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23 results on '"Daddiego, Loretta"'

1. Harvesting Biofuels with Microbial Electrochemical Technologies (METs): State of the Art and Future Challenges

Author

Marandola, Clara, Cristiani, Lorenzo, Zeppilli, Marco, Villano, Marianna, Majone, Mauro, Fantini, Elio, Daddiego, Loretta, Lopez, Loredana, Ciccoli, Roberto, Signorini, Antonella, Rosa, Silvia, Marone, Antonella, Kostianoy, Andrey G., Series Editor, Carpenter, Angela, Editorial Board Member, Younos, Tamim, Editorial Board Member, Scozzari, Andrea, Editorial Board Member, Vignudelli, Stefano, Editorial Board Member, Kouraev, Alexei, Editorial Board Member, Alcaraz Gonzalez, Victor, editor, Flores Estrella, René Alejandro, editor, Haarstrick, Andreas, editor, and Gonzalez Alvarez, Victor, editor

Published
2024
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4. Histone Deacetylase Complex 1 and histone 1 epigenetically moderate stress responsiveness of Arabidopsis thaliana seedlings.

Author

Perrella, Giorgio, Fasano, Carlo, Donald, Naomi A., Daddiego, Loretta, Fang, Weiwei, Martignago, Damiano, Carr, Craig, Conti, Lucio, Herzyk, Pawel, and Amtmann, Anna

Subjects
HISTONE deacetylase, SEEDLINGS, ARABIDOPSIS thaliana, DEACETYLATION, GENETIC transcription regulation, EPIGENETICS
Abstract

Summary: Early responses of plants to environmental stress factors prevent damage but can delay growth and development in fluctuating conditions. Optimising these trade‐offs requires tunability of plant responsiveness to environmental signals.We have previously reported that Histone Deacetylase Complex 1 (HDC1), which interacts with multiple proteins in histone deacetylation complexes, regulates the stress responsiveness of Arabidopsis seedlings, but the underlying mechanism remained elusive.Here, we show that HDC1 attenuates transcriptome re‐programming in salt‐treated seedlings, and we identify two genes (LEA and MAF5) that inhibit seedling establishment under salt stress downstream of HDC1. HDC1 attenuates their transcriptional induction by salt via a dual mechanism involving H3K9/14 deacetylation and H3K27 trimethylation. The latter, but not the former, was also abolished in a triple knockout mutant of the linker histone H1, which partially mimics the hypersensitivity of the hdc1‐1 mutant to salt stress. Although stress‐induced H3K27me3 accumulation required both H1 and HDC1, it was not fully recovered by complementing hdc1‐1 with a truncated, H1‐binding competent HDC1 suggesting other players or independent inputs.The combined findings reveal a dual brake function of HDC1 via regulating both active and repressive epigenetic marks on stress‐inducible genes. This natural 'anti‐panic' device offers a molecular leaver to tune stress responsiveness in plants. See also the Commentary on this article by Archacki, 241: 7–9. [ABSTRACT FROM AUTHOR]

Published
2024
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5. The coffee genome provides insight into the convergent evolution of caffeine biosynthesis

Author

Denoeud, France, Carretero-Paulet, Lorenzo, Dereeper, Alexis, Droc, Gaëtan, Guyot, Romain, Pietrella, Marco, Zheng, Chunfang, Alberti, Adriana, Anthony, François, Aprea, Giuseppe, Aury, Jean-Marc, Bento, Pascal, Bernard, Maria, Bocs, Stéphanie, Campa, Claudine, Cenci, Alberto, Combes, Marie-Christine, Crouzillat, Dominique, Da Silva, Corinne, Daddiego, Loretta, De Bellis, Fabien, Dussert, Stéphane, Garsmeur, Olivier, Gayraud, Thomas, Guignon, Valentin, Jahn, Katharina, Jamilloux, Véronique, Joët, Thierry, Labadie, Karine, Lan, Tianying, Leclercq, Julie, Lepelley, Maud, Leroy, Thierry, Li, Lei-Ting, Librado, Pablo, Lopez, Loredana, Muñoz, Adriana, Noel, Benjamin, Pallavicini, Alberto, Perrotta, Gaetano, Poncet, Valérie, Pot, David, Rigoreau, Michel, Rouard, Mathieu, Rozas, Julio, Tranchant-Dubreuil, Christine, VanBuren, Robert, Zhang, Qiong, Andrade, Alan C., Argout, Xavier, Bertrand, Benoît, de Kochko, Alexandre, Graziosi, Giorgio, Henry, Robert J, Ming, Ray, Nagai, Chifumi, Rounsley, Steve, Sankoff, David, Giuliano, Giovanni, Albert, Victor A., Wincker, Patrick, and Lashermes, Philippe

