Search

Your search keyword '"Vrebalov, Julia"' showing total 199 results
Start Over Author "Vrebalov, Julia"
199 results on '"Vrebalov, Julia"'

2. The genome of the stress-tolerant wild tomato species Solanum pennellii.

Author

Bolger, Anthony, Scossa, Federico, Bolger, Marie E, Lanz, Christa, Maumus, Florian, Tohge, Takayuki, Quesneville, Hadi, Alseekh, Saleh, Sørensen, Iben, Lichtenstein, Gabriel, Fich, Eric A, Conte, Mariana, Keller, Heike, Schneeberger, Korbinian, Schwacke, Rainer, Ofner, Itai, Vrebalov, Julia, Xu, Yimin, Osorio, Sonia, Aflitos, Saulo Alves, Schijlen, Elio, Jiménez-Goméz, José M, Ryngajllo, Malgorzata, Kimura, Seisuke, Kumar, Ravi, Koenig, Daniel, Headland, Lauren R, Maloof, Julin N, Sinha, Neelima, van Ham, Roeland CHJ, Lankhorst, René Klein, Mao, Linyong, Vogel, Alexander, Arsova, Borjana, Panstruga, Ralph, Fei, Zhangjun, Rose, Jocelyn KC, Zamir, Dani, Carrari, Fernando, Giovannoni, James J, Weigel, Detlef, Usadel, Björn, and Fernie, Alisdair R

Subjects
Chromosomes, Plant, Solanum, DNA Transposable Elements, Chromosome Mapping, Genome, Plant, Quantitative Trait Loci, Stress, Physiological, Chromosomes, Plant, Genome, Stress, Physiological, Developmental Biology, Biological Sciences, Medical and Health Sciences
Abstract

Solanum pennellii is a wild tomato species endemic to Andean regions in South America, where it has evolved to thrive in arid habitats. Because of its extreme stress tolerance and unusual morphology, it is an important donor of germplasm for the cultivated tomato Solanum lycopersicum. Introgression lines (ILs) in which large genomic regions of S. lycopersicum are replaced with the corresponding segments from S. pennellii can show remarkably superior agronomic performance. Here we describe a high-quality genome assembly of the parents of the IL population. By anchoring the S. pennellii genome to the genetic map, we define candidate genes for stress tolerance and provide evidence that transposable elements had a role in the evolution of these traits. Our work paves a path toward further tomato improvement and for deciphering the mechanisms underlying the myriad other agronomic traits that can be improved with S. pennellii germplasm.

Published
2014

12. The maize W22 genome provides a foundation for functional genomics and transposon biology

Author

Springer, Nathan M., Anderson, Sarah N., Andorf, Carson M., Ahern, Kevin R., Bai, Fang, Barad, Omer, Barbazuk, W. Brad, Bass, Hank W., Baruch, Kobi, Ben-Zvi, Gil, Buckler, Edward S., Bukowski, Robert, Campbell, Michael S., Cannon, Ethalinda K. S., Chomet, Paul, Dawe, R. Kelly, Davenport, Ruth, Dooner, Hugo K., Du, Limei He, Du, Chunguang, Easterling, Katherine A., Gault, Christine, Guan, Jiahn-Chou, Hunter, Charles T., Jander, Georg, Jiao, Yinping, Koch, Karen E., Kol, Guy, Köllner, Tobias G., Kudo, Toru, Li, Qing, Lu, Fei, Mayfield-Jones, Dustin, Mei, Wenbin, McCarty, Donald R., Noshay, Jaclyn M., Portwood, II, John L., Ronen, Gil, Settles, A. Mark, Shem-Tov, Doron, Shi, Jinghua, Soifer, Ilya, Stein, Joshua C., Stitzer, Michelle C., Suzuki, Masaharu, Vera, Daniel L., Vollbrecht, Erik, Vrebalov, Julia T., Ware, Doreen, Wei, Sharon, Wimalanathan, Kokulapalan, Woodhouse, Margaret R., Xiong, Wenwei, and Brutnell, Thomas P.

