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Volumn 58, Issue 2, 2007, Pages 253-265

Identification of stress-responsive genes in an indica rice (Oryza sativa L.) using ESTs generated from drought-stressed seedlings

Author keywords

Abiotic stress; Candidate genes; Drought; Stress responsive genes; Transcriptome

Indexed keywords

ABIOTIC STRESS; CANDIDATE GENES; STRESS-RESPONSIVE GENES; TRANSCRIPTOME;

EID: 33846847978     PISSN: 00220957     EISSN: 14602431     Source Type: Journal    
DOI: 10.1093/jxb/erl213     Document Type: Conference Paper
Times cited : (129)

References (66)
  • 2
    • 0030681260 scopus 로고    scopus 로고
    • The significance of digital gene expression profiles
    • Audic S, Claverie JM. 1997. The significance of digital gene expression profiles. Genome Research 7, 986-995.
    • (1997) Genome Research , vol.7 , pp. 986-995
    • Audic, S.1    Claverie, J.M.2
  • 3
    • 0036552202 scopus 로고    scopus 로고
    • Annotation and BAC/PAC localization of non-redundant ESTs from drought-stressed seedlings of an indica rice
    • Babu PR, Sekhar AC, Ithal N, Markandeya G, Reddy AR. 2002. Annotation and BAC/PAC localization of non-redundant ESTs from drought-stressed seedlings of an indica rice. Journal of Genetics 81, 25-44.
    • (2002) Journal of Genetics , vol.81 , pp. 25-44
    • Babu, P.R.1    Sekhar, A.C.2    Ithal, N.3    Markandeya, G.4    Reddy, A.R.5
  • 6
    • 0020458787 scopus 로고
    • Plant productivity and environment
    • Boyer JS. 1982. Plant productivity and environment. Science 218, 443-448.
    • (1982) Science , vol.218 , pp. 443-448
    • Boyer, J.S.1
  • 7
    • 0002915845 scopus 로고    scopus 로고
    • Responses to abiotic stresses
    • Buchanan B, Gruissem W, Rockville JR, eds, American Society of Plant Biologists
    • Bray E, Bailey-Serres J, Weretilnyk E. 2000. Responses to abiotic stresses. In: Buchanan B, Gruissem W, Rockville JR, eds. Biochemistry and molecular biology of plants. American Society of Plant Biologists, 1158-1203.
    • (2000) Biochemistry and molecular biology of plants , pp. 1158-1203
    • Bray, E.1    Bailey-Serres, J.2    Weretilnyk, E.3
  • 9
    • 0002340107 scopus 로고    scopus 로고
    • Yield loss due to drought, cold, and submergence in Asia
    • Evenson RE, Herdt RW, Hossain M, eds, Cary, NC: Oxford University Press
    • Dey MM, Upadhaya HK. 1996. Yield loss due to drought, cold, and submergence in Asia. In: Evenson RE, Herdt RW, Hossain M, eds. Rice research in Asia, progress and priorities. Cary, NC: Oxford University Press, 231-242.
    • (1996) Rice research in Asia, progress and priorities , pp. 231-242
    • Dey, M.M.1    Upadhaya, H.K.2
  • 11
    • 0031978181 scopus 로고    scopus 로고
    • Base-calling of automated sequencer traces using PHRED. II. Error probabilities
    • Ewing B, Green P. 1998. Base-calling of automated sequencer traces using PHRED. II. Error probabilities. Genome Research 8, 186-194.
    • (1998) Genome Research , vol.8 , pp. 186-194
    • Ewing, B.1    Green, P.2
  • 12
    • 0032742129 scopus 로고    scopus 로고
    • Large-scale statistical analyses of rice ESTs reveal correlated patterns of gene expression
    • Ewing RM, Ben Kahla A, Poirot O, Lopez F, Audic S, Claverie JM. 1999. Large-scale statistical analyses of rice ESTs reveal correlated patterns of gene expression. Genome Research 9, 950-959.