Published
2014

7. Transcriptomic and methylation analysis of susceptible and tolerant grapevine genotypes following Plasmopara viticola infection

Author

Azevedo, Vanessa, primary, Daddiego, Loretta, additional, Cardone, Maria Francesca, additional, Perrella, Giorgio, additional, Sousa, Lisete, additional, Santos, Rita B., additional, Malhó, Rui, additional, Bergamini, Carlo, additional, Marsico, Antonio Domenico, additional, Figueiredo, Andreia, additional, and Alagna, Fiammetta, additional

Published
2022
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9. Correction: Transcript Analysis and Regulative Events during Flower Development in Olive (Olea europaea L.)

Author

Alagna, Fiammetta, primary, Cirilli, Marco, additional, Galla, Giulio, additional, Carbone, Fabrizio, additional, Daddiego, Loretta, additional, Facella, Paolo, additional, Lopez, Loredana, additional, Colao, Chiara, additional, Mariotti, Roberto, additional, Cultrera, Nicolò, additional, Rossi, Martina, additional, Barcaccia, Gianni, additional, Baldoni, Luciana, additional, Muleo, Rosario, additional, and Perrotta, Gaetano, additional

Published
2022
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10. PLANT GENOMICS: The coffee genome provides insight into the convergent evolution of caffeine biosynthesis

Author

Denoeud, France, Carretero-Paulet, Lorenzo, Dereeper, Alexis, Droc, Gaëtan, Guyot, Romain, Pietrella, Marco, Zheng, Chunfang, Alberti, Adriana, Anthony, François, Aprea, Giuseppe, Aury, Jean-Marc, Bento, Pascal, Bernard, Maria, Bocs, Stéphanie, Campa, Claudine, Cenci, Alberto, Combes, Marie-Christine, Crouzillat, Dominique, Da Silva, Corinne, Daddiego, Loretta, De Bellis, Fabien, Dussert, Stéphane, Garsmeur, Olivier, Gayraud, Thomas, Guignon, Valentin, Jahn, Katharina, Jamilloux, Véronique, Joët, Thierry, Labadie, Karine, Lan, Tianying, Leclercq, Julie, Lepelley, Maud, Leroy, Thierry, Li, Lei-Ting, Librado, Pablo, Lopez, Loredana, Muñoz, Adriana, Noel, Benjamin, Pallavicini, Alberto, Perrotta, Gaetano, Poncet, Valérie, Pot, David, Priyono, Rigoreau, Michel, Rouard, Mathieu, Rozas, Julio, Tranchant-Dubreuil, Christine, VanBuren, Robert, Zhang, Qiong, Andrade, Alan C., Argout, Xavier, Bertrand, Benoît, de Kochko, Alexandre, Graziosi, Giorgio, Henry, Robert J, Jayarama, Ming, Ray, Nagai, Chifumi, Rounsley, Steve, Sankoff, David, Giuliano, Giovanni, Albert, Victor A., Wincker, Patrick, and Lashermes, Philippe

Published
2014
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11. The tomato genome sequence provides insights into fleshy fruit evolution

