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Mutation identification by direct comparison of whole-genome sequencing data from mutant and wild-type individuals using k-mers.

Nordström KJ, Albani MC, James GV, Gutjahr C, Hartwig B, Turck F, Paszkowski U, Coupland G, Schneeberger K.

Nat Biotechnol. 2013 Apr;31(4):325-30. doi: 10.1038/nbt.2515.


Fast isogenic mapping-by-sequencing of ethyl methanesulfonate-induced mutant bulks.

Hartwig B, James GV, Konrad K, Schneeberger K, Turck F.

Plant Physiol. 2012 Oct;160(2):591-600. doi: 10.1104/pp.112.200311.


Genome sequencing reveals agronomically important loci in rice using MutMap.

Abe A, Kosugi S, Yoshida K, Natsume S, Takagi H, Kanzaki H, Matsumura H, Yoshida K, Mitsuoka C, Tamiru M, Innan H, Cano L, Kamoun S, Terauchi R.

Nat Biotechnol. 2012 Jan 22;30(2):174-8. doi: 10.1038/nbt.2095.


PT-Flax (phenotyping and TILLinG of flax): development of a flax (Linum usitatissimum L.) mutant population and TILLinG platform for forward and reverse genetics.

Chantreau M, Grec S, Gutierrez L, Dalmais M, Pineau C, Demailly H, Paysant-Leroux C, Tavernier R, Trouvé JP, Chatterjee M, Guillot X, Brunaud V, Chabbert B, van Wuytswinkel O, Bendahmane A, Thomasset B, Hawkins S.

BMC Plant Biol. 2013 Oct 15;13:159. doi: 10.1186/1471-2229-13-159.


Discovery of rare mutations in populations: TILLING by sequencing.

Tsai H, Howell T, Nitcher R, Missirian V, Watson B, Ngo KJ, Lieberman M, Fass J, Uauy C, Tran RK, Khan AA, Filkov V, Tai TH, Dubcovsky J, Comai L.

Plant Physiol. 2011 Jul;156(3):1257-68. doi: 10.1104/pp.110.169748.


Identification of EMS-induced causal mutations in a non-reference Arabidopsis thaliana accession by whole genome sequencing.

Uchida N, Sakamoto T, Kurata T, Tasaka M.

Plant Cell Physiol. 2011 Apr;52(4):716-22. doi: 10.1093/pcp/pcr029.


Synteny-based mapping-by-sequencing enabled by targeted enrichment.

Galvão VC, Nordström KJ, Lanz C, Sulz P, Mathieu J, Posé D, Schmid M, Weigel D, Schneeberger K.

Plant J. 2012 Aug;71(3):517-26. doi: 10.1111/j.1365-313X.2012.04993.x.


Marker development, saturation mapping, and high-resolution mapping of the Septoria nodorum blotch susceptibility gene Snn3-B1 in wheat.

Shi G, Zhang Z, Friesen TL, Bansal U, Cloutier S, Wicker T, Rasmussen JB, Faris JD.

Mol Genet Genomics. 2016 Feb;291(1):107-19. doi: 10.1007/s00438-015-1091-x.


Loss of function of OsMADS3 via the insertion of a novel retrotransposon leads to recessive male sterility in rice (Oryza sativa).

Zhang L, Mao D, Xing F, Bai X, Zhao H, Yao W, Li G, Xie W, Xing Y.

Plant Sci. 2015 Sep;238:188-97. doi: 10.1016/j.plantsci.2015.06.007.


Developing high throughput genotyped chromosome segment substitution lines based on population whole-genome re-sequencing in rice (Oryza sativa L.).

Xu J, Zhao Q, Du P, Xu C, Wang B, Feng Q, Liu Q, Tang S, Gu M, Han B, Liang G.

BMC Genomics. 2010 Nov 24;11:656. doi: 10.1186/1471-2164-11-656.


High-throughput genotyping by whole-genome resequencing.

Huang X, Feng Q, Qian Q, Zhao Q, Wang L, Wang A, Guan J, Fan D, Weng Q, Huang T, Dong G, Sang T, Han B.

Genome Res. 2009 Jun;19(6):1068-76. doi: 10.1101/gr.089516.108.


TILLING in Lotus japonicus identified large allelic series for symbiosis genes and revealed a bias in functionally defective ethyl methanesulfonate alleles toward glycine replacements.

Perry J, Brachmann A, Welham T, Binder A, Charpentier M, Groth M, Haage K, Markmann K, Wang TL, Parniske M.

Plant Physiol. 2009 Nov;151(3):1281-91. doi: 10.1104/pp.109.142190.


Fine mapping of a palea defective 1 (pd1), a locus associated with palea and stamen development in rice.

Xiang C, Liang X, Chu R, Duan M, Cheng J, Ding Z, Wang J.

Plant Cell Rep. 2015 Dec;34(12):2151-9. doi: 10.1007/s00299-015-1858-x.


Gene identification and cloning by molecular marker mapping.

Jander G.

Methods Mol Biol. 2006;323:115-26.


Rapid identification of angulata leaf mutations using next-generation sequencing.

Mateo-Bonmatí E, Casanova-Sáez R, Candela H, Micol JL.

Planta. 2014 Nov;240(5):1113-22. doi: 10.1007/s00425-014-2137-8.


PpeTAC1 promotes the horizontal growth of branches in peach trees and is a member of a functionally conserved gene family found in diverse plants species.

Dardick C, Callahan A, Horn R, Ruiz KB, Zhebentyayeva T, Hollender C, Whitaker M, Abbott A, Scorza R.

Plant J. 2013 Aug;75(4):618-30. doi: 10.1111/tpj.12234.


Sporophytic self-incompatibility genes and mating system variation in Arabis alpina.

Tedder A, Ansell SW, Lao X, Vogel JC, Mable BK.

Ann Bot. 2011 Sep;108(4):699-713. doi: 10.1093/aob/mcr157.


Genome-wide survey of artificial mutations induced by ethyl methanesulfonate and gamma rays in tomato.

Shirasawa K, Hirakawa H, Nunome T, Tabata S, Isobe S.

Plant Biotechnol J. 2016 Jan;14(1):51-60. doi: 10.1111/pbi.12348.


Genomewide variation in an introgression line of rice-Zizania revealed by whole-genome re-sequencing.

Wang ZH, Zhang D, Bai Y, Zhang YH, Liu Y, Wu Y, Lin XY, Wen JW, Xu CM, Li LF, Liu B.

PLoS One. 2013 Sep 18;8(9):e74479. doi: 10.1371/journal.pone.0074479.


MutMap+: genetic mapping and mutant identification without crossing in rice.

Fekih R, Takagi H, Tamiru M, Abe A, Natsume S, Yaegashi H, Sharma S, Sharma S, Kanzaki H, Matsumura H, Saitoh H, Mitsuoka C, Utsushi H, Uemura A, Kanzaki E, Kosugi S, Yoshida K, Cano L, Kamoun S, Terauchi R.

PLoS One. 2013 Jul 10;8(7):e68529. doi: 10.1371/journal.pone.0068529.

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