    • (1999) Genome Research , vol.9 , pp. 950-959
    • Ewing, R.M.1    Ben Kahla, A.2    Poirot, O.3    Lopez, F.4    Audic, S.5    Claverie, J.M.6
  • 13
    • 0037153127 scopus 로고    scopus 로고
    • Sequence and analysis of rice chromosome 4
    • Feng Q, Zhang Y, Hao P, et al. 2002. Sequence and analysis of rice chromosome 4. Nature 420, 316-320.
    • (2002) Nature , vol.420 , pp. 316-320
    • Feng, Q.1    Zhang, Y.2    Hao, P.3
  • 14
    • 0036006045 scopus 로고    scopus 로고
    • Comparison of RNA expression profiles based on maize expressed sequence tag frequency analysis and microarray hybridization
    • Fernandes J, Brendel V, Gai X, et al. 2002. Comparison of RNA expression profiles based on maize expressed sequence tag frequency analysis and microarray hybridization. Plant Physiology 128, 896-910.
    • (2002) Plant Physiology , vol.128 , pp. 896-910
    • Fernandes, J.1    Brendel, V.2    Gai, X.3
  • 15
    • 0034887203 scopus 로고    scopus 로고
    • Creating the gene ontology resource: Design and implementation
    • Gene Ontology Consortium
    • Gene Ontology Consortium. 2001. Creating the gene ontology resource: design and implementation. Genome Research 11, 1425-1433.
    • (2001) Genome Research , vol.11 , pp. 1425-1433
  • 17
    • 0037023349 scopus 로고    scopus 로고
    • A draft sequence of the rice genome (Oryza sativa L. ssp. japonica)
    • Goff SA, Ricke D, Lan TH, et al. 2002. A draft sequence of the rice genome (Oryza sativa L. ssp. japonica). Science 296, 92-100.
    • (2002) Science , vol.296 , pp. 92-100
    • Goff, S.A.1    Ricke, D.2    Lan, T.H.3
  • 18
    • 0020484488 scopus 로고
    • An improved algorithm for matching biological sequences
    • Gotoh O. 1982. An improved algorithm for matching biological sequences. Journal of Molecular Biology 162, 705-708.
    • (1982) Journal of Molecular Biology , vol.162 , pp. 705-708
    • Gotoh, O.1
  • 19
    • 1642506317 scopus 로고    scopus 로고
    • Robust-Long SAGE (RL-SAGE): A substantially improved Long SAGE method for gene discovery and transcriptome analysis
    • Gowda M, Jantasuriyarat C, Dean RA, Wang GL. 2004. Robust-Long SAGE (RL-SAGE): a substantially improved Long SAGE method for gene discovery and transcriptome analysis. Plant Physiology 134, 890-897.
    • (2004) Plant Physiology , vol.134 , pp. 890-897
    • Gowda, M.1    Jantasuriyarat, C.2    Dean, R.A.3    Wang, G.L.4
  • 21
    • 85032132015 scopus 로고
    • Gene expression under temperature stresses
    • Howarth CJ, Ougham HJ. 1993. Gene expression under temperature stresses. New Phytologist 125, 1-26.
    • (1993) New Phytologist , vol.125 , pp. 1-26
    • Howarth, C.J.1    Ougham, H.J.2
  • 22
    • 0032849859 scopus 로고    scopus 로고
    • CAP3: A DNA sequence assembly program
    • Huang X, Madan A. 1999. CAP3: a DNA sequence assembly program. Genome Research 9, 868-877.
    • (1999) Genome Research , vol.9 , pp. 868-877
    • Huang, X.1    Madan, A.2
  • 23
    • 84907150192 scopus 로고    scopus 로고
    • The map-based sequence of the rice
    • International Rice Genome Sequencing Project
    • International Rice Genome Sequencing Project. 2005. The map-based sequence of the rice. Nature 436, 793-800.
    • (2005) Nature , vol.436 , pp. 793-800
  • 25
    • 26444488564 scopus 로고    scopus 로고
    • What it will take to Feed 5.0 Billion Rice consumers in 2030
    • Khush GS. 2005. What it will take to Feed 5.0 Billion Rice consumers in 2030. Plant Molecular Biology 59, 1-6.
