Abstract
We have previously developed more than 100,000 T-DNA insertion mutant populations in japonica rice. These include simple knockouts as well as those for activation tagging. T-DNA insertion sites have been determined from more than 50,000 lines. The database for insertion positions is now open to the public, and these tagging lines are widely distributed to members of the rice research community. To utilize these genetic resources more efficiently, we are summarizing the important features of these tagging vectors, rice varieties, and flanking sequences. We also provide methods for handling such materials.
This is a preview of subscription content, log in via an institution to check access.
Similar content being viewed by others
References
An G, Watson BD, Stachel S, Gordon MP, Nester EW (1985) New cloning vehicles for transformation of higher plants. EMBO J 4:277–284
An G, Ebert P, Mitra A, Ha S (1988) Binary vectors. In: Gelvin SB, Schilperoort RA (eds) Plant Molecular Biology Manual. Kluwer Academic Publishers, Dordrecht, The Netherlands, pp A3/1–19
An S, Park S, Jeong DH, Lee DY, Kang HG, An G (2003) Generation and analysis of end sequence database for T-DNA tagging lines in rice. Plant Physiol 133:2040–2047
Chen DH, Ronald PC (1999) A rapid DNA minipreparation method suitable for AFLP and other PCR applications. Plant Mol Biol Rep 17:53–57
Choung JI, Lee JK, Shin HT, Lee DT (1999) Growth characteristics and grain quality of different released rice varieties under nitrogen levels. Kor J Intl Agri 11:403–411
Goff SA, Ricke D, Lan TH, Presting G, Wang R, Briggs S (2002) A draft sequence of the rice genome (Oryza sativa L. ssp. japonica). Science 296:92–100
Hayashi H, Czaja I, Lubenow H, Schell J, Walden R (1992) Activation of a plant gene by T-DNA tagging: auxin-independent growth in vitro. Science 258:1350–1353
Henke W, Herdel K, Jung K, Schnorr D, Loening SA (1997) Betaine improves the PCR amplification of GC-rich DNA sequences. Nucleic Acids Res, 25:3957–3958
Jefferson RA, Kavanagh TA, Bevan MW (1987) GUS fusions: betaglucuronidase as a sensitive and versatile gene fusion marker in higher plants. EMBO J 6:3901–3907.
Jeon JS, Lee S, Jung KH, Jun SH, Jeong DH, Lee J, Kim C, Jang S, Yang K, Nam J, An K, Han MJ, Sung RJ, Choi HS, Yu JH, Choi JH, Cho SY, Cha SS, Kim SI, An G (2000a) T-DNA insertional mutagenesis for functional genomics in rice. Plant J 22:561–570
Jeon JS, Lee S, Jung KH, Jun SH, Kim C, An G. (2000b) Tissuepreferential expression of a rice alpha-tubulin gene, OsTubA1, mediated by the first intron. Plant Physiol 123:1005–1014
Jeon J, An G (2001) Gene tagging in rice: a high throughput system for functional genomics. Plant Sci 161:211–219
Jeong DH, An S, Kang HG, Moon S, Han JJ, Park S, Lee HS, An K, An G (2002) T-DNA insertional mutagenesis for activation tagging in rice. Plant Physiol 130:1636–1644
Jeong DH, An S, Park S, Kang HG, Park GG, Kim SR, Sim J, Kim YO, Kim MK, Kim J, Shin M, Jung M, An G (2006) Generation of a flanking sequence-tag database for activation-tagging lines in japonica rice. Plant J 45:123–132
Jorgensen R, Snyder C, Jones JGD (1987) T-DNA is organized predominantly in inverted repeat structure in plants transformed with Agrobacterium tumefaciens C58 derivatives. Mol Gen Genet 207:478–485
