1. Research

Publications

The gap-free rice genomes provide insights for centromere structure and function exploration and graph-based pan-genome construction

Jia-Ming Song, Wen-Zhao Xie, Shuo Wang, Yi-Xiong Guo, Jesse Poland, Dal-Hoe Koo, Dave Kudrna, Evan Long, Yicheng Huang, Jia-Wu Feng, Wenhui Zhang, Seunghee Lee, Jayson Talag, Run Zhou, Xi-Tong Zhu, Daojun Yuan, Joshua Udall, Weibo Xie, Rod Anthony Wing,
Qifa Zhang, Jianwei Zhang, Ling-Ling Chen
2020

Highly accurate long-read HiFi sequencing data for five complex genomes

Ting Hon, Kristin Mars, Greg Young, Yu-Chih Tsai, Joseph W Karalius, Jane M Landolin, Nicholas Maurer, David Kudrna, Michael A Hardigan, Cynthia C Steiner, Steven J Knapp, Doreen Ware, Beth Shapiro, Paul Peluso, David R Rank
2020

A willow sex chromosome reveals convergent evolution of complex palindromic repeats

Ran Zhou, David Macaya-Sanz, Craig H Carlson, Jeremy Schmutz, Jerry W Jenkins, David Kudrna, Aditi Sharma, Laura Sandor, Shengqiang Shu, Kerrie Barry, Gerald A Tuskan, Tao Ma, Jianquan Liu, Matthew Olson, Lawrence B Smart, Stephen P DiFazio
2020

Mitochondrial plastid DNA can cause DNA barcoding paradox in plants

Hyun-Seung Park, Murukarthick Jayakodi, Sae Hyun Lee, Jae-Hyeon Jeon, Hyun-Oh Lee, Jee Young Park, Byeong Cheol Moon, Chang-Kug Kim, Rod A Wing, Steven G Newmaster, Ji Yeon Kim, Tae-Jin Yang
2020

Gapless assembly of maize chromosomes using long-read technologies

Jianing Liu, Arun S Seetharam, Kapeel Chougule, Shujun Ou, Kyle W Swentowsky, Jonathan I Gent, Victor Llaca, Margaret R Woodhouse, Nancy Manchanda, Gernot G Presting, David A Kudrna, Magdy Alabady, Candice N Hirsch, Kevin A Fengler, Doreen Ware,
Todd P Michael, Matthew B Hufford, R Kelly Dawe
2020

Fish10K Pilot Project Data

Guangyi Fan, Yue Song, Liandong Yang, Xiaoyun Huang, Suyu Zhang, Mengqi Zhang, Xianwei Yang, Yue Chang, He Zhang, Yongxin Li, Shanshan Liu, Lili Yu, Jeffery Chu, Inge Seim, Chenguang Feng, Thomas J Near, Rod Anthony Wing, Wen Wang, Kun Wang, Jing Wang,
Xun Xu, Huanming Yang, Xin Liu, Nansheng Chen, Shunping He
2020

Mass genome sequencing of crops and wild relatives to accelerate crop breeding: the digital rice genebank

KL McNally, RP Mauleon, D Chebotarov, SP Klassen, A Kohli, G Ye, H Leung, RS Hamilton, RA Wing
2020

Evolution and Diversity of the Wild Rice Oryza officinalis Complex, across Continents, Genome Types, and Ploidy Levels

Matt Shenton, Masaaki Kobayashi, Shin Terashima, Hajime Ohyanagi, Dario Copetti, Tania Hernández-Hernández, Jianwei Zhang, Nobuko Ohmido, Masahiro Fujita, Atsushi Toyoda, Hiroshi Ikawa, Asao Fujiyama, Hiroyasu Furuumi, Toshie Miyabayashi, Takahiko Kubo,
David Kudrna, Rod Wing, Kentaro Yano, Ken-Ichi Nonomura, Yutaka Sato, Nori Kurata
2020

A platinum standard pan-genome resource that represents the population structure of Asian rice

Yong Zhou, Dmytro Chebotarov, Dave Kudrna, Victor Llaca, Seunghee Lee, Shanmugam Rajasekar, Nahed Mohammed, Noor Al-Bader, Chandler Sobel-Sorenson, Praveena Parakkal, Lady Johanna Arbelaez, Natalia Franco, Nickolai Alexandrov,
N Ruaraidh Sackville Hamilton, Hei Leung, Ramil Mauleon, Mathias Lorieux, Andrea Zuccolo, Kenneth McNally, Jianwei Zhang, Rod A Wing
2020