Author

Sato, Shusei, Tabata, Satoshi, Hirakawa, Hideki, Asamizu, Erika, Shirasawa, Kenta, Isobe, Sachiko, Kaneko, Takakazu, Nakamura, Yasukazu, Shibata, Daisuke, Aoki, Koh, Egholm, Michael, Knight, James, Bogden, Robert, Li, Changbao, Shuang, Yang, Xu, Xun, Pan, Shengkai, Cheng, Shifeng, Liu, Xin, Ren, Yuanyuan, Wang, Jun, Albiero, Alessandro, Dal Pero, Francesca, Todesco, Sara, Van Eck, Joyce, Buels, Robert M., Bombarely, Aureliano, Gosselin, Joseph R., Huang, Minyun, Leto, Jonathan A., Menda, Naama, Strickler, Susan, Mao, Linyong, Gao, Shan, Tecle, Isaak Y., York, Thomas, Zheng, Yi, Vrebalov, Julia T., Lee, JeMin, Zhong, Silin, Mueller, Lukas A., Stiekema, Willem J., Ribeca, Paolo, Alioto, Tyler, Yang, Wencai, Huang, Sanwen, Du, Yongchen, Zhang, Zhonghua, Gao, Jianchang, Guo, Yanmei, Wang, Xiaoxuan, Li, Ying, He, Jun, Li, Chuanyou, Cheng, Zhukuan, Zuo, Jianru, Ren, Jianfeng, Zhao, Jiuhai, Yan, Liuhua, Jiang, Hongling, Wang, Bao, Li, Hongshuang, Li, Zhenjun, Fu, Fuyou, Chen, Bingtang, Han, Bin, Feng, Qi, Fan, Danlin, Wang, Ying, Ling, Hongqing, Xue, Yongbiao, Ware, Doreen, Richard McCombie, W., Lippman, Zachary B., Chia, Jer-Ming, Jiang, Ke, Pasternak, Shiran, Gelley, Laura, Kramer, Melissa, Anderson, Lorinda K., Chang, Song-Bin, Royer, Suzanne M., Shearer, Lindsay A., Stack, Stephen M., Rose, Jocelyn K. C., Xu, Yimin, Eannetta, Nancy, Matas, Antonio J., McQuinn, Ryan, Tanksley, Steven D., Camara, Francisco, Guigó, Roderic, Rombauts, Stephane, Fawcett, Jeffrey, Van de Peer, Yves, Zamir, Dani, Liang, Chunbo, Spannagl, Manuel, Gundlach, Heidrun, Bruggmann, Remy, Mayer, Klaus, Jia, Zhiqi, Zhang, Junhong, Ye, Zhibiao, Bishop, Gerard J., Butcher, Sarah, Lopez-Cobollo, Rosa, Buchan, Daniel, Filippis, Ioannis, Abbott, James, Dixit, Rekha, Singh, Manju, Singh, Archana, Kumar Pal, Jitendra, Pandit, Awadhesh, Kumar Singh, Pradeep, Kumar Mahato, Ajay, Dogra, Vivek, Gaikwad, Kishor, Raj Sharma, Tilak, Mohapatra, Trilochan, Kumar Singh, Nagendra, Causse, Mathilde, Rothan, Christophe, Schiex, Thomas, Noirot, Céline, Bellec, Arnaud, Klopp, Christophe, Delalande, Corinne, Berges, Hélène, Mariette, Jérôme, Frasse, Pierre, Vautrin, Sonia, Zouine, Mohamed, Latché, Alain, Rousseau, Christine, Regad, Farid, Pech, Jean-Claude, Philippot, Murielle, Bouzayen, Mondher, Pericard, Pierre, Osorio, Sonia, Fernandez del Carmen, Asunción, Monforte, Antonio, Granell, Antonio, Fernandez-Muñoz, Rafael, Conte, Mariana, Lichtenstein, Gabriel, Carrari, Fernando, De Bellis, Gianluca, Fuligni, Fabio, Peano, Clelia, Grandillo, Silvana, Termolino, Pasquale, Pietrella, Marco, Fantini, Elio, Falcone, Giulia, Fiore, Alessia, Giuliano, Giovanni, Lopez, Loredana, Facella, Paolo, Perrotta, Gaetano, Daddiego, Loretta, Bryan, Glenn, Orozco, Modesto, Pastor, Xavier, Torrents, David, van