Search Results - "Wing Rod, A."

The rice genome revolution: from an ancient grain to Green Super Rice by Wing, Rod A., Purugganan, Michael D., Zhang, Qifa

“…Rice is a staple crop for half the world’s population, which is expected to grow by 3 billion over the next 30 years. It is also a key model for studying the…”
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Genomic variation in 3,010 diverse accessions of Asian cultivated rice by Wang, Wensheng, Mauleon, Ramil, Hu, Zhiqiang, Chebotarov, Dmytro, Tai, Shuaishuai, Wu, Zhichao, Li, Min, Zheng, Tianqing, Fuentes, Roven Rommel, Zhang, Fan, Mansueto, Locedie, Copetti, Dario, Sanciangco, Millicent, Palis, Kevin Christian, Xu, Jianlong, Sun, Chen, Fu, Binying, Zhang, Hongliang, Gao, Yongming, Zhao, Xiuqin, Shen, Fei, Cui, Xiao, Yu, Hong, Li, Zichao, Chen, Miaolin, Detras, Jeffrey, Zhou, Yongli, Zhang, Xinyuan, Zhao, Yue, Kudrna, Dave, Wang, Chunchao, Li, Rui, Jia, Ben, Lu, Jinyuan, He, Xianchang, Dong, Zhaotong, Xu, Jiabao, Li, Yanhong, Wang, Miao, Shi, Jianxin, Li, Jing, Zhang, Dabing, Lee, Seunghee, Hu, Wushu, Poliakov, Alexander, Dubchak, Inna, Ulat, Victor Jun, Borja, Frances Nikki, Mendoza, John Robert, Ali, Jauhar, Gao, Qiang, Niu, Yongchao, Yue, Zhen, Naredo, Ma. Elizabeth B., Talag, Jayson, Wang, Xueqiang, Li, Jinjie, Fang, Xiaodong, Yin, Ye, Glaszmann, Jean-Christophe, Zhang, Jianwei, Li, Jiayang, Hamilton, Ruaraidh Sackville, Wing, Rod A., Ruan, Jue, Zhang, Gengyun, Wei, Chaochun, Alexandrov, Nickolai, McNally, Kenneth L., Li, Zhikang, Leung, Hei

“…Here we analyse genetic variation, population structure and diversity among 3,010 diverse Asian cultivated rice ( Oryza sativa L.) genomes from the 3,000 Rice…”
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Genomes of 13 domesticated and wild rice relatives highlight genetic conservation, turnover and innovation across the genus Oryza by Stein, Joshua C., Yu, Yeisoo, Copetti, Dario, Zwickl, Derrick J., Zhang, Li, Zhang, Chengjun, Chougule, Kapeel, Gao, Dongying, Iwata, Aiko, Goicoechea, Jose Luis, Wei, Sharon, Wang, Jun, Liao, Yi, Wang, Muhua, Jacquemin, Julie, Becker, Claude, Kudrna, Dave, Zhang, Jianwei, Londono, Carlos E. M., Song, Xiang, Lee, Seunghee, Sanchez, Paul, Zuccolo, Andrea, Ammiraju, Jetty S. S., Talag, Jayson, Danowitz, Ann, Rivera, Luis F., Gschwend, Andrea R., Noutsos, Christos, Wu, Cheng-chieh, Kao, Shu-min, Zeng, Jhih-wun, Wei, Fu-jin, Zhao, Qiang, Feng, Qi, El Baidouri, Moaine, Carpentier, Marie-Christine, Lasserre, Eric, Cooke, Richard, Rosa Farias, Daniel da, da Maia, Luciano Carlos, dos Santos, Railson S., Nyberg, Kevin G., McNally, Kenneth L., Mauleon, Ramil, Alexandrov, Nickolai, Schmutz, Jeremy, Flowers, Dave, Fan, Chuanzhu, Weigel, Detlef, Jena, Kshirod K., Wicker, Thomas, Chen, Mingsheng, Han, Bin, Henry, Robert, Hsing, Yue-ie C., Kurata, Nori, de Oliveira, Antonio Costa, Panaud, Olivier, Jackson, Scott A., Machado, Carlos A., Sanderson, Michael J., Long, Manyuan, Ware, Doreen, Wing, Rod A.

