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Retrotransposons of rice as a tool
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First, the Rice Genetics Cooperativ
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OverviewRice genetics from Mendel t
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Rice genetics from Mendelto functio
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nese cultivar Nipponbare. The chrom
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Gene symbolization in riceIn the ab
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Table 2. Some examples of mapping g
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and YAC libraries, respectively. Th
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gene from wild species is the intro
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ReferencesAbbasi FM, Brar DS, Carpe
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Nagao S. 1951. Genic analysis and l
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Yoshimura S, Yamanouchi U, Katayose
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important traits for which segregat
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trolled by a single recessive gene,
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AromaAromatic rice varieties often
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Submergence tolerance is an interes
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Kinoshita T, Maekawa M. 1986. Genet
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NotesAuthors’ addresses: J.N. Rut
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The Rockefeller Foundation has a lo
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Evolution and implementation of the
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Scientific progress and outputsIn t
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Another salient example is that of
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BOX NO. 1recent international works
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For the purposes of this discussion
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Because of the great diversity (sci
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eeders where final products to enha
- Page 68 and 69:
Chen S, Lin XH, Xu CG, Zhang Q. 200
- Page 70 and 71:
Toenniessen GH. 1998. Rice biotechn
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Molecular markers,genetic diversity
- Page 75 and 76:
Evolution and domestication of rice
- Page 77 and 78:
ABCDO. barthiiO. rufipogonO. longis
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Wild(O. rufipogon)Geographical diff
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South Asia (particularly on the wes
- Page 83 and 84:
al 1992, Sun et al 1996a,b,c), thou
- Page 85 and 86:
wild and cultivated types (Est10, W
- Page 87 and 88:
Cai HW, Morishima H. 2000a. Diversi
- Page 89:
Sato YI, Tang SX, Yang LU, Tang LH.
- Page 92 and 93:
The solid base laid by classical ri
- Page 94 and 95:
The synthesis shown in Figure 1 is
- Page 96 and 97:
Arabidopsis, long heralded as a “
- Page 98 and 99:
Monocots and eudicots: Is there sti
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Zhang H, Jia J, Gale MD, Devos KM.
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ility of rice productivity (Lu 1999
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Table 1 continuedIntrageneric class
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Molecular markers and evolutionary
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A100100521010078100991009894100O. s
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Two distinct types of sequences wer
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arthii and O. longistaminata, and t
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testing Ka/Ks between the homeologo
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Roschevicz RI. 1931. A contribution
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Miniature inverted repeattransposab
- Page 121 and 122:
eau and Wessler 1992, 1994), rice (
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MITEs as a source of allelic divers
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ATIR Olo-D* Olo-CTIRBCas Exp Wan Sn
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Le QH, Wright S, Yu Z, Bureau T. 20
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Microsatellite markers in rice:abun
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make the best SSR markers for rice.
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Predicted frequency100,00080,000Cla
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Relationship between SSRs and genes
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are indicated with RM locus designa
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SSRs have been used to define intro
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provide a bridge for moving rapidly
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Ishii T, McCouch SR. 2000. Microsat
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NotesAuthors’ addresses: S.R. McC
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traits of economic importance (Mack
- Page 152 and 153:
Table 2. Tagging and mapping of som
- Page 154 and 155:
even at the juvenile stage. Several
- Page 156 and 157:
Chen et al (2000) transferred the b
- Page 158 and 159:
genome sequence of rice, this will
- Page 160 and 161:
Kurata N, Nagamura Y, Yamamoto K, H
- Page 162 and 163:
Witcombe JR, Hash CT. 2000. Resista
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QTL mapping in rice:a few critical
- Page 167 and 168:
M-QTLsM-QTLs are defined as single
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(genetic/statistical models and cor
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Table 5. The percentage of three ty
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Table 7. Some environment-specific
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ferently to the environments. Simil
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(case 3), one may infer that this g
- Page 179 and 180:
Simultaneous QTL introgression and
- Page 181 and 182:
Doebley J, Stec A, Gustus C. 1995.
- Page 183:
Visscher PM, Haley CS, Thompson R.