Published
2018
Full Text
View/download PDF

14. Supplemental Data for Transcription factor VviNAC60 regulates senescence- and ripening-related 4 processes in grapevine

Author

D’Incà, Erica, Foresti, Chiara, Orduña, Luis, Amato, Alessandra, Vandelle, Elodie, Santiago, Antonio, Botton, Alessandro, Cazzaniga, Stefano, Bertini, Edoardo, Pezzotti, Mario, Giovannoni, James, Vrebalov, Julia T., Matus, José Tomás, Tornielli, Giovanni Battista, Zenoni, Sara, D’Incà, Erica, Foresti, Chiara, Orduña, Luis, Amato, Alessandra, Vandelle, Elodie, Santiago, Antonio, Botton, Alessandro, Cazzaniga, Stefano, Bertini, Edoardo, Pezzotti, Mario, Giovannoni, James, Vrebalov, Julia T., Matus, José Tomás, Tornielli, Giovanni Battista, and Zenoni, Sara

Published
2023

15. The transcription factor VviNAC60 regulates senescence- and ripening-related processes in grapevine

Author

Università degli Studi di Verona, National Science Foundation (US), Department of Agriculture (US), Agencia Estatal de Investigación (España), Ministerio de Ciencia, Innovación y Universidades (España), European Commission, European Cooperation in Science and Technology, D’Incà, Erica, Foresti, Chiara, Orduña, Luis, Amato, Alessandra, Vandelle, Elodie, Santiago, Antonio, Botton, Alessandro, Cazzaniga, Stefano, Bertini, Edoardo, Pezzotti, Mario, Giovannoni, James, Vrebalov, Julia T., Matus, José Tomás, Tornielli, Giovanni Battista, Zenoni, Sara, Università degli Studi di Verona, National Science Foundation (US), Department of Agriculture (US), Agencia Estatal de Investigación (España), Ministerio de Ciencia, Innovación y Universidades (España), European Commission, European Cooperation in Science and Technology, D’Incà, Erica, Foresti, Chiara, Orduña, Luis, Amato, Alessandra, Vandelle, Elodie, Santiago, Antonio, Botton, Alessandro, Cazzaniga, Stefano, Bertini, Edoardo, Pezzotti, Mario, Giovannoni, James, Vrebalov, Julia T., Matus, José Tomás, Tornielli, Giovanni Battista, and Zenoni, Sara

Abstract

Grapevine (Vitis vinifera L.) is one of the most widely cultivated fruit crops because the winemaking industry has huge economic relevance worldwide. Uncovering the molecular mechanisms controlling the developmental progression of plant organs will prove essential for maintaining high-quality grapes, expressly in the context of climate change, which impairs the ripening process. Through a deep inspection of transcriptomic data, we identified VviNAC60, a member of the NAC transcription factor family, as a putative regulator of grapevine organ maturation. We explored VviNAC60 binding landscapes through DNA affinity purification followed by sequencing and compared bound genes with transcriptomics datasets from grapevine plants stably and transiently overexpressing VviNAC60 to define a set of high-confidence targets. Among these, we identified key molecular markers associated with organ senescence and fruit ripening. Physiological, metabolic, and promoter activation analyses showed that VviNAC60 induces chlorophyll degradation and anthocyanin accumulation through the upregulation of STAY-GREEN PROTEIN 1 (VviSGR1) and VviMYBA1, respectively, with the latter being upregulated through a VviNAC60–VviNAC03 regulatory complex. Despite sharing a closer phylogenetic relationship with senescence-related homologs to the NAC transcription factor AtNAP, VviNAC60 complemented the nonripening(nor) mutant phenotype in tomato (Solanum lycopersicum), suggesting a dual role as an orchestrator of both ripening- and senescence-related processes. Our data support VviNAC60 as a regulator of processes initiated in the grapevine vegetative- to mature-phase organ transition and therefore as a potential target for enhancing the environmental resilience of grapevine by fine-tuning the duration of the vegetative phase.

