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Author Ogiso-Tanaka E., Matsubara K., Yamamoto S., Nonoue Y., Wu J., Fujisawa H., Ishikubo H., Tanaka T., Ando T., Matsumoto T., Yano M.
Title Natural Variation of the RICE FLOWERING LOCUS T 1 Contributes to flowering time Divergence in Rice.
Abstract:
In rice (Oryza sativa L.), there is a diversity in flowering time that is strictly genetically regulated. Some indica cultivars show extremely late flowering under long-day conditions, but little is known about the gene(s) involved. Here, we demonstrate that functional defects in the florigen gene RFT1 are the main cause of late flowering in an indica cultivar, Nona Bokra. Mapping and complementation studies revealed that sequence polymorphisms in the RFT1 regulatory and coding regions are likely to cause late flowering under long-day conditions. We detected polymorphisms in the promoter region that lead to reduced expression levels of RFT1. We also identified an amino acid substitution (E105K) that leads to a functional defect in Nona Bokra RFT1. Sequencing of the RFT1 region in rice accessions from a global collection showed that the E105K mutation is found only in indica, and indicated a strong association between the RFT1 haplotype and extremely late flowering in a functional Hd1 background. Furthermore, SNPs in the regulatory region of RFT1 and the E105K substitution in 1,397 accessions show strong linkage disequilibrium with a flowering time-associated SNP. Although the defective E105K allele of RFT1 (but not of another florigen gene, Hd3a) is found in many cultivars, relative rate tests revealed no evidence for differential rate of evolution of these genes. The ratios of nonsynonymous to synonymous substitutions suggest that the E105K mutation resulting in the defect in RFT1 occurred relatively recently. These findings indicate that natural mutations in RFT1 provide flowering time divergence under long-day conditions.
Journal PLoS ONE
Country Japan
Volume 8(10)
Pages e75959
Year 2013
PubMed ID 24098411
PubMed Central ID 3788028
DOI 10.1371/journal.pone.0075959
URL -
Relation
Gene FTL1 FTL10 FTL11 FTL12 FTL13 FTL4 FTL5 FTL6 FTL7 FTL8 FTL9 HD3A HD5 HD6 RFT1 SE1
INSD AB838256 AB838257 AB838258 AB838259 AB838260 AB838261 AB838262 AB838263 AB838264 AB838265 AB838266 AB838267 AB838268 AB838269 AB838270 AB838271 AB838272 AB838273 AB838274 AB838275 AB838276 AB838277 AB838278 AB838279 AB838280 AB838281 AB838282 AB838283 AB838284 AB838285 AB838286 AB838287 AB838288 AB838289 AB838290 AB838291 AB838292 AB838293 AB838294 AB838295 AB838296 AB838297 AB838298 AB838299 AB838300 AB838301 AB838302 AB838303 AB838304 AB838305 AB838306 AB838307 AB838308 AB838309 AB838310 AB838311 AB838312 AB838313 AB838314 AB838315 AB838316 AB838317 AB838318 AB838319 AB838320 AB838321 AB838322 AB838323 AB838324 AB838325 AB838326 AB838327 AB838328 AB838329 AB838330 AB838331 AB838332 AB838333 AB838334 AB838335 AB838336 AB838337 AB838338 AB838339 AB838340 AB838341 AB838342 AB838343 AB838344 AB838345 AB838346 AB838347 AB838348 AB838349 AB838350 AB838351 AB838352 AB838353 AB838354 AB838355 AB838356 AB838357 AB838358 AB838359 AB838360 AB838361 AB838362 AB838363 AB838364 AB838365 AB838366 AB838367 AB838368 AB838369 AB838370 AB838371 AB838372 AB838373 AB838374 AB838375 AB838376 AB838377 AB838378 AB838379 AB838380 AB838381 AB838382 AB838383 AB838384 AB838385 AB838386 AB838387 AB838388 AB838389 AB838390 AB838391 AB838392 AB838393 AB838394 AB838395 AB838396 AB838397 AB838398 AB838399 AB838400 AB838401 AB838402 AB838403 AB838404 AB838405 AB838406 AB838407 AB838408 AB838409 AB838410 AB838411 AB838412 AB838413 AB838414 AB838415 AB838416 AB838417 AB838418 AB838419 AB838420 AB838421 AB838422 AB838423 AB838424 AB838425 AB838426 AB838427 AB838428 AB838429 AB838430 AB838431 AB838432 AB838433 AB838434 AB838435 AB838436 AB838437 AB838438 AB838439 AB838440 AB838441 AB838442 AB838443 AB838444 AB838445 AB838446 AB838447 AB838448 AB838449 AB838450 AB838451 AB838452 AB838453 AB838454 AB838455 AB838456 AB838457 AB838458 AB838459 AB838460 AB838461 AB838462 AB838463 AB838464 AB838465 AB838466 AB838467 AB838468 AB838469 AB838470 AB838471 AB838472 AB838473 AB838474 AB838475 AB838476 AB838477 AB838478 AB838479 AB838480 AB838481 AB838482 AB838483 AB838484 AB838485 AB838486 AB838487 AB838488 AB838489 AB838490 AB838491 AB838492 AB838493 AB838494 AB838495 AB838496 AB838497 AB838498 AB838499 AB838500 AB838501 AB838502 AB838503 AB838504 AB838505 AB838506 AB838507 AB838508 AB838509 AB838510 AB838511 AB838512 AB838513 AB838514 AB838515 AB838516 AB838517 AB838518 AB838519 AB838520 AB838521 AB838522 AB838523 AB838524 AB838525 AB838526 AB838527 AB838528 AB838529 AB838530 AB838531 AB838532 AB838533 AB838534 AB838535 AB838536 AB838537 AB838538 AB838539 AB838540 AB838541 AB838542 AB838543 AB838544 AB838545 AB838546 AB838547 AB838548 AB838549 AB838550 AB838552 AB838553 AB838554 AB838555 AB838556 AB838557 AB838558 AB838559 AB838560 AB838561 AB838562 AB838563 AB838564 AB838565 AB838566 AB838567 AB838568 AB838569 AB838570 AB838571 AB838572 AB838573 AB838574 AB838575 AB838576 AB838577 AB838578 AB838579 AB838580 AB838581 AB838582 AB838583 AB838584 AB838585 AB838586 AB838587 AB838588 AB838589 AB838590 AB838591 AB838592 AB838593 AB838594 AB838551 AB809564 AB809565 AB838243 AB838244 AB838245 AB838246 AB838247 AB838248 AB838249 AB838250 AB838251 AB838252 AB838253 AB838254 AB838255
Strain Wild Core Collection -
Induced Mutation Lines(NIG Collection) -
Sterile Seed Strain -
Lethal Embryo
Mutantion Strain 		-
Stages in Each Organ
- Muant Lines (Gene) 		-
Cultivated Varieties(NIG Collection) -
Stages in Each Organ -
/rice/oryzabase