Schriek, Marco G. M., Feron, Richard M.C., van Oeveren, Jan, de Heer, Peter, daPonte, Lorena, Jacobs-Oomen, Saskia, Cariaso, Mike, Prins, Marcel, van Eijk, Michiel J. T., Janssen, Antoine, van Haaren, Mark J. J., Jo, Sung-Hwan, Kim, Jungeun, Kwon, Suk-Yoon, Kim, Sangmi, Koo, Dal-Hoe, Lee, Sanghyeob, Hur, Cheol-Goo, Clouser, Christopher, Rico, Alain, Hallab, Asis, Gebhardt, Christiane, Klee, Kathrin, Jöcker, Anika, Warfsmann, Jens, Göbel, Ulrike, Kawamura, Shingo, Yano, Kentaro, Sherman, Jamie D., Fukuoka, Hiroyuki, Negoro, Satomi, Bhutty, Sarita, Chowdhury, Parul, Chattopadhyay, Debasis, Datema, Erwin, Smit, Sandra, Schijlen, Elio G. W. M., van de Belt, Jose, van Haarst, Jan C., Peters, Sander A., van Staveren, Marjo J., Henkens, Marleen H. C., Mooyman, Paul J. W., Hesselink, Thamara, van Ham, Roeland C. H. J., Jiang, Guoyong, Droege, Marcus, Choi, Doil, Kang, Byung-Cheol, Dong Kim, Byung, Park, Minkyu, Kim, Seungill, Yeom, Seon-In, Lee, Yong-Hwan, Choi, Yang-Do, Li, Guangcun, Gao, Jianwei, Liu, Yongsheng, Huang, Shengxiong, Fernandez-Pedrosa, Victoria, Collado, Carmen, Zuñiga, Sheila, Wang, Guoping, Cade, Rebecca, Dietrich, Robert A., Rogers, Jane, Knapp, Sandra, Fei, Zhangjun, White, Ruth A., Thannhauser, Theodore W., Giovannoni, James J., Angel Botella, Miguel, Gilbert, Louise, Gonzalez, Ramon, Luis Goicoechea, Jose, Yu, Yeisoo, Kudrna, David, Collura, Kristi, Wissotski, Marina, Wing, Rod, Schoof, Heiko, Meyers, Blake C., Bala Gurazada, Aishwarya, Green, Pamela J., Mathur, Saloni, Vyas, Shailendra, Solanke, Amolkumar U., Kumar, Rahul, Gupta, Vikrant, Sharma, Arun K., Khurana, Paramjit, Khurana, Jitendra P., Tyagi, Akhilesh K., Dalmay, Tamas, Mohorianu, Irina, Walts, Brandon, Chamala, Srikar, Brad Barbazuk, W., Li, Jingping, Guo, Hui, Lee, Tae-Ho, Wang, Yupeng, Zhang, Dong, Paterson, Andrew H., Wang, Xiyin, Tang, Haibao, Barone, Amalia, Luisa Chiusano, Maria, Raffaella Ercolano, Maria, D’Agostino, Nunzio, Di Filippo, Miriam, Traini, Alessandra, Sanseverino, Walter, Frusciante, Luigi, Seymour, Graham B., Elharam, Mounir, Fu, Ying, Hua, Axin, Kenton, Steven, Lewis, Jennifer, Lin, Shaoping, Najar, Fares, Lai, Hongshing, Qin, Baifang, Qu, Chunmei, Shi, Ruihua, White, Douglas, White, James, Xing, Yanbo, Yang, Keqin, Yi, Jing, Yao, Ziyun, Zhou, Liping, Roe, Bruce A., Vezzi, Alessandro, D’Angelo, Michela, Zimbello, Rosanna, Schiavon, Riccardo, Caniato, Elisa, Rigobello, Chiara, Campagna, Davide, Vitulo, Nicola, Valle, Giorgio, Nelson, David R., De Paoli, Emanuele, Szinay, Dora, de Jong, Hans H., Bai, Yuling, Visser, Richard G. F., Klein Lankhorst, René M., Beasley, Helen, McLaren, Karen, Nicholson, Christine, Riddle, Claire, and Gianese, Giulio