    • (2005) Plant Molecular Biology , vol.59 , pp. 1-6
    • Khush, G.S.1
  • 26
    • 0037624063 scopus 로고    scopus 로고
    • Collection, mapping and annotation of over 28 000 cDNA clones from japonica rice
    • Kikuchi S, Satoh K, Nagata T, et al. 2003. Collection, mapping and annotation of over 28 000 cDNA clones from japonica rice. Science 301, 376-379.
    • (2003) Science , vol.301 , pp. 376-379
    • Kikuchi, S.1    Satoh, K.2    Nagata, T.3
  • 27
    • 0036909761 scopus 로고    scopus 로고
    • Transcriptome changes for Arabidopsis in response to salt, osmotic, and cold stress
    • Kreps JA, Wu Y, Chang HS, Zhu T, Wang X, Harper JF. 2002. Transcriptome changes for Arabidopsis in response to salt, osmotic, and cold stress. Plant Physiology 230, 2129-2141.
    • (2002) Plant Physiology , vol.230 , pp. 2129-2141
    • Kreps, J.A.1    Wu, Y.2    Chang, H.S.3    Zhu, T.4    Wang, X.5    Harper, J.F.6
  • 28
    • 0029664413 scopus 로고    scopus 로고
    • Oxidative stress induced heat shock factor phosphorylation and HSF-dependent activation of yeast metallothionein gene transcription
    • Liu XD, Thiele DJ. 1996. Oxidative stress induced heat shock factor phosphorylation and HSF-dependent activation of yeast metallothionein gene transcription. Genes and Development 10, 592-603.
    • (1996) Genes and Development , vol.10 , pp. 592-603
    • Liu, X.D.1    Thiele, D.J.2
  • 30
    • 27944491475 scopus 로고    scopus 로고
    • Functional genomics of drought-stress response in rice: Transcript mapping of annotated unigenes of an indica rice (Oryza sativa L. cv. Nagina 22)
    • Markandeya G, Babu PR, Lachagari VBR, Feltus FA, Paterson AH, Reddy AR. 2005. Functional genomics of drought-stress response in rice: transcript mapping of annotated unigenes of an indica rice (Oryza sativa L. cv. Nagina 22). Current Science 89, 496-514.
    • (2005) Current Science , vol.89 , pp. 496-514
    • Markandeya, G.1    Babu, P.R.2    Lachagari, V.B.R.3    Feltus, F.A.4    Paterson, A.H.5    Reddy, A.R.6
  • 32
    • 0036796369 scopus 로고    scopus 로고
    • Current methods of gene prediction, their strengths and weaknesses
    • Mathe C, Sagot MF, Schiex T, Rouze P. 2002. Current methods of gene prediction, their strengths and weaknesses. Nucleic Acids Research 30, 4103-4117.
    • (2002) Nucleic Acids Research , vol.30 , pp. 4103-4117
    • Mathe, C.1    Sagot, M.F.2    Schiex, T.3    Rouze, P.4
  • 34
    • 0033375845 scopus 로고    scopus 로고
    • Transcript profiling in rice (Oryza sativa L.) seedlings using serial analysis of gene expression (SAGE)
    • Matsumura H, Nirasawa S, Terauchi R. 1999. Transcript profiling in rice (Oryza sativa L.) seedlings using serial analysis of gene expression (SAGE). The Plant Journal 20, 719-726.
    • (1999) The Plant Journal , vol.20 , pp. 719-726
    • Matsumura, H.1    Nirasawa, S.2    Terauchi, R.3
  • 35
    • 0029824775 scopus 로고    scopus 로고
    • Water-deficit tolerance and field performance of transgenic alfalfa overexpressing superoxide dismutase
    • McKersie BD, Bowley SR, Harjanto E, Leprince O. 1996. Water-deficit tolerance and field performance of transgenic alfalfa overexpressing superoxide dismutase. Plant Physiology 111, 1177-1181.
