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PBG430/530 Plant Genetics The genetic basis and analysis of simply inherited traits: • Examples including domestication, economic impact, +,+,+ Phenomena particularly important in plants: • Examples including self-incompatibility, polyploidy , +,+,+ Genetics tools for manipulating plants (and other organisms): http://www.nwfoodnews.com/2011/02/18/meet-the-sugar-beet/ • Examples including linkage mapping, genome sequencing, GMOs, CRISPR-CAS9, epigenetics, +,+,+ Barley domestication traits, the genes, and the mechanisms Locus/alleles Phenotype Mechanism Btr1,Btr2 Shattering/retention Loss of function deletions Vrs1 2-row/6-row Loss of function deletions Nud Hull adherence Loss of function deletions Vrn1, Vrn2, Vrn3 Growth habit Loss of function deletions Ppd1, Ppd2 Loss of function deletions Flowering time Pourkheirandish et al., 2015 Economic impact and GMO: Hybrid sugarbeet seed production in the Willamette Valley of Oregon - gene flow with organic table beet (Greg Loberg West Coast Beet Seed) Beta vulgaris 2n = 2x = 18 ~758 Mb (the haploid (n) genome size, by convention) (ACH seeds) (Harris seed ) Sugarbeet seed production in the Willamette Valley – 2017 • ~ 90+% Roundup Ready • ~ $2,000/acre (gross) Controlling gene flow to organic table beet • Spatial separation and pinning • RR sugarbeet - females only For more on sugarbeet seed production see CSS450/460 Seed production: Blue = male Red = female Seed production: Blue = male Red = female Genotype: RR Phenotype: resistant Genotype: 00 Phenotype: susceptible http://www.crystalsugar.com Pair of homologous chromosomes Each has R gene Showing only 1 pair of the 9 pairs of chromosomes (2n = 2x = 18) Pair of homologous chromosomes Each missing R gene Showing only 1 pair of the 9 pairs of chromosomes (2n = 2x = 18) R R The “R”* locus (same position on each homologous chromosome) 2 copies of the R gene; each copy is one allele 0 0 The R locus (same position on each homologous chromosome) 2 copies of the absence of the R gene; each copy is one allele More on the transgene conferring resistance to glyphosate meiosis R Male R gamete meiosis R R 0 Female gamete 0 0 0 R R 0 R0 R0 0 R0 R0 All F1 progeny plants are R0 Resistant (R is dominant to 0) R 0 R RR R0 0 R0 00 F2 plants 3 Resistant: 1 susceptible 1 RR: 2 R0: 1 00 RR, Rr: select a resistant type (if you want); deal with gene flow (if you have to) Phenomena: Polyploidy Diploid (2n = 2x) to polyploid (2n = _x) - all in the wheat “family” 1 pair homologous chromosomes 0 sets of homoeologous chromosomes AA A A VAVA 2n = 2x = 14 30,000 genes Emmer wheat 2 pairs of homologous chromosomes 2 sets of homoeologous chromosomes AABB A ABB 3 pairs of homologous chromosomes 3 sets of homoeologous chromosomes AABBDD A ABBDD VAVAVBVB VAVAVBVBVDVD 2n = 4x = 28 60,000 genes Durum wheat 2n = 6x = 42 90,000 genes Bread wheat 2X 8X Ploidy does not equal horsepower Genetics tools: CRISPR-CAS9 Clustered Regularly Interspersed Short Palindromic Repeats Genome editing: delete/add/modify genes • Target gene sequence and information • Cas 9 nuclease enzyme • Guide RNA (gRNA) • A technical explanation (optional for now): http://www.sigmaaldrich.com/technical-documents/articles/biology/crispr-cas9-genome-editing.html#what-is • An overview from an inventor (required): https://www.youtube.com/watch?v=TdBAHexVYzc Genetics tools: CRISPR-CAS9 A Naked (Barley) Promise? Golden Promise barley With a Nud gene knock-out Taketa et al., 2008