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Extensive gene content variation in the Brachypodium distachyon pan-genome correlates with population structure.
Gordon SP, Contreras-Moreira B, Woods DP, Des Marais DL, Burgess D, Shu S, Stritt C, Roulin AC, Schackwitz W, Tyler L, Martin J, Lipzen A, Dochy N, Phillips J, Barry K, Geuten K, Budak H, Juenger TE, Amasino R, Caicedo AL, Goodstein D, Davidson P, Mur LAJ, Figueroa M, Freeling M, Catalan P, Vogel JP. Gordon SP, et al. Among authors: budak h. Nat Commun. 2017 Dec 19;8(1):2184. doi: 10.1038/s41467-017-02292-8. Nat Commun. 2017. PMID: 29259172 Free PMC article.
Multiple wheat genomes reveal global variation in modern breeding.
Walkowiak S, Gao L, Monat C, Haberer G, Kassa MT, Brinton J, Ramirez-Gonzalez RH, Kolodziej MC, Delorean E, Thambugala D, Klymiuk V, Byrns B, Gundlach H, Bandi V, Siri JN, Nilsen K, Aquino C, Himmelbach A, Copetti D, Ban T, Venturini L, Bevan M, Clavijo B, Koo DH, Ens J, Wiebe K, N'Diaye A, Fritz AK, Gutwin C, Fiebig A, Fosker C, Fu BX, Accinelli GG, Gardner KA, Fradgley N, Gutierrez-Gonzalez J, Halstead-Nussloch G, Hatakeyama M, Koh CS, Deek J, Costamagna AC, Fobert P, Heavens D, Kanamori H, Kawaura K, Kobayashi F, Krasileva K, Kuo T, McKenzie N, Murata K, Nabeka Y, Paape T, Padmarasu S, Percival-Alwyn L, Kagale S, Scholz U, Sese J, Juliana P, Singh R, Shimizu-Inatsugi R, Swarbreck D, Cockram J, Budak H, Tameshige T, Tanaka T, Tsuji H, Wright J, Wu J, Steuernagel B, Small I, Cloutier S, Keeble-Gagnère G, Muehlbauer G, Tibbets J, Nasuda S, Melonek J, Hucl PJ, Sharpe AG, Clark M, Legg E, Bharti A, Langridge P, Hall A, Uauy C, Mascher M, Krattinger SG, Handa H, Shimizu KK, Distelfeld A, Chalmers K, Keller B, Mayer KFX, Poland J, Stein N, McCartney CA, Spannagl M, Wicker T, Pozniak CJ. Walkowiak S, et al. Among authors: budak h. Nature. 2020 Dec;588(7837):277-283. doi: 10.1038/s41586-020-2961-x. Epub 2020 Nov 25. Nature. 2020. PMID: 33239791 Free PMC article.
The barley pan-genome reveals the hidden legacy of mutation breeding.
Jayakodi M, Padmarasu S, Haberer G, Bonthala VS, Gundlach H, Monat C, Lux T, Kamal N, Lang D, Himmelbach A, Ens J, Zhang XQ, Angessa TT, Zhou G, Tan C, Hill C, Wang P, Schreiber M, Boston LB, Plott C, Jenkins J, Guo Y, Fiebig A, Budak H, Xu D, Zhang J, Wang C, Grimwood J, Schmutz J, Guo G, Zhang G, Mochida K, Hirayama T, Sato K, Chalmers KJ, Langridge P, Waugh R, Pozniak CJ, Scholz U, Mayer KFX, Spannagl M, Li C, Mascher M, Stein N. Jayakodi M, et al. Among authors: budak h. Nature. 2020 Dec;588(7837):284-289. doi: 10.1038/s41586-020-2947-8. Epub 2020 Nov 25. Nature. 2020. PMID: 33239781 Free PMC article.
A large-scale multiomics analysis of wheat stem solidness and the wheat stem sawfly feeding response, and syntenic associations in barley, Brachypodium, and rice.
Biyiklioglu S, Alptekin B, Akpinar BA, Varella AC, Hofland ML, Weaver DK, Bothner B, Budak H. Biyiklioglu S, et al. Among authors: budak h. Funct Integr Genomics. 2018 May;18(3):241-259. doi: 10.1007/s10142-017-0585-5. Epub 2018 Feb 22. Funct Integr Genomics. 2018. PMID: 29470681 Free PMC article.
Durum wheat genome highlights past domestication signatures and future improvement targets.
Maccaferri M, Harris NS, Twardziok SO, Pasam RK, Gundlach H, Spannagl M, Ormanbekova D, Lux T, Prade VM, Milner SG, Himmelbach A, Mascher M, Bagnaresi P, Faccioli P, Cozzi P, Lauria M, Lazzari B, Stella A, Manconi A, Gnocchi M, Moscatelli M, Avni R, Deek J, Biyiklioglu S, Frascaroli E, Corneti S, Salvi S, Sonnante G, Desiderio F, Marè C, Crosatti C, Mica E, Özkan H, Kilian B, De Vita P, Marone D, Joukhadar R, Mazzucotelli E, Nigro D, Gadaleta A, Chao S, Faris JD, Melo ATO, Pumphrey M, Pecchioni N, Milanesi L, Wiebe K, Ens J, MacLachlan RP, Clarke JM, Sharpe AG, Koh CS, Liang KYH, Taylor GJ, Knox R, Budak H, Mastrangelo AM, Xu SS, Stein N, Hale I, Distelfeld A, Hayden MJ, Tuberosa R, Walkowiak S, Mayer KFX, Ceriotti A, Pozniak CJ, Cattivelli L. Maccaferri M, et al. Among authors: budak h. Nat Genet. 2019 May;51(5):885-895. doi: 10.1038/s41588-019-0381-3. Epub 2019 Apr 8. Nat Genet. 2019. PMID: 30962619 Free article.
Genome Sequence of the Wheat Stem Sawfly, Cephus cinctus, Representing an Early-Branching Lineage of the Hymenoptera, Illuminates Evolution of Hymenopteran Chemoreceptors.
Robertson HM, Waterhouse RM, Walden KKO, Ruzzante L, Reijnders MJMF, Coates BS, Legeai F, Gress JC, Biyiklioglu S, Weaver DK, Wanner KW, Budak H. Robertson HM, et al. Among authors: budak h. Genome Biol Evol. 2018 Nov 1;10(11):2997-3011. doi: 10.1093/gbe/evy232. Genome Biol Evol. 2018. PMID: 30335145 Free PMC article.
Pan-Genome miRNomics in Brachypodium.
Muslu T, Biyiklioglu-Kaya S, Akpinar BA, Yuce M, Budak H. Muslu T, et al. Among authors: budak h. Plants (Basel). 2021 May 16;10(5):991. doi: 10.3390/plants10050991. Plants (Basel). 2021. PMID: 34065739 Free PMC article.
171 results