    • (1996) Plant Physiology , vol.111 , pp. 1177-1181
    • McKersie, B.D.1    Bowley, S.R.2    Harjanto, E.3    Leprince, O.4
  • 39
    • 0035024584 scopus 로고    scopus 로고
    • Overexpression of the tobacco Tsi1 gene encoding an EREBP/AP2-type transcription factor enhances resistance against pathogen attack and osmotic stress in tobacco
    • Park JM, Park CJ, Lee SB, Ham BK, Shin R, Paek KH. 2001. Overexpression of the tobacco Tsi1 gene encoding an EREBP/AP2-type transcription factor enhances resistance against pathogen attack and osmotic stress in tobacco. The Plant Cell 13, 1035-46.
    • (2001) The Plant Cell , vol.13 , pp. 1035-1046
    • Park, J.M.1    Park, C.J.2    Lee, S.B.3    Ham, B.K.4    Shin, R.5    Paek, K.H.6
  • 40
    • 9144230726 scopus 로고    scopus 로고
    • Monitoring expression profiles of rice genes under cold, drought, and high-salinity stresses and abscisic acid application using cDNA microarray and RNA gel-blot analyses
    • Rabbani MA, Maruyama K, Abe H, et al. 2003. Monitoring expression profiles of rice genes under cold, drought, and high-salinity stresses and abscisic acid application using cDNA microarray and RNA gel-blot analyses. Plant Physiology 133, 1755-1767.
    • (2003) Plant Physiology , vol.133 , pp. 1755-1767
    • Rabbani, M.A.1    Maruyama, K.2    Abe, H.3
  • 41
    • 33846791143 scopus 로고    scopus 로고
    • Reddy AR, et al. 2002b. Novel EST enrichment with normalized cDNA libraries from drought-stressed rice (Oryza sativa L. cv. Nagina 22). www.ncbi.nlm.nih.gov/dbest.
    • Reddy AR, et al. 2002b. Novel EST enrichment with normalized cDNA libraries from drought-stressed rice (Oryza sativa L. cv. Nagina 22). www.ncbi.nlm.nih.gov/dbest.
  • 42
    • 0036008835 scopus 로고    scopus 로고
    • Novel genes are enriched in normalized cDNA libraries from drought-stressed seedlings of rice (Oryza sativa L. subsp. indica cv. Nagina 22)
    • Reddy AR, Ramakrishna W, Sekhar AC, Ithal N, Babu PR, Bonaldo MF, Soares MB, Bennetzen JL. 2002a. Novel genes are enriched in normalized cDNA libraries from drought-stressed seedlings of rice (Oryza sativa L. subsp. indica cv. Nagina 22). Genome 45, 204-211.
    • (2002) Genome , vol.45 , pp. 204-211
    • Reddy, A.R.1    Ramakrishna, W.2    Sekhar, A.C.3    Ithal, N.4    Babu, P.R.5    Bonaldo, M.F.6    Soares, M.B.7    Bennetzen, J.L.8
  • 43
    • 0030771838 scopus 로고    scopus 로고
    • Overexpression of glutathione S-transferase/glutathione peroxidase enhances the growth of transgenic tobacco seedlings during stress
    • Roxas VP, Smith Jr RK, Allen ER, Allen RD. 1997. Overexpression of glutathione S-transferase/glutathione peroxidase enhances the growth of transgenic tobacco seedlings during stress. Nature Biotechnology 15, 988-991.
    • (1997) Nature Biotechnology , vol.15 , pp. 988-991
    • Roxas, V.P.1    Smith Jr, R.K.2    Allen, E.R.3    Allen, R.D.4
  • 44
    • 0037153190 scopus 로고    scopus 로고
    • The genome sequence and structure of rice chromosome 1
    • Sasaki T, Matsumoto T, Yamamoto K, et al. 2002. The genome sequence and structure of rice chromosome 1. Nature 420, 312-316.
    • (2002) Nature , vol.420 , pp. 312-316
    • Sasaki, T.1    Matsumoto, T.2    Yamamoto, K.3
  • 45
    • 0028518632 scopus 로고
    • Toward cataloguing all rice genes: Large-scale sequencing of randomly chosen rice cDNAs from a callus cDNA library
    • Sasaki T, Song J, Koga-Ban Y, et al. 1994. Toward cataloguing all rice genes: large-scale sequencing of randomly chosen rice cDNAs from a callus cDNA library. The Plant Journal 6, 615-624.