Structural variants in 3000 rice genomes

Roven Rommel Fuentes, Dmytro Chebotarov, Jorge Duitama, Sean Smith, Juan Fernando De la Hoz, Marghoob Mohiyuddin, Rod A Wing, Kenneth L McNally, Tatiana Tatarinova, Andrey Grigoriev, Ramil Mauleon, Nickolai Alexandrov
2019

Havesting 15 Million Year of Oryza Genome Evolution to Help Solve the 10-Billion People Question

Rod Wing
2019

Towards the Completion of a Set of Platinum Standard Reference Genome Sequences (PSRefSeqs) that bridge the Genetic Diversity of Cultivated Rice & its Wild Relatives

Rod A Wing
2019

Progress in single-access information systems for wheat and rice crop improvement

Armin Scheben, Chon-Kit Kenneth Chan, Locedie Mansueto, Ramil Mauleon, Pierre Larmande, Nickolai Alexandrov, Rod A Wing, Kenneth L McNally, Hadi Quesneville, David Edwards
2019

Rapid evolution of protein diversity by de novo origination in Oryza

Li Zhang, Yan Ren, Tao Yang, Guangwei Li, Jianhai Chen, Andrea R Gschwend, Yeisoo Yu, Guixue Hou, Jin Zi, Ruo Zhou, Bo Wen, Jianwei Zhang, Kapeel Chougule, Muhua Wang, Dario Copetti, Zhiyu Peng, Chengjun Zhang, Yong Zhang, Yidan Ouyang, Rod A Wing,
Siqi Liu, Manyuan Long
2019

A chromosome-scale assembly of allotetraploid Brassica juncea (AABB) elucidates comparative architecture of the A and B genomes

Kumar Paritosh, Satish Kumar Yadava, Priyansha Singh, Latika Bhayana, Arundhati Mukhopadhyay, Vibha Gupta, Naveen Chandra Bisht, Jianwei Zhang, David Kudrna, Dario Copetti, Rod A Wing, Vijay Bhaskar Reddy Lachagari, Akshay Kumar Pradhan, Deepak Pental
2019

The Genomics of Oryza Species Provides Insights into Rice Domestication and Heterosis

Erwang Chen, Xuehui Huang, Zhixi Tian, Rod A Wing, Bin Han
2019

Machine Learning Reveals Spatiotemporal Genome Evolution in Asian Rice Domestication

Hajime Ohyanagi, Kosuke Goto, Sónia Negrão, Rod A Wing, Mark A Tester, Kenneth L McNally, Vladimir B Bajic, Katsuhiko Mineta, Takashi Gojobori
2019

Functional screening of genes from a halophyte wild rice relative Porteresia coarctata in Arabidopsis model identifies candidate genes involved in salt tolerance

Venkata R Mangu, Disna Ratnasekera, Jonalyn C Yabes, Rod A Wing, Niranjan Baisakh
2019

The somatic genetic and epigenetic mutation rate in a wild long-lived perennial Populus trichocarpa

Brigitte T Hofmeister, Johanna Denkena, Maria Colomé-Tatché, Yadollah Shahryary, Rashmi Hazarika, Jane Grimwood, Sujan Mamidi, Jerry Jenkins, Paul P Grabowski, Avinash Sreedasyam, Shengqiang Shu, Kerrie Barry, Kathleen Lail, Catherine Adam, Anna Lipzen,
Rotem Sorek, Dave Kudrna, Jayson Talag, Rod Wing, David W Hall, Gerald A Tuskan, Jeremy Schmutz, Frank Johannes, Robert J Schmitz
2019

Genome sequence of the model rice variety KitaakeX

Rashmi Jain, Jerry Jenkins, Shengqiang Shu, Mawsheng Chern, Joel A Martin, Dario Copetti, Phat Q Duong, Nikki T Pham, David A Kudrna, Jayson Talag, Wendy S Schackwitz, Anna M Lipzen, David Dilworth, Diane Bauer, Jane Grimwood, Catherine R Nelson,
Feng Xing, Weibo Xie, Kerrie W Barry, Rod A Wing, Jeremy Schmutz, Guotian Li, Pamela C Ronald
2019