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Phased, chromosome-scale genome assemblies of tetraploid potato reveal a complex genome, transcriptome, and predicted proteome landscape underpinning genetic diversity.
Hoopes G, Meng X, Hamilton JP, Achakkagari SR, de Alves Freitas Guesdes F, Bolger ME, Coombs JJ, Esselink D, Kaiser NR, Kodde L, Kyriakidou M, Lavrijssen B, van Lieshout N, Shereda R, Tuttle HK, Vaillancourt B, Wood JC, de Boer JM, Bornowski N, Bourke P, Douches D, van Eck HJ, Ellis D, Feldman MJ, Gardner KM, Hopman JCP, Jiang J, De Jong WS, Kuhl JC, Novy RG, Oome S, Sathuvalli V, Tan EH, Ursum RA, Vales MI, Vining K, Visser RGF, Vossen J, Yencho GC, Anglin NL, Bachem CWB, Endelman JB, Shannon LM, Strömvik MV, Tai HH, Usadel B, Buell CR, Finkers R. Hoopes G, et al. Among authors: coombs jj. Mol Plant. 2022 Mar 7;15(3):520-536. doi: 10.1016/j.molp.2022.01.003. Epub 2022 Jan 10. Mol Plant. 2022. PMID: 35026436 Free article.
Automated tetraploid genotype calling by hierarchical clustering.
Schmitz Carley CA, Coombs JJ, Douches DS, Bethke PC, Palta JP, Novy RG, Endelman JB. Schmitz Carley CA, et al. Among authors: coombs jj. Theor Appl Genet. 2017 Apr;130(4):717-726. doi: 10.1007/s00122-016-2845-5. Epub 2017 Jan 9. Theor Appl Genet. 2017. PMID: 28070610
Genetic Variance Partitioning and Genome-Wide Prediction with Allele Dosage Information in Autotetraploid Potato.
Endelman JB, Carley CAS, Bethke PC, Coombs JJ, Clough ME, da Silva WL, De Jong WS, Douches DS, Frederick CM, Haynes KG, Holm DG, Miller JC, Muñoz PR, Navarro FM, Novy RG, Palta JP, Porter GA, Rak KT, Sathuvalli VR, Thompson AL, Yencho GC. Endelman JB, et al. Among authors: coombs jj. Genetics. 2018 May;209(1):77-87. doi: 10.1534/genetics.118.300685. Epub 2018 Mar 7. Genetics. 2018. PMID: 29514860 Free PMC article.