- Page 186 and 187:
unavailable until recently with the
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Table 1 continued.Trait QTL a Flank
- Page 190 and 191:
the remaining parts of the linkage
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Table 3. QTLs detected for yield an
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Table 6. Correlations of various pa
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The functions of these sequences ne
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Structural and functional genomicsT
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The International Rice GenomeSequen
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the RGP, a PAC (P1-derived artifici
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Progress of sequencing in the RGPWe
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ice genome sequencing to organize a
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Strategies and techniquesfor finish
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uses the quality values generated b
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with the advanced techniques requir
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times contain sufficient data to ma
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amplification of regions that previ
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4. Structure problems—subcloning
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estriction maps or optical maps are
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nal assembly may point to areas tha
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McMurray AA, Sulston JE, Quail MA.
- Page 227 and 228:
Sequence-tagged connector/DNA finge
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1999). The development of multiple-
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Transposable elements in the rice H
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ers, maps, mapping populations, and
- Page 235 and 236: Miropeats-OSJNBa0065H03 1.2 cMThres
- Page 237: NotesAuthors’ addresses: R.A. Win
- Page 240 and 241: Sasaki 1997). Such analysis is ofte
- Page 242 and 243: ABNipponbare × KasalathF 2QTL anal
- Page 244 and 245: were classified into two groups bas
- Page 246 and 247: effective at determining the genoty
- Page 248 and 249: addition, some accessions of wild r
- Page 250 and 251: Sasaki T, Burr T. 2000. Internation
- Page 252 and 253: Mutational analysis has long been t
- Page 254 and 255: marked by a deletion/chromosomal re
- Page 256 and 257: analysis suggests that the mutation
- Page 258 and 259: For drought-response screening, our
- Page 260 and 261: Pi-7(t)Xa21Xa10Xa3Xa4Pi-1(t)Pi-k, P
- Page 262 and 263: Although mutants with discrete gene
- Page 265 and 266: Generation of T-DNA insertionaltagg
- Page 267 and 268: Aprobe AEEprobe BpGA1633RBgus Tn p3
- Page 269 and 270: Number of loci36%224%170%010 20 30F
- Page 271 and 272: Table 2. GUS assay in roots of tran
- Page 273 and 274: 1999, Krysan et al 1999, Sato et al
- Page 275 and 276: Transposons and functionalgenomics
- Page 277 and 278: cesses. To study the interactions a
- Page 279 and 280: Constructs were made with the aim o
- Page 281 and 282: RBcis-effect of the adjacent strong
- Page 283 and 284: Ac knockout mutagenesisThe Ac lines
- Page 285: Table 2 summarizes the transformati
- Page 289: NotesAuthors’ addresses: R. Greco
- Page 292 and 293: These include T-DNA (Azpiroz-Leehan
- Page 294 and 295: polyproteins and two identical 138-
- Page 296 and 297: mutant. The mutation in the ent-kau
- Page 298 and 299: primers (G1, G2) and two Tos17-spec
- Page 300 and 301: of insertion mutants by sequencing
- Page 302 and 303: Grandbastien M-A, Spielman A, Caboc
- Page 304 and 305: NotesAuthors’ addresses: H. Hiroc
- Page 306 and 307: human endeavor, greatly contributed
- Page 308 and 309: Equally important as the genomic in
- Page 310 and 311: Oryzabase is one of the most recent
- Page 312 and 313: Database structureA characteristic
- Page 314 and 315: types of users. An annotation datab
- Page 316 and 317: ReferencesAntonio BA, Fang Z, Sanch
- Page 319 and 320: Gene isolation and functionEnhancin
- Page 321 and 322: Enhancing deployment of genes forbl
- Page 323 and 324: mochi and Tsuyuake (Wu et al 1996).