“…The genus Oryza is a model system for the study of molecular evolution over time scales ranging from a few thousand to 15 million years. Using 13 reference…”
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Structural variants in 3000 rice genomes by Fuentes, Roven Rommel, Chebotarov, Dmytro, Duitama, Jorge, Smith, Sean, De la Hoz, Juan Fernando, Mohiyuddin, Marghoob, Wing, Rod A, McNally, Kenneth L, Tatarinova, Tatiana, Grigoriev, Andrey, Mauleon, Ramil, Alexandrov, Nickolai

“…Investigation of large structural variants (SVs) is a challenging yet important task in understanding trait differences in highly repetitive genomes. Combining…”
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Rice SNP-seek database update: new SNPs, indels, and queries by Mansueto, Locedie, Fuentes, Roven Rommel, Borja, Frances Nikki, Detras, Jeffery, Abriol-Santos, Juan Miguel, Chebotarov, Dmytro, Sanciangco, Millicent, Palis, Kevin, Copetti, Dario, Poliakov, Alexandre, Dubchak, Inna, Solovyev, Victor, Wing, Rod A, Hamilton, Ruaraidh Sackville, Mauleon, Ramil, McNally, Kenneth L, Alexandrov, Nickolai

“…We describe updates to the Rice SNP-Seek Database since its first release. We ran a new SNP-calling pipeline followed by filtering that resulted in complete,…”
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The asparagus genome sheds light on the origin and evolution of a young Y chromosome by Harkess, Alex, Zhou, Jinsong, Xu, Chunyan, Bowers, John E., Van der Hulst, Ron, Ayyampalayam, Saravanaraj, Mercati, Francesco, Riccardi, Paolo, McKain, Michael R., Kakrana, Atul, Tang, Haibao, Ray, Jeremy, Groenendijk, John, Arikit, Siwaret, Mathioni, Sandra M., Nakano, Mayumi, Shan, Hongyan, Telgmann-Rauber, Alexa, Kanno, Akira, Yue, Zhen, Chen, Haixin, Li, Wenqi, Chen, Yanling, Xu, Xiangyang, Zhang, Yueping, Luo, Shaochun, Chen, Helong, Gao, Jianming, Mao, Zichao, Pires, J. Chris, Luo, Meizhong, Kudrna, Dave, Wing, Rod A., Meyers, Blake C., Yi, Kexian, Kong, Hongzhi, Lavrijsen, Pierre, Sunseri, Francesco, Falavigna, Agostino, Ye, Yin, Leebens-Mack, James H., Chen, Guangyu

“…Sex chromosomes evolved from autosomes many times across the eukaryote phylogeny. Several models have been proposed to explain this transition, some involving…”
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A reference genome for common bean and genome-wide analysis of dual domestications by Schmutz, Jeremy, McClean, Phillip E, Mamidi, Sujan, Wu, G Albert, Cannon, Steven B, Grimwood, Jane, Jenkins, Jerry, Shu, Shengqiang, Song, Qijian, Chavarro, Carolina, Torres-Torres, Mirayda, Geffroy, Valerie, Moghaddam, Samira Mafi, Gao, Dongying, Abernathy, Brian, Barry, Kerrie, Blair, Matthew, Brick, Mark A, Chovatia, Mansi, Gepts, Paul, Goodstein, David M, Gonzales, Michael, Hellsten, Uffe, Hyten, David L, Jia, Gaofeng, Kelly, James D, Kudrna, Dave, Lee, Rian, Richard, Manon M S, Miklas, Phillip N, Osorno, Juan M, Rodrigues, Josiane, Thareau, Vincent, Urrea, Carlos A, Wang, Mei, Yu, Yeisoo, Zhang, Ming, Wing, Rod A, Cregan, Perry B, Rokhsar, Daniel S, Jackson, Scott A

“…Scott Jackson, Jeremy Schmutz, Phillip McClean and colleagues report the genome sequence of the common bean ( Phaseolus vulgaris ) and resequenced wild…”
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The International Oryza Map Alignment Project: development of a genus-wide comparative genomics platform to help solve the 9 billion-people question by Jacquemin, Julie, Bhatia, Dharminder, Singh, Kuldeep, Wing, Rod A

