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Matthew B. Hufford, Arun Somwarpet Seetharam, Margaret Roth Woodhouse, Kapeel M. Chougule, Shujun Ou, Jianing Liu, William A. Ricci, Tingting Guo, Andrew J. Olson, Yinjie Qiu and 36 more
We report de novo genome assemblies, transcriptomes, annotations, and methylomes for the 26 inbreds that serve as the founders for the maize nested association mapping population. The number of pan-genes in these diverse genomes exceeds 103,000, with approximately a third found across all genotypes. The results demonstrate that the ancient tetraploid character of maize continues to degrade by fractionation to the present day. Excellent contiguity over repeat arrays and complete annotation of centromeres revealed additional variation in major cytological landmarks. We show that combining structural variation with single-nucleotide polymorphisms can improve the power of quantitative mapping studies. We also document variation at the level of DNA methylation and demonstrate that unmethylated regions are enriched for cis-regulatory elements that contribute to phenotypic variation.
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Hufford, M. B., Seetharam, A. S., Woodhouse, M. R., Chougule, K. M., Ou, S., Liu, J., Ricci, W. A., Guo, T., Olson, A. J., Qiu, Y., Coletta, R. D., Tittes, S. B., Hudson, A. I., Marand, A. P., Wei, S., Lu, Z., Wang, B., Tello-Ruiz, M. K., Piri, R. D., … Dawe, R. K. (2021). De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes. Science, 373(6555), 655–662. https://doi.org/10.1126/science.abg5289
Hufford, Matthew B., et al. "De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes." Science, vol. 373, no. 6555, 2021, pp. 655–662, https://doi.org/10.1126/science.abg5289.
Hufford, Matthew B., Arun Somwarpet Seetharam, Margaret Roth Woodhouse, Kapeel M. Chougule, Shujun Ou, Jianing Liu, William A. Ricci, et al. "De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes." Science 373, no. 6555 (2021): 655–662. https://doi.org/10.1126/science.abg5289.
Hufford M. B., Seetharam A. S., Woodhouse M. R. [и др.] De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes // Science. — 2021. — Vol. 373, № 6555. — P. 655–662. — URL: https://doi.org/10.1126/science.abg5289
@article{hufford2021novo,
title = {{De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes}},
author = {Matthew B. Hufford and Arun Somwarpet Seetharam and Margaret Roth Woodhouse and Kapeel M. Chougule and Shujun Ou and Jianing Liu and William A. Ricci and Tingting Guo and Andrew J. Olson and Yinjie Qiu and Rafael Della Coletta and Silas B. Tittes and Asher I. Hudson and Alexandre P. Marand and Sharon Wei and Zhenyuan Lu and Bo Wang and Marcela Karey Tello-Ruiz and Rebecca D. Piri and Na Wang and Dong Won Kim and Yibing Zeng and Christine H. O’Connor and Xianran Li and Amanda M. Gilbert and Erin L. Baggs and Ksenia V. Krasileva and John L. Portwood and Ethalinda K. S. Cannon and Carson M. Andorf and Nancy Manchanda and Samantha J. Snodgrass and David E. Hufnagel and Qiuhan Jiang and Sarah Pedersen and Michael Syring and David A. Kudrna and Víctor Llaca and Kevin A. Fengler and Robert J. Schmitz and Jeffrey Ross‐Ibarra and Jianming Yu and Jonathan Isaiah Gent and Candice N. Hirsch and Doreen Ware and R. Kelly Dawe},
journal = {Science},
year = {2021},
volume = {373},
number = {6555},
pages = {655--662},
doi = {10.1126/science.abg5289},
url = {https://doi.org/10.1126/science.abg5289}
}TY - JOUR AU - Hufford, Matthew B. AU - Seetharam, Arun Somwarpet AU - Woodhouse, Margaret Roth AU - Chougule, Kapeel M. AU - Ou, Shujun AU - Liu, Jianing AU - Ricci, William A. AU - Guo, Tingting AU - Olson, Andrew J. AU - Qiu, Yinjie AU - Coletta, Rafael Della AU - Tittes, Silas B. AU - Hudson, Asher I. AU - Marand, Alexandre P. AU - Wei, Sharon AU - Lu, Zhenyuan AU - Wang, Bo AU - Tello-Ruiz, Marcela Karey AU - Piri, Rebecca D. AU - Wang, Na AU - Kim, Dong Won AU - Zeng, Yibing AU - O’Connor, Christine H. AU - Li, Xianran AU - Gilbert, Amanda M. AU - Baggs, Erin L. AU - Krasileva, Ksenia V. AU - Portwood, John L. AU - Cannon, Ethalinda K. S. AU - Andorf, Carson M. AU - Manchanda, Nancy AU - Snodgrass, Samantha J. AU - Hufnagel, David E. AU - Jiang, Qiuhan AU - Pedersen, Sarah AU - Syring, Michael AU - Kudrna, David A. AU - Llaca, Víctor AU - Fengler, Kevin A. AU - Schmitz, Robert J. AU - Ross‐Ibarra, Jeffrey AU - Yu, Jianming AU - Gent, Jonathan Isaiah AU - Hirsch, Candice N. AU - Ware, Doreen AU - Dawe, R. Kelly TI - De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes JO - Science VL - 373 IS - 6555 SP - 655 EP - 662 PY - 2021 DA - 2021/08/05 DO - 10.1126/science.abg5289 UR - https://doi.org/10.1126/science.abg5289 ER -
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