- Page 325 and 326: tive indica rice varieties supports
- Page 327 and 328: transcription factor, resulting in
- Page 329 and 330: facilitate breeding durable resista
- Page 331 and 332: (Inukai et al 1994, Yu et al 1996,
- Page 333 and 334: Rossman AY, Howard RJ, Valent B. 19
- Page 335 and 336: Molecular signaling in diseaseresis
- Page 337 and 338:
AOsRac1IED II III IV 214aaOsRac1 KC
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Japonica rice variety Kinmaze, whic
- Page 341 and 342:
Table 1. Characteristics of lesion-
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an effective inducer of host resist
- Page 345:
Takahashi A, Kawasaki T, Henmi K, S
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et al 2000). Sequence analysis of t
- Page 350 and 351:
612-amino acid protein, including t
- Page 352 and 353:
Genetic dissection of the Xa21-medi
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ReferencesAnderson PA, Lawrence GJ,
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Isolation of candidate genesfor tol
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Materials and methodsPlant material
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Microarray hybridization and data a
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Table 3. Most abundant transcripts
- Page 365 and 366:
Microarray technologyThe rapid accu
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view of procedures, pitfalls, and n
- Page 369 and 370:
Log(2) ratio1.51.0OC104E01—WCP1OC
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Table 5. Strongly regulated transcr
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ReferencesAdams MD, Soares MB, Kerl
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Acknowledgments: We thank Chris Bor
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y cells separating during tissue de
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(Erwee and Goodwin 1983). The sympl
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tion between the abundance of CDK t
- Page 384 and 385:
in a complex of 105 kDa. These resu
- Page 386 and 387:
Drew MC, Jackson MB, Giffard S. 197
- Page 388 and 389:
Umeda M, Umeda-Hara C, Yamaguchi M,
- Page 390 and 391:
asexual reproduction through apomix
- Page 392 and 393:
MPManual pollination by breeders×
- Page 394 and 395:
Search for apomixis in riceThere ar
- Page 396 and 397:
Issues related to achieving synthet
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come and may use imprinting to achi
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Embryo-inducing geneInactive ablati
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M 1 3 3 4 5 6 7 8 9 10 11 12 13 14
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embryos, several genes characterist
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Our search for a rice homologue of
- Page 408 and 409:
sequenced the two rice DMC1 genes a
- Page 410 and 411:
Gustine DL, Sherwood RT, Huff DR. 1
- Page 412 and 413:
Peel MD, Carman JG, Leblanc O. 1997
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TransformationEngineering for virus
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Engineering for virusresistance in
- Page 419 and 420:
proteins, (2) the expression of dys
- Page 421 and 422:
Antisense and cosuppression RNA. Ex
- Page 423 and 424:
Table 1. Transgenic rice with patho
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the disease symptoms. Efforts from
- Page 427 and 428:
an ambisense coding strategy (Fig.
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first produced and shown to have vi
- Page 431 and 432:
McLean GD, Evans G. 1997. Some pote
- Page 433:
Waterhouse PM, Upadhyaya NM. 1998.
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duction in response to dehydration
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(KIKEKLPG) in the carboxyl terminus
- Page 440 and 441:
These three plasmids were used to t
- Page 442 and 443:
We now show the effects of the toba
- Page 444 and 445:
Since one major goal of plant scien
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Table 4. Copy number of transgenes
- Page 448 and 449:
Chan M-T, Chang H-H, Ho S-L, Tang W
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NotesAuthors’ address: Department
- Page 452 and 453:
initially fixed by phosphoenolpyruv
- Page 454 and 455:
High-level expression of maize C 4-
- Page 456 and 457:
The effect of illumination on PPDK
- Page 458 and 459:
ate in 2% O 2 can be limited by Pi
- Page 461 and 462:
Transgene integration,organization,
- Page 463 and 464:
duced by organogenesis, somatic emb
- Page 465 and 466:
ing transgene organization. FISH an
- Page 467 and 468:
ments and the integration of exogen
- Page 469 and 470:
Level 2: activation of local repair
- Page 471 and 472:
strongly suggested that plant facto
- Page 473 and 474:
other cases it was not. We observed
- Page 475 and 476:
Gorbunova V, Levy AA. 1997. Non-hom
- Page 477 and 478:
Gene silencing and itsreactivation
- Page 479 and 480:
Carbofuran (trade name, Furadan) is
- Page 481 and 482:
Akb4xHpaIIJKA52 (R 0)52-6 (R 1)52-9
- Page 483 and 484:
ABCDhptuidAmUbi1kb10.08.05.04.13.0F
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Fig. 4. X-gluc staining of germinat
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eflect different causes for silenci
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Table 4. Suppressors of silencing f
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Garrick D, Fiering S, Martin DI, Wh
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Xu Y, Buchholz WG, DeRose RT, Hall
- Page 496 and 497:
Rice molecular breeding workshopThi
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the working group can develop a net
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Rice genetics cooperativeA meeting