Published
2012
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12. Additional file 2: of Comparative transcriptomics between high and low rubber producing Taraxacum kok-saghyz R. plants

Author

Panara, Francesco, Lopez, Loredana, Daddiego, Loretta, Fantini, Elio, Facella, Paolo, and Perrotta, Gaetano

Abstract

Figure S1. Average rubber content (% w/w) of the accessions analyzed. Figure S2. The gene ontology (GO) distributions of the unigenes. Figure S3. Enzyme Code distributions (EC) of the unigenes for the six main classes of enzymes. Figure S4. KEGG pathway classification map. Figure S5. Comparison of HR/LR ratios (expressed as log2) produced with RNA-Seq and qRT-PCR of 27 selected genes. Figure S6. Sequence alignment of contigs presenting sequence homology with HMGCRs. Figure S7. Phylogenetic relationship of HMGRs. Figure S8. Phylogenetic relationship of SRPPs/REFs. Figure S9. Phylogenetic relationship of CPTs/CPTLs. Figure S10. Expression of contigs involved in phenylpropanoid and flavonoid biosynthesis, and belonging to CYP80â 81-82 and RAP (Root allergen protein) categories in HR compared to LR and Y11 plants. (PDF 1638 kb)

Published
2018
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13. Omics approaches on fresh‐cut lettuce reveal global molecular responses to sodium hypochlorite and peracetic acid treatment

Author

Daddiego, Loretta, primary, Bianco, Linda, additional, Capodicasa, Cristina, additional, Carbone, Fabrizio, additional, Dalmastri, Claudia, additional, Daroda, Lorenza, additional, Del Fiore, Antonella, additional, De Rossi, Patrizia, additional, Di Carli, Mariasole, additional, Donini, Marcello, additional, Lopez, Loredana, additional, Mengoni, Alessio, additional, Paganin, Patrizia, additional, Perrotta, Gaetano, additional, and Bevivino, Annamaria, additional

Published
2017
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14. The transcriptional response to the olive fruit fly (Bactrocera oleae) reveals extended differences between tolerant and susceptible olive (Olea europaea L.) varieties

Author

Grasso, Filomena, primary, Coppola, Mariangela, additional, Carbone, Fabrizio, additional, Baldoni, Luciana, additional, Alagna, Fiammetta, additional, Perrotta, Gaetano, additional, Pérez-Pulido, Antonio J., additional, Garonna, Antonio, additional, Facella, Paolo, additional, Daddiego, Loretta, additional, Lopez, Loredana, additional, Vitiello, Alessia, additional, Rao, Rosa, additional, and Corrado, Giandomenico, additional

Published
2017
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15. Correction: Pyrosequencing Unveils Cystic Fibrosis Lung Microbiome Differences Associated with a Severe Lung Function Decline

Author

Bacci, Giovanni, primary, Paganin, Patrizia, additional, Lopez, Loredana, additional, Vanni, Chiara, additional, Dalmastri, Claudia, additional, Cantale, Cristina, additional, Daddiego, Loretta, additional, Perrotta, Gaetano, additional, Dolce, Daniela, additional, Morelli, Patrizia, additional, Tuccio, Vanessa, additional, De Alessandri, Alessandra, additional, Fiscarelli, Ersilia Vita, additional, Taccetti, Giovanni, additional, Lucidi, Vincenzina, additional, Bevivino, Annamaria, additional, and Mengoni, Alessio, additional

Published
2016
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16. Pyrosequencing Unveils Cystic Fibrosis Lung Microbiome Differences Associated with a Severe Lung Function Decline

Author

Bacci, Giovanni, primary, Paganin, Patrizia, additional, Lopez, Loredana, additional, Vanni, Chiara, additional, Dalmastri, Claudia, additional, Cantale, Cristina, additional, Daddiego, Loretta, additional, Perrotta, Gaetano, additional, Dolce, Daniela, additional, Morelli, Patrizia, additional, Tuccio, Vanessa, additional, De Alessandri, Alessandra, additional, Fiscarelli, Ersilia Vita, additional, Taccetti, Giovanni, additional, Lucidi, Vincenzina, additional, Bevivino, Annamaria, additional, and Mengoni, Alessio, additional

Published
2016
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17. Transcript Analysis and Regulative Events during Flower Development in Olive (Olea europaea L.)