    • (1994) The Plant Journal , vol.6 , pp. 615-624
    • Sasaki, T.1    Song, J.2    Koga-Ban, Y.3
  • 46
    • 19044378214 scopus 로고    scopus 로고
    • Monitoring the expression pattern of around 7000 Arabidopsis genes under ABA treatments using a full-length cDNA microarray
    • Seki M, Ishida J, Narusaka M, et al. 2002b. Monitoring the expression pattern of around 7000 Arabidopsis genes under ABA treatments using a full-length cDNA microarray. Functional Integrative Genomics 2, 282-291.
    • (2002) Functional Integrative Genomics , vol.2 , pp. 282-291
    • Seki, M.1    Ishida, J.2    Narusaka, M.3
  • 48
    • 0036679053 scopus 로고    scopus 로고
    • Monitoring the expression profiles of 7000 Arabidopsis genes under drought, cold and high-salinity stresses using a full-length cDNA microarray
    • Seki M, Narusaka M, Ishida J, et al. 2002a. Monitoring the expression profiles of 7000 Arabidopsis genes under drought, cold and high-salinity stresses using a full-length cDNA microarray. The Plant Journal 31, 279-292.
    • (2002) The Plant Journal , vol.31 , pp. 279-292
    • Seki, M.1    Narusaka, M.2    Ishida, J.3
  • 51
    • 84864870821 scopus 로고    scopus 로고
    • Comparative genetic mapping in rice (Oryza sativa L.) and sorghum (Sorghum bicolor L
    • PhD thesis, University of Hyderabad
    • Sivarama Prasad L. 2005. Comparative genetic mapping in rice (Oryza sativa L.) and sorghum (Sorghum bicolor L. Moench) using rice ESTs as RFLPs. PhD thesis, University of Hyderabad.
    • (2005) Moench) using rice ESTs as RFLPs
    • Sivarama Prasad, L.1
  • 53
    • 28344440471 scopus 로고    scopus 로고
    • Gene expression profiling in rice young panicle and vegetative organs and identification of panicle-specific genes through known gene functions
    • DOI 10.1007/s00438-005-0043-2
    • Tang J, Xia H, Li D, et al. 2005. Gene expression profiling in rice young panicle and vegetative organs and identification of panicle-specific genes through known gene functions. Molecular Genetics and Genomics 274, DOI 10.1007/s00438-005-0043-2.
    • (2005) Molecular Genetics and Genomics , vol.274
    • Tang, J.1    Xia, H.2    Li, D.3
  • 54
    • 0037624063 scopus 로고    scopus 로고
    • Collection, mapping, and annotation of over 28 000 cDNA clones from japonica rice
    • The Rice Full-Length cDNA Consortium
    • The Rice Full-Length cDNA Consortium. 2003. Collection, mapping, and annotation of over 28 000 cDNA clones from japonica rice. Science 301, 376-379.
    • (2003) Science , vol.301 , pp. 376-379
  • 55
    • 0032161654 scopus 로고    scopus 로고
    • Role of cold-responsive genes in plant freezing tolerance
    • Thomashow MF. 1998. Role of cold-responsive genes in plant freezing tolerance. Plant Physiology 118, 1-8.
    • (1998) Plant Physiology , vol.118 , pp. 1-8
    • Thomashow, M.F.1
  • 57
    • 0001210550 scopus 로고
    • Random sequencing of cDNA libraries reveals a variety of expressed genes in cultured cells of rice (Oryza sativa L.)
    • Uchimiya H, Kidou S, Shimazaki T, et al. 1992. Random sequencing of cDNA libraries reveals a variety of expressed genes in cultured cells of rice (Oryza sativa L.). The Plant Journal 2, 1005-1009.
