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Effect of sequence depth and length in long-read assembly of the maize inbred NC358.
Ou S, Liu J, Chougule KM, Fungtammasan A, Seetharam AS, Stein JC, Llaca V, Manchanda N, Gilbert AM, Wei S, Chin CS, Hufnagel DE, Pedersen S, Snodgrass SJ, Fengler K, Woodhouse M, Walenz BP, Koren S, Phillippy AM, Hannigan BT, Dawe RK, Hirsch CN, Hufford MB, Ware D. Ou S, et al. Among authors: seetharam as. Nat Commun. 2020 May 8;11(1):2288. doi: 10.1038/s41467-020-16037-7. Nat Commun. 2020. PMID: 32385271 Free PMC article.
Evidence for a Unique DNA-Dependent RNA Polymerase in Cereal Crops.
Trujillo JT, Seetharam AS, Hufford MB, Beilstein MA, Mosher RA. Trujillo JT, et al. Among authors: seetharam as. Mol Biol Evol. 2018 Oct 1;35(10):2454-2462. doi: 10.1093/molbev/msy146. Mol Biol Evol. 2018. PMID: 30053133 Free PMC article.
Gapless assembly of maize chromosomes using long-read technologies.
Liu J, Seetharam AS, Chougule K, Ou S, Swentowsky KW, Gent JI, Llaca V, Woodhouse MR, Manchanda N, Presting GG, Kudrna DA, Alabady M, Hirsch CN, Fengler KA, Ware D, Michael TP, Hufford MB, Dawe RK. Liu J, et al. Among authors: seetharam as. Genome Biol. 2020 May 20;21(1):121. doi: 10.1186/s13059-020-02029-9. Genome Biol. 2020. PMID: 32434565 Free PMC article.
Genomic variation within the maize stiff-stalk heterotic germplasm pool.
Bornowski N, Michel KJ, Hamilton JP, Ou S, Seetharam AS, Jenkins J, Grimwood J, Plott C, Shu S, Talag J, Kennedy M, Hundley H, Singan VR, Barry K, Daum C, Yoshinaga Y, Schmutz J, Hirsch CN, Hufford MB, de Leon N, Kaeppler SM, Buell CR. Bornowski N, et al. Among authors: seetharam as. Plant Genome. 2021 Nov;14(3):e20114. doi: 10.1002/tpg2.20114. Epub 2021 Jul 18. Plant Genome. 2021. PMID: 34275202 Free article.
De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes.
Hufford MB, Seetharam AS, Woodhouse MR, Chougule KM, Ou S, Liu J, Ricci WA, Guo T, Olson A, Qiu Y, Della Coletta R, Tittes S, Hudson AI, Marand AP, Wei S, Lu Z, Wang B, Tello-Ruiz MK, Piri RD, Wang N, Kim DW, Zeng Y, O'Connor CH, Li X, Gilbert AM, Baggs E, Krasileva KV, Portwood JL 2nd, Cannon EKS, Andorf CM, Manchanda N, Snodgrass SJ, Hufnagel DE, Jiang Q, Pedersen S, Syring ML, Kudrna DA, Llaca V, Fengler K, Schmitz RJ, Ross-Ibarra J, Yu J, Gent JI, Hirsch CN, Ware D, Dawe RK. Hufford MB, et al. Among authors: seetharam as. Science. 2021 Aug 6;373(6555):655-662. doi: 10.1126/science.abg5289. Science. 2021. PMID: 34353948 Free PMC article.
The Streptochaeta Genome and the Evolution of the Grasses.
Seetharam AS, Yu Y, Bélanger S, Clark LG, Meyers BC, Kellogg EA, Hufford MB. Seetharam AS, et al. Front Plant Sci. 2021 Oct 4;12:710383. doi: 10.3389/fpls.2021.710383. eCollection 2021. Front Plant Sci. 2021. PMID: 34671369 Free PMC article.
A happy accident: a novel turfgrass reference genome.
Phillips AR, Seetharam AS, Albert PS, AuBuchon-Elder T, Birchler JA, Buckler ES, Gillespie LJ, Hufford MB, Llaca V, Romay MC, Soreng RJ, Kellogg EA, Ross-Ibarra J. Phillips AR, et al. Among authors: seetharam as. G3 (Bethesda). 2023 Jun 1;13(6):jkad073. doi: 10.1093/g3journal/jkad073. G3 (Bethesda). 2023. PMID: 37002915 Free PMC article.
Hybrid allele-specific ChIP-seq analysis identifies variation in brassinosteroid-responsive transcription factor binding linked to traits in maize.
Hartwig T, Banf M, Prietsch GP, Zhu JY, Mora-Ramírez I, Schippers JHM, Snodgrass SJ, Seetharam AS, Huettel B, Kolkman JM, Yang J, Engelhorn J, Wang ZY. Hartwig T, et al. Among authors: seetharam as. Genome Biol. 2023 May 8;24(1):108. doi: 10.1186/s13059-023-02909-w. Genome Biol. 2023. PMID: 37158941 Free PMC article.
38 results