Author

Alagna, Fiammetta, primary, Cirilli, Marco, additional, Galla, Giulio, additional, Carbone, Fabrizio, additional, Daddiego, Loretta, additional, Facella, Paolo, additional, Lopez, Loredana, additional, Colao, Chiara, additional, Mariotti, Roberto, additional, Cultrera, Nicolò, additional, Rossi, Martina, additional, Barcaccia, Gianni, additional, Baldoni, Luciana, additional, Muleo, Rosario, additional, and Perrotta, Gaetano, additional

Published
2016
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18. Comparative transcriptomics between high and low rubber producing Taraxacum koksaghyz R. plants.

Author

Panara, Francesco, Lopez, Loredana, Daddiego, Loretta, Fantini, Elio, Facella, Paolo, and Perrotta, Gaetano

Subjects
TRANSCRIPTOMES, KOK-saghyz, RUBBER plants, RUBBER, PLANT product synthesis, COMPARATIVE genomics, PLANT genomes, GENE expression in plants
Abstract

Background: Taraxacum kok-saghyz R. (Tks) is a promising alternative species to Hevea brasiliensis for production of high quality natural rubber (NR). A comparative transcriptome analysis of plants with differential production of NR will contribute to elucidate which genes are involved in the synthesis, regulation and accumulation of this natural polymer and could help to develop Tks into a rubber crop. Results: We measured rubber content in the latex of 90 individual Tks plants from 9 accessions, observing a high degree of variability. We carried out de novo root transcriptome sequencing, assembly, annotation and comparison of gene expression of plants with the lower (LR plants) and the higher rubber content (HR plants). The transcriptome analysis also included one plant that did not expel latex, in principle depleted of latex transcripts. Moreover, the transcription of some genes well known to play a major role in rubber biosynthesis, was probed by qRT-PCR. Our analysis showed a high modulation of genes involved in the synthesis of NR between LR and HR plants, and evidenced that genes involved in sesquiterpenoids, monoterpenoids and phenylpropanoid biosynthesis are upregulated in LR plants. Conclusions: Our results show that a higher amount of rubber in the latex in HR plants is positively correlated with high expression levels of a number of genes directly involved in rubber synthesis showing that NR production is highly controlled at transcriptional level. On the other hand, lower amounts of rubber in LR plants is related with higher expression of genes involved in the synthesis of other secondary metabolites that, we hypothesize, may compete towards NR biosynthesis. This dataset represents a fundamental genomic resource for the study of Tks and the comprehension of the synthesis of NR and other biochemically and pharmacologically relevant compounds in the Taraxacum genus. [ABSTRACT FROM AUTHOR]

Published
2018
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19. Omics approaches on fresh-cut lettuce reveal global molecular responses to sodium hypochlorite and peracetic acid treatment.

Author

Daddiego, Loretta, Bianco, Linda, Capodicasa, Cristina, Carbone, Fabrizio, Dalmastri, Claudia, Daroda, Lorenza, Del Fiore, Antonella, De Rossi, Patrizia, Di Carli, Mariasole, Donini, Marcello, Lopez, Loredana, Mengoni, Alessio, Paganin, Patrizia, Perrotta, Gaetano, and Bevivino, Annamaria

Subjects
*LETTUCE, *SODIUM hypochlorite, *PERACETIC acid, *SALADS, *VEGETABLE storage
Abstract

BACKGROUND Lettuce is a leafy vegetable that is extensively commercialized as a ready-to-eat product because of its widespread use in human nutrition as salad. It is well known that washing treatments can severely affect the quality and shelf-life of ready-to-eat vegetables. The study presented here evaluated the effect of two washing procedures on fresh-cut lettuce during storage. RESULTS An omics approach was applied to reveal global changes at molecular level induced by peracetic acid washing in comparison with sodium hypochlorite treatment. Microbiological analyses were also performed to quantify total bacterial abundance and composition. The study revealed wide metabolic alterations induced by the two sanitizers. In particular, transcriptomic and proteomic analyses pointed out a number of transcripts and proteins differentially accumulated in response to peracetic acid washing, mainly occurring on the first day of storage. In parallel, different microbiota composition and significant reduction in total bacterial load following washing were also observed. CONCLUSION The results provide useful information for the fresh-cut industry to select an appropriate washing procedure preserving fresh-like attributes as much as possible during storage of the end product. Molecular evidence indicated peracetic acid to be a valid alternative to sodium hypochlorite as sanitizer solution. © 2017 Society of Chemical Industry [ABSTRACT FROM AUTHOR]