    • (1992) The Plant Journal , vol.2 , pp. 1005-1009
    • Uchimiya, H.1    Kidou, S.2    Shimazaki, T.3
  • 58
    • 0028445313 scopus 로고
    • Expressed sequence tags from cultured cells of rice (Oryza sativa L.) under stressed conditions: Analysis of transcripts of genes engaged in ATP generating pathways
    • Umeda M, Hara C, Matsubayashi Y, Li H, Liu Q, Tadokoro F, Aotsuka S, Uchimiya H. 1994. Expressed sequence tags from cultured cells of rice (Oryza sativa L.) under stressed conditions: analysis of transcripts of genes engaged in ATP generating pathways. Plant Molecular Biology 25, 469-478.
    • (1994) Plant Molecular Biology , vol.25 , pp. 469-478
    • Umeda, M.1    Hara, C.2    Matsubayashi, Y.3    Li, H.4    Liu, Q.5    Tadokoro, F.6    Aotsuka, S.7    Uchimiya, H.8
  • 59
    • 0031200862 scopus 로고    scopus 로고
    • The major intrinsic protein family of Arabidopsis has 23 members that form three distinct groups with functional aquaporins in each group
    • Weig A, Deswarte C, Chrispeels MJ. 1997. The major intrinsic protein family of Arabidopsis has 23 members that form three distinct groups with functional aquaporins in each group. Plant Physiology 114, 1347-57.
    • (1997) Plant Physiology , vol.114 , pp. 1347-1357
    • Weig, A.1    Deswarte, C.2    Chrispeels, M.J.3
  • 61
    • 0037023384 scopus 로고    scopus 로고
    • A draft sequence of the rice genome (Oryza sativa L. ssp. indica)
    • Yu J, Hu S, Wang J, et al. 2002. A draft sequence of the rice genome (Oryza sativa L. ssp. indica). Science 296, 79-92.
    • (2002) Science , vol.296 , pp. 79-92
    • Yu, J.1    Hu, S.2    Wang, J.3
  • 62
    • 20144366003 scopus 로고    scopus 로고
    • The genomes of Oryza sativa: A history of duplications
    • Yu J, Wang J, Lin W, et al. 2005. The genomes of Oryza sativa: a history of duplications. PLoS Biology 3, e38.
    • (2005) PLoS Biology , vol.3
    • Yu, J.1    Wang, J.2    Lin, W.3
  • 63
    • 20444502606 scopus 로고    scopus 로고
    • Features of the expressed sequences revealed by a large-scale analysis of ESTs from a normalized cDNA library of the elite indica rice cultivar Minghui 63
    • Zhang J, Feng Q, Jin C, Qiu D, Zhang L, Xie K, Yuan D, Han B, Zhang Q, Wang S. 2005. Features of the expressed sequences revealed by a large-scale analysis of ESTs from a normalized cDNA library of the elite indica rice cultivar Minghui 63. The Plant Journal 42, 772-780.
    • (2005) The Plant Journal , vol.42 , pp. 772-780
    • Zhang, J.1    Feng, Q.2    Jin, C.3    Qiu, D.4    Zhang, L.5    Xie, K.6    Yuan, D.7    Han, B.8    Zhang, Q.9    Wang, S.10
  • 65
    • 9144231248 scopus 로고    scopus 로고
    • BGI-RIS: An integrated information resource and comparative analysis workbench for rice genomics
    • Zhao W, Wang J, He X, et al. 2004. BGI-RIS: an integrated information resource and comparative analysis workbench for rice genomics. Nucleic Acids Research 32, 377-382.
    • (2004) Nucleic Acids Research , vol.32 , pp. 377-382
    • Zhao, W.1    Wang, J.2    He, X.3
  • 66
    • 19544368437 scopus 로고    scopus 로고
    • Characterization of a rice class II metallothionein gene: Tissue expression patterns and induction in response to abiotic factors
    • Zhou GK, Xu YF, Liu JY. 2005. Characterization of a rice class II metallothionein gene: tissue expression patterns and induction in response to abiotic factors. Journal of Plant Physiology 162, 686-696.
    • (2005) Journal of Plant Physiology , vol.162 , pp. 686-696
    • Zhou, G.K.1    Xu, Y.F.2    Liu, J.Y.3


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