“…•Generate a complete collection of RefSeqs for all 23 species of the genus.•Produce advanced mapping populations for functional and breeding studies.•Conserve…”
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The genome sequence of African rice (Oryza glaberrima) and evidence for independent domestication by Wang, Muhua, Yu, Yeisoo, Haberer, Georg, Marri, Pradeep Reddy, Fan, Chuanzhu, Goicoechea, Jose Luis, Zuccolo, Andrea, Song, Xiang, Kudrna, Dave, Ammiraju, Jetty S S, Cossu, Rosa Maria, Maldonado, Carlos, Chen, Jinfeng, Lee, Seunghee, Sisneros, Nick, de Baynast, Kristi, Golser, Wolfgang, Wissotski, Marina, Kim, Woojin, Sanchez, Paul, Ndjiondjop, Marie-Noelle, Sanni, Kayode, Long, Manyuan, Carney, Judith, Panaud, Olivier, Wicker, Thomas, Machado, Carlos A, Chen, Mingsheng, Mayer, Klaus F X, Rounsley, Steve, Wing, Rod A

“…Mingsheng Chen, Klaus Mayer, Steve Rounsley, Rod Wing and colleagues report the genome sequence of African rice ( Oryza glaberrima ), a different species than…”
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The Reference Genome of the Halophytic Plant Eutrema salsugineum by Yang, Ruolin, Jarvis, David E, Chen, Hao, Beilstein, Mark A, Grimwood, Jane, Jenkins, Jerry, Shu, Shengqiang, Prochnik, Simon, Xin, Mingming, Ma, Chuang, Schmutz, Jeremy, Wing, Rod A, Mitchell-Olds, Thomas, Schumaker, Karen S, Wang, Xiangfeng

“…Halophytes are plants that can naturally tolerate high concentrations of salt in the soil, and their tolerance to salt stress may occur through various…”
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Genome sequence of the palaeopolyploid soybean by Schmutz, Jeremy, Cannon, Steven B, Schlueter, Jessica, Ma, Jianxin, Mitros, Therese, Nelson, William, Hyten, David L, Song, Qijian, Thelen, Jay J, Cheng, Jianlin, Xu, Dong, Hellsten, Uffe, Peto, Myron, Grant, David, Cregan, Perry, Shoemaker, Randy C

“…Soybean (Glycine max) is one of the most important crop plants for seed protein and oil content, and for its capacity to fix atmospheric nitrogen through…”
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Prediction of crossover recombination using parental genomes by Peñuela, Mauricio, Riccio-Rengifo, Camila, Finke, Jorge, Rocha, Camilo, Gkanogiannis, Anestis, Wing, Rod A, Lorieux, Mathias

“…Meiotic recombination is a crucial cellular process, being one of the major drivers of evolution and adaptation of species. In plant breeding, crossing is used…”
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Genome-wide association mapping of date palm fruit traits by Hazzouri, Khaled M., Gros-Balthazard, Muriel, Flowers, Jonathan M., Copetti, Dario, Lemansour, Alain, Lebrun, Marc, Masmoudi, Khaled, Ferrand, Sylvie, Dhar, Michael I., Fresquez, Zoë A., Rosas, Ulises, Zhang, Jianwei, Talag, Jayson, Lee, Seunghee, Kudrna, David, Powell, Robyn F., Leitch, Ilia J., Krueger, Robert R., Wing, Rod A., Amiri, Khaled M. A., Purugganan, Michael D.

“…Date palms ( Phoenix dactylifera ) are an important fruit crop of arid regions of the Middle East and North Africa. Despite its importance, few genomic…”
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Hamiltonella defensa, genome evolution of protective bacterial endosymbiont from pathogenic ancestors by Degnan, Patrick H, Yu, Yeisoo, Sisneros, Nicholas, Wing, Rod A, Moran, Nancy A

“…Eukaryotes engage in a multitude of beneficial and deleterious interactions with bacteria. Hamiltonella defensa, an endosymbiont of aphids and other…”
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Aluminum tolerance in maize is associated with higher MATE1 gene copy number by Maron, Lyza G., Guimarães, Claudia T., Kirst, Matias, Albert, Patrice S., Birchler, James A., Bradbury, Peter J., Buckler, Edward S., Coluccio, Alison E., Danilova, Tatiana V., Kudrna, David, Magalhaes, Jurandir V., Piñeros, Miguel A., Schatz, Michael C., Wing, Rod A., Kochian, Leon V.