Published
2018
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23. The coffee genome provides insight into the convergent evolution of caffeine biosynthesis

Author

Giorgio Graziosi, Maria Bernard, Michel Rigoreau, Adriana Muñoz, Olivier Garsmeur, Alan Carvalho Andrade, Qiong Zhang, Priyono, Xavier Argout, Lorenzo Carretero-Paulet, Thomas Gayraud, Giovanni Giuliano, Alexandre de Kochko, Steve Rounsley, Alberto Pallavicini, Benoît Bertrand, David Sankoff, Claudine Campa, Dominique Crouzillat, Patrick Wincker, Loretta Daddiego, François Anthony, Marie Christine Combes, Romain Guyot, Valentin Guignon, Katharina Jahn, Loredana Lopez, Pascal Bento, Stéphane Dussert, Christine Tranchant-Dubreuil, Maud Lepelley, Tianying Lan, Ray Ming, Thierry Joët, Gaëtan Droc, G. Aprea, Corinne Da Silva, Julio Rozas, David Pot, Véronique Jamilloux, Thierry Leroy, Benjamin Noel, Valérie Poncet, Pablo Librado, Adriana Alberti, Victor A. Albert, Jean-Marc Aury, Gaetano Perrotta, Philippe Lashermes, Robert VanBuren, Chunfang Zheng, Robert J Henry, Leiting Li, Julie Leclercq, Chifumi Nagai, Marco Pietrella, Karine Labadie, Jayarama, Stéphanie Bocs, Alberto Cenci, Fabien De Bellis, Mathieu Rouard, Alexis Dereeper, Génomique métabolique (UMR 8030), Genoscope - Centre national de séquençage [Evry] (GENOSCOPE), Université Paris-Saclay-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université d'Évry-Val-d'Essonne (UEVE)-Centre National de la Recherche Scientifique (CNRS), Université d'Évry-Val-d'Essonne (UEVE), Institut de Génomique d'Evry (IG), Université Paris-Saclay-Institut de Biologie François JACOB (JACOB), Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA), University at Buffalo [SUNY] (SUNY Buffalo), State University of New York (SUNY), Institut de Recherche pour le Développement (IRD), Résistance des plantes aux bio-agresseurs (UMR RPB), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Université Montpellier 2 - Sciences et Techniques (UM2), Amélioration génétique et adaptation des plantes méditerranéennes et tropicales (UMR AGAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Diversité, adaptation, développement des plantes (UMR DIADE), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud]), Agenzia Nazionale per le nuove Tecnologie, l’energia e lo sviluppo economico sostenibile = Italian National Agency for New Technologies, Energy and Sustainable Economic Development (ENEA), Department of Mathematics and Statistics [Ottawa], University of Ottawa [Ottawa], Commissariat à l'énergie atomique et aux énergies alternatives (CEA), Bioversity, Parc Scientifique Agropolis II, Nestlé France, Center for Biotechnology (CeBiTec), Universität Bielefeld = Bielefeld University, Unité de Recherche Génomique Info (URGI), Institut National de la Recherche Agronomique (INRA), Chongqing University of Science & Technology, University of Illinois at Urbana-Champaign [Urbana], University of Illinois System, Institut de Recerca de la Biodiversitat - Biodiversity Research Institute [Barcelona, Spain] (IRBio UB), Universitat de Barcelona (UB), Department of Mathematics [College Park], University of Maryland [College Park], University of Maryland System-University of Maryland System, Università degli studi di Trieste = University of Trieste, Indonesian Coffee and Cocoa Research Institute, Partenaires INRAE, Embrapa Recursos Genéticos e Biotecnologia [Brasília], Queensland Alliance for Agriculture and Food Innovation (QAAFI), University of Queensland [Brisbane], Hawaii Agriculture Research Center, University of Arizona, Australian Research Council, Natural Sciences and Engineering Research Council of Canada, CNR-ENEA Agrifood Project A2 C44 L191, FINEP-Qualicafe, NSF 0922742 0922545, College of Arts and Sciences, University at Buffalo, SouthGreen Bioinformatics platform (UMR AGAP), CIRAD, INCT-CAFE, ANR-08-GENM-022-001, ANR-09-GENM-014-002, ANR-08-GENM-0022,GénomeCafé,Analyses de séquences d'extrémités de clones BAC comme étape préliminaire au séquençage du génome des caféiers(2008), ANR-09-GENM-0014,COFFEASEQ,Séquençage du génome du caféier (Coffea canephora)(2009), Institut de Biologie François JACOB (JACOB), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay, Université Montpellier 2 - Sciences et Techniques (UM2)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Institut de Recherche pour le Développement (IRD [France-Sud])-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Italian National Agency for New Technologies, Energy and Sustainable Economic Development (ENEA), Department of Mathematics, University of Maryland, University of Trieste, Giuliano, G., Perrotta, G., Lopez, Daddiego, L., Aprea, G., Pietrella, M., Denoeud, France, Carretero Paulet, Lorenzo, Dereeper, Alexi, Droc, Gaëtan, Guyot, Romain, Pietrella, Marco, Zheng, Chunfang, Alberti, Adriana, Anthony, Françoi, Aprea, Giuseppe, Aury, Jean Marc, Bento, Pascal, Bernard, Maria, Bocs, Stéphanie, Campa, Claudine, Cenci, Alberto, Combes, Marie Christine, Crouzillat, Dominique, Da Silva, Corinne, Daddiego, Loretta, De Bellis, Fabien, Dussert, Stéphane, Garsmeur, Olivier, Gayraud, Thoma, Guignon, Valentin, Jahn, Katharina, Jamilloux, Véronique, Joët, Thierry, Labadie, Karine, Lan, Tianying, Leclercq, Julie, Lepelley, Maud, Leroy, Thierry, Li, Lei Ting, Librado, Pablo, Lopez, Loredana, Muñoz, Adriana, Noel, Benjamin, Pallavicini, Alberto, Perrotta, Gaetano, Poncet, Valérie, Pot, David, Priyono, P., Rigoreau, Michel, Rouard, Mathieu, Rozas, Julio, Tranchant Dubreuil, Christine, Vanburen, Robert, Zhang, Qiong, Andrade, Alan C., Argout, Xavier, Bertrand, Benoît, De Kochko, Alexandre, Graziosi, Giorgio, Henry, Robert J., Jayarama, J., Ming, Ray, Nagai, Chifumi, Rounsley, Steve, Sankoff, David, Giuliano, Giovanni, Albert, Victor A., Wincker, Patrick, and Lashermes, Philippe

