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000905938 1001_ $$0P:(DE-HGF)0$$aHoopes, Genevieve$$b0
000905938 245__ $$aPhased, chromosome-scale genome assemblies of tetraploid potato reveals a complex genome, transcriptome, and predicted proteome landscape underpinning genetic diversity
000905938 260__ $$aOxford$$bOxford Univ. Press$$c2022
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000905938 520__ $$aCultivated potato is a clonally propagated autotetraploid species with a highly heterogeneous genome. Phased assemblies of six cultivars including two chromosome-scale phased genome assemblies revealed extensive allelic diversity, including altered coding and transcript sequences, preferential allele expression, and structural variation that collectively result in a highly complex transcriptome and predicted proteome, which are distributed across the homologous chromosomes. Wild species contribute to the extensive allelic diversity in tetraploid cultivars, demonstrating ancestral introgressions predating modern breeding efforts. As a clonally propagated autotetraploid that undergoes limited meiosis, dysfunctional and deleterious alleles are not purged in tetraploid potato. Nearly a quarter of the loci bore mutations are predicted to have a high negative impact on protein function, complicating breeder’s efforts to reduce genetic load. The StCDF1 locus controls maturity, and analysis of six tetraploid genomes revealed that 12 allelic variants of StCDF1 are correlated with maturity in a dosage-dependent manner. Knowledge of the complexity of the tetraploid potato genome with its rampant structural variation and embedded deleterious and dysfunctional alleles will be key not only to implementing precision breeding of tetraploid cultivars but also to the construction of homozygous, diploid potato germplasm containing favorable alleles to capitalize on heterosis in F1 hybrids.
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000905938 7001_ $$0P:(DE-HGF)0$$aMeng, Xiaoxi$$b1
000905938 7001_ $$0P:(DE-HGF)0$$aHamilton, John P.$$b2
000905938 7001_ $$0P:(DE-HGF)0$$aAchakkagari, Sai Reddy$$b3
000905938 7001_ $$0P:(DE-HGF)0$$ade Alves Freitas Guesdes, Fernanda$$b4
000905938 7001_ $$0P:(DE-Juel1)162335$$aBolger, Marie E.$$b5
000905938 7001_ $$0P:(DE-HGF)0$$aCoombs, Joseph J.$$b6
000905938 7001_ $$0P:(DE-HGF)0$$aEsselink, Danny$$b7
000905938 7001_ $$0P:(DE-HGF)0$$aKaiser, Natalie R.$$b8
000905938 7001_ $$0P:(DE-HGF)0$$aKodde, Linda$$b9
000905938 7001_ $$0P:(DE-HGF)0$$aKyriakidou, Maria$$b10
000905938 7001_ $$0P:(DE-HGF)0$$aLavrijssen, Brian$$b11
000905938 7001_ $$0P:(DE-HGF)0$$avan Lieshout, Natascha$$b12
000905938 7001_ $$0P:(DE-HGF)0$$aShereda, Rachel$$b13
000905938 7001_ $$0P:(DE-HGF)0$$aTuttle, Heather K.$$b14
000905938 7001_ $$0P:(DE-HGF)0$$aVaillancourt, Brieanne$$b15
000905938 7001_ $$0P:(DE-HGF)0$$aWood, Joshua C.$$b16
000905938 7001_ $$0P:(DE-HGF)0$$ade Boer, Jan M.$$b17
000905938 7001_ $$0P:(DE-HGF)0$$aBornowski, Nolan$$b18
000905938 7001_ $$0P:(DE-HGF)0$$aBourke, Peter$$b19
000905938 7001_ $$0P:(DE-HGF)0$$aDouches, David$$b20
000905938 7001_ $$0P:(DE-HGF)0$$avan Eck, Herman J.$$b21
000905938 7001_ $$0P:(DE-HGF)0$$aEllis, Dave$$b22
000905938 7001_ $$0P:(DE-HGF)0$$aFeldman, Max J.$$b23
000905938 7001_ $$0P:(DE-HGF)0$$aGardner, Kyle M.$$b24
000905938 7001_ $$0P:(DE-HGF)0$$aHopman, Johannes C. P.$$b25
000905938 7001_ $$0P:(DE-HGF)0$$aJiang, Jiming$$b26
000905938 7001_ $$0P:(DE-HGF)0$$aDe Jong, Walter S.$$b27
000905938 7001_ $$0P:(DE-HGF)0$$aKuhl, Joseph C.$$b28
000905938 7001_ $$0P:(DE-HGF)0$$aNovy, Richard G.$$b29
000905938 7001_ $$0P:(DE-HGF)0$$aOome, Stan$$b30
000905938 7001_ $$0P:(DE-HGF)0$$aSathuvalli, Vidyasagar$$b31
000905938 7001_ $$0P:(DE-HGF)0$$aTan, Ek Han$$b32
000905938 7001_ $$0P:(DE-HGF)0$$aUrsum, Remco A.$$b33
000905938 7001_ $$0P:(DE-HGF)0$$aVales, M. Isabel$$b34
000905938 7001_ $$0P:(DE-HGF)0$$aVining, Kelly$$b35
000905938 7001_ $$0P:(DE-HGF)0$$aVisser, Richard G. F.$$b36
000905938 7001_ $$0P:(DE-HGF)0$$aVossen, Jack$$b37
000905938 7001_ $$0P:(DE-HGF)0$$aYencho, G. Craig$$b38
000905938 7001_ $$0P:(DE-HGF)0$$aAnglin, Noelle L.$$b39
000905938 7001_ $$0P:(DE-HGF)0$$aBachem, Christian W. B.$$b40
000905938 7001_ $$0P:(DE-HGF)0$$aEndelman, Jeffrey B.$$b41
000905938 7001_ $$0P:(DE-HGF)0$$aShannon, Laura M.$$b42
000905938 7001_ $$0P:(DE-HGF)0$$aStrömvik, Martina V.$$b43
000905938 7001_ $$0P:(DE-HGF)0$$aTai, Helen H.$$b44
000905938 7001_ $$0P:(DE-Juel1)145719$$aUsadel, Björn$$b45
000905938 7001_ $$0P:(DE-HGF)0$$aBuell, C. Robin$$b46
000905938 7001_ $$00000-0002-4368-8058$$aFinkers, Richard$$b47$$eCorresponding author
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