fjellheim S. 2010. Did gene family expansions during the Eocene-Oligocene boundary climate cooling play a role in Pooideae adaptation to cool climates? Molecular Ecology 19: 2075-2088.
    • (2010) Molecular Ecology , vol.19 , pp. 2075-2088
    • Sandve, S.R.1    Fjellheim, S.2
  • 40
    • 79951548848 scopus 로고    scopus 로고
    • phangorn: phylogenetic analysis in R
    • Schliep KP. 2011. phangorn: phylogenetic analysis in R. Bioinformatics 27: 592-593.
    • (2011) Bioinformatics , vol.27 , pp. 592-593
    • Schliep, K.P.1
  • 44
    • 84881236898 scopus 로고    scopus 로고
    • Classification of New World Grasses (Poaceae/Gramineae). [WWW document] URL [accessed on 5 February 2013].
    • Soreng RJ, Davidse G, Peterson PM, Zuloaga FO, Judziewicz EJ, Filgueiras TS, Morrone O, Romaschenko K. 2000. Classification of New World Grasses (Poaceae/Gramineae). [WWW document] URL http://www.tropicos.org/docs/meso/CLASSIFICATION%20OF%20world%20grasses%202012%20Oct%2018c.htm [accessed on 5 February 2013].
    • (2000)
    • Soreng, R.J.1    Davidse, G.2    Peterson, P.M.3    Zuloaga, F.O.4    Judziewicz, E.J.5    Filgueiras, T.S.6    Morrone, O.7    Romaschenko, K.8
  • 47
    • 33845789612 scopus 로고    scopus 로고
    • The association among gene expression responses to nine abiotic stress treatments in Arabidopsis thaliana
    • Swindell WR. 2006. The association among gene expression responses to nine abiotic stress treatments in Arabidopsis thaliana. Genetics 174: 1811-1824.
    • (2006) Genetics , vol.174 , pp. 1811-1824
    • Swindell, W.R.1
  • 50
    • 33745944196 scopus 로고    scopus 로고
    • Transcriptional regulatory networks in cellular responses and tolerance to dehydration and cold stresses
    • Yamaguchi-Shinozaki K, Shinozaki K. 2006. Transcriptional regulatory networks in cellular responses and tolerance to dehydration and cold stresses. Annual Review of Plant Biology 57: 781-803.
    • (2006) Annual Review of Plant Biology , vol.57 , pp. 781-803
    • Yamaguchi-Shinozaki, K.1    Shinozaki, K.2
  • 51
    • 34547803197 scopus 로고    scopus 로고
    • PAML 4: phylogenetic analysis by maximum likelihood
    • Yang Z. 2007. PAML 4: phylogenetic analysis by maximum likelihood. Molecular Biology and Evolution 24: 1586-1591.
    • (2007) Molecular Biology and Evolution , vol.24 , pp. 1586-1591
    • Yang, Z.1
  • 52
    • 79952136825 scopus 로고    scopus 로고
    • Statistical properties of the branch-site test of positive selection
    • Yang Z, dos Reis M. 2011. Statistical properties of the branch-site test of positive selection. Molecular Biology and Evolution 28: 1217-1228.
    • (2011) Molecular Biology and Evolution , vol.28 , pp. 1217-1228
    • Yang, Z.1    dos Reis, M.2
  • 53
    • 77952547843 scopus 로고    scopus 로고
    • Ice recrystallization inhibition proteins of perennial ryegrass enhance freezing tolerance
    • Zhang C, Fei SZ, Arora R, Hannapel DJ. 2010. Ice recrystallization inhibition proteins of perennial ryegrass enhance freezing tolerance. Planta 232: 155-164.
    • (2010) Planta , vol.232 , pp. 155-164
    • Zhang, C.1    Fei, S.Z.2    Arora, R.3    Hannapel, D.J.4
  • 54
    • 27844439855 scopus 로고    scopus 로고
    • Evaluation of an improved branch-site likelihood method for detecting positive selection at the molecular level
    • Zhang J, Nielsen R, Yang Z. 2005. Evaluation of an improved branch-site likelihood method for detecting positive selection at the molecular level. Molecular Biology and Evolution 22: 2472-2479.
    • (2005) Molecular Biology and Evolution , vol.22 , pp. 2472-2479
    • Zhang, J.1    Nielsen, R.2    Yang, Z.3


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