Subjects
Phylogénie, [SDV]Life Sciences [q-bio], Coffea, Évolution, biosynthèse, Genome, Camellia sinensis, F30 - Génétique et amélioration des plantes, chemistry.chemical_compound, Solanum lycopersicum, genetics, Methyltransferase, Phylogeny, Plant Proteins, caffeine, 2. Zero hunger, Genetics, Multidisciplinary, Medicine (all), Plant Protein, food and beverages, F70 - Taxonomie végétale et phytogéographie, Caféine, Caffeine, Genome, Plant, coffea, Canephora, F60 - Physiologie et biochimie végétale, Biology, Transférase, Coffea canephora, Evolution, Molecular, Phylogenetics, evolution, Methyltransferases, Gene family, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, Theobroma cacao, Gene, genome, Génome, Molecular, Plant, biology.organism_classification, chemistry, Angiosperme
Abstract

Coffee, tea, and chocolate converge Caffeine has evolved multiple times among plant species, but no one knows whether these events involved similar genes. Denoeud et al. sequenced the Coffea canephora (coffee) genome and identified a conserved gene order (see the Perspective by Zamir). Although this species underwent fewer genome duplications than related species, the relevant caffeine genes experienced tandem duplications that expanded their numbers within this species. Scientists have seen similar but independent expansions in distantly related species of tea and cacao, suggesting that caffeine might have played an adaptive role in coffee evolution. Science , this issue p. 1181 ; see also p. 1124

Published
2014
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