Jung KH, Han MJ, Lee YS, Kim YW, Hwang I, Kim MJ, Kim YK, Nahm BH, An G (2005) Rice Undeveloped Tapetum1 is a major regulator of early tapetum development. Plant Cell 17:2705–2722
Jung KH, Han MJ, Lee DY, Lee YS, Schreiber L, An G (2006) Waxdeficient anther1 is involved in cuticle and wax production in rice anther walls and is required for pollen development. Plant Cell 18:3015–3032
Kim SR, Lee J, Jun SH, Park S, Kang HG, Kwon S, An G (2003) Transgene structures in T-DNA-inserted rice plants. Plant Mol Biol 52:761–773
Kim SR, Jeon JS, An G (2011) Development of an efficient inverse PCR method for isolating gene tags from T-DNA insertional mutants in rice. Meth Mol Biol 678:139–146
Lee S, Jeon JS, Jung KH, An G (1999) Binary vectors for efficinet transformation of rice. J Plant Biol 42:310–316
Lee S, Choi SC, An G (2008) Rice SVP-group MADS-box proteins, OsMADS22 and OsMADS55, are negative regulators of brassinosteroid responses. Plant J 54:93–105
Lee S, Jeon US, Lee SJ, Kim YK, Persson DP, Husted S, Schjorring JK, Kakei Y, Masuda H, Nishizawa NK, An G (2009) Iron fortification of rice seeds through activation of the nicotianamine synthase gene. Proc Natl Acad Sci USA 106:22014–22019
Lee YS, Jeong DH, Lee DY, Yi J, Ryu CH, Kim SL, Jeong HJ, Choi SC, Jin P, Yang J, Cho LH, Choi H, An G (2010) OsCOL4 is a constitutive flowering repressor upstream of Ehd1 and downstream of OsphyB. Plant J 63:18–30
Lucca P, Ye XD, Potrykus I (2001) Effective selection and regeneration of transgenic rice plants with mannose as selective agent. Mol Breed 7:43–49
Miyao A, Tanaka K, Murata K, Sawaki H, Takeda S, Abe K, Shinozuka Y, Onosato K, Hirochika H (2003) Target site specificity of the Tos17 retrotransposon shows a preference for insertion within genes and against insertion in retrotransposon-rich regions of the genome. Plant Cell 15:1771–1780
Ra DS, Han SS, Min HS, Kim CK, Ryu HY (1997) Incidences of rice blast on new rice cultivars released in 1997 and some elite lines observed at different locations and in different years in Korea. Korean J. Plant Pathol 13:79–84
Ryu CH, You JH, Kang HG, Hur J, Kim YH, Han MJ, An K, Chung BC, Lee CH, An G (2004) Generation of T-DNA tagging lines with a bidirectional gene trap vector and the establishment of an insertion-site database. Plant Mol Biol 54:489–502
Ryu CH, Lee S, Cho LH, Kim SL, Lee YS, Choi SC, Jeong HJ, Yi J, Park SJ, Han CD, An G (2009) OsMADS50 and OsMADS56 function antagonistically in regulating long day (LD)-dependent flowering in rice. Plant Cell Environ 32:1412–1427
Tachibana K, Watanabe T, Sekizawa T, Takematsu T (1986) Action mechanism of bialaphos II: accumulation of ammonia in plants treated with bialaphos. J Pest Sci 11:33–37
Waterhouse PM, Helliwell CA (2003) Exploring plant genomes by RNA-induced gene silencing. Nat Rev Genet 4:29–38
Wu JL, Wu C, Lei C, Baraoidan M, Bordeos A, Madamba MR, Ramos-Pamplona M, Mauleon R, Portugal A, Ulat VJ, Bruskiewich R, Wang G, Leach J, Khush G, Leung H (2005) Chemical- and irradiation-induced mutants of indica rice IR64 for forward and reverse genetics. Plant Mol Biol 59:85–97
Author information
Authors and Affiliations
Corresponding author
Rights and permissions
About this article
Cite this article
Yi, J., An, G. Utilization of T-DNA tagging lines in rice. J. Plant Biol. 56, 85–90 (2013). https://doi.org/10.1007/s12374-013-0905-9
Received:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s12374-013-0905-9