“…Genome structure variation, including copy number variation and presence/absence variation, comprises a large extent of maize genetic diversity; however, its…”
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Gene fusion as an important mechanism to generate new genes in the genus Oryza by Zhou, Yanli, Zhang, Chengjun, Zhang, Li, Ye, Qiannan, Liu, Ningyawen, Wang, Muhua, Long, Guangqiang, Fan, Wei, Long, Manyuan, Wing, Rod A

“…Events of gene fusion have been reported in several organisms. However, the general role of gene fusion as part of new gene origination remains unknown. We…”
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Genome sequence of the model rice variety KitaakeX by Jain, Rashmi, Jenkins, Jerry, Shu, Shengqiang, Chern, Mawsheng, Martin, Joel A, Copetti, Dario, Duong, Phat Q, Pham, Nikki T, Kudrna, David A, Talag, Jayson, Schackwitz, Wendy S, Lipzen, Anna M, Dilworth, David, Bauer, Diane, Grimwood, Jane, Nelson, Catherine R, Xing, Feng, Xie, Weibo, Barry, Kerrie W, Wing, Rod A, Schmutz, Jeremy, Li, Guotian, Ronald, Pamela C

“…The availability of thousands of complete rice genome sequences from diverse varieties and accessions has laid the foundation for in-depth exploration of the…”
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Pan-genome inversion index reveals evolutionary insights into the subpopulation structure of Asian rice by Zhou, Yong, Yu, Zhichao, Chebotarov, Dmytro, Chougule, Kapeel, Lu, Zhenyuan, Rivera, Luis F., Kathiresan, Nagarajan, Al-Bader, Noor, Mohammed, Nahed, Alsantely, Aseel, Mussurova, Saule, Santos, João, Thimma, Manjula, Troukhan, Maxim, Fornasiero, Alice, Green, Carl D., Copetti, Dario, Kudrna, David, Llaca, Victor, Lorieux, Mathias, Zuccolo, Andrea, Ware, Doreen, McNally, Kenneth, Zhang, Jianwei, Wing, Rod A.

“…Understanding and exploiting genetic diversity is a key factor for the productive and stable production of rice. Here, we utilize 73 high-quality genomes that…”
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Complete chloroplast and ribosomal sequences for 30 accessions elucidate evolution of Oryza AA genome species by Kim, Kyunghee, Lee, Sang-Choon, Lee, Junki, Yu, Yeisoo, Yang, Kiwoung, Choi, Beom-Soon, Koh, Hee-Jong, Waminal, Nomar Espinosa, Choi, Hong-Il, Kim, Nam-Hoon, Jang, Woojong, Park, Hyun-Seung, Lee, Jonghoon, Lee, Hyun Oh, Joh, Ho Jun, Lee, Hyeon Ju, Park, Jee Young, Perumal, Sampath, Jayakodi, Murukarthick, Lee, Yun Sun, Kim, Backki, Copetti, Dario, Kim, Soonok, Kim, Sunggil, Lim, Ki-Byung, Kim, Young-Dong, Lee, Jungho, Cho, Kwang-Su, Park, Beom-Seok, Wing, Rod A., Yang, Tae-Jin

“…Cytoplasmic chloroplast (cp) genomes and nuclear ribosomal DNA (nR) are the primary sequences used to understand plant diversity and evolution. We introduce a…”
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Doubling genome size without polyploidization: dynamics of retrotransposition-driven genomic expansions in Oryza australiensis, a wild relative of rice by Piegu, Benoit, Guyot, Romain, Picault, Nathalie, Roulin, Anne, Sanyal, Abhijit, Saniyal, Abhijit, Kim, Hyeran, Collura, Kristi, Brar, Darshan S, Jackson, Scott, Wing, Rod A, Panaud, Olivier

“…Retrotransposons are the main components of eukaryotic genomes, representing up to 80% of some large plant genomes. These mobile elements transpose via a "copy…”
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