Published
2023

18. The transcription factor VviNAC60 regulates senescence- and ripening-related processes in grapevine

Author

D’Incà, Erica, primary, Foresti, Chiara, additional, Orduña, Luis, additional, Amato, Alessandra, additional, Vandelle, Elodie, additional, Santiago, Antonio, additional, Botton, Alessandro, additional, Cazzaniga, Stefano, additional, Bertini, Edoardo, additional, Pezzotti, Mario, additional, Giovannoni, James, additional, Vrebalov, Julia, additional, Matus, José Tomás, additional, Tornielli, Giovanni Battista, additional, and Zenoni, Sara, additional

Published
2023
Full Text
View/download PDF

19. Spatiotemporal dynamics of the tomato fruit transcriptome under prolonged water stress

Author

Nicolas, Philippe, primary, Shinozaki, Yoshihito, additional, Powell, Adrian, additional, Philippe, Glenn, additional, Snyder, Stephen I, additional, Bao, Kan, additional, Zheng, Yi, additional, Xu, Yimin, additional, Courtney, Lance, additional, Vrebalov, Julia, additional, Casteel, Clare L, additional, Mueller, Lukas A, additional, Fei, Zhangjun, additional, Giovannoni, James J, additional, Rose, Jocelyn K C, additional, and Catalá, Carmen, additional

Published
2022
Full Text
View/download PDF

32. Initiation of organ maturation and fruit ripening in grapevine is controlled by the CARPO-NAC transcription factor

Author

D’Incà, Erica, primary, Foresti, Chiara, additional, Orduña, Luis, additional, Amato, Alessandra, additional, Vandelle, Elodie, additional, Santiago, Antonio, additional, Botton, Alessandro, additional, Cazzaniga, Stefano, additional, Bertini, Edoardo, additional, Pezzotti, Mario, additional, Giovannoni, James, additional, Vrebalov, Julia, additional, Matus, José Tomás, additional, Tornielli, Giovanni Battista, additional, and Zenoni, Sara, additional

Published
2021
Full Text
View/download PDF

33. Apple Ripening Is Controlled by a NAC Transcription Factor

Author

Migicovsky, Zoë, primary, Yeats, Trevor H., additional, Watts, Sophie, additional, Song, Jun, additional, Forney, Charles F., additional, Burgher-MacLellan, Karen, additional, Somers, Daryl J., additional, Gong, Yihui, additional, Zhang, Zhaoqi, additional, Vrebalov, Julia, additional, van Velzen, Robin, additional, Giovannoni, James G., additional, Rose, Jocelyn K. C., additional, and Myles, Sean, additional

Published
2021
Full Text
View/download PDF

34. Sequencing and comparative analysis of a conserved syntenic segment in the Solanaceae

Author

Wang, Ying, Diehl, Adam, Wu, Feinan, Vrebalov, Julia, Giovannoni, James, Siepel, Adam, and Tanksley, Steven D.

Subjects
Nucleotide sequencing -- Methods, Solanaceae -- Genetic aspects, Genomics -- Research, Biological sciences
Abstract

Comparative genomics is a powerful tool for gaining insight into genomic function and evolution. However, in plants, sequence data that would enable detailed comparisons of both coding and noncoding regions have been limited in availability. Here we report the generation and analysis of sequences for an unduplicated conserved syntenic segment (CSS) in the genomes of five members of the agriculturally important plant family Solanaceae. This CSS includes a 105-kb region of tomato chromosome 2 and orthologous regions of the potato, eggplant, pepper, and petunia genomes. With a total neutral divergence of 0.73-0.78 substitutions/site, these sequences are similar enough that most noncoding regions can be aligned, yet divergent enough to be informative about evolutionary dynamics and selective pressures. The CSS contains 17 distinct genes with generally conserved order and orientation, but with numerous small-scale differences between species. Our analysis indicates that the last common ancestor of these species lived ~27-36 million years ago, that more than one-third of short genomic segments (5-15 bp) are under selection, and that more than two-thirds of selected bases fall in noncoding regions. In addition, we identify genes under positive selection and analyze hundreds of conserved noncoding elements. This analysis provides a window into 30 million years of plant evolution in the absence of polyploidization.

Published
2008

35. Additional file 3 of Ectopic expression of miRNA172 in tomato (Solanum lycopersicum) reveals novel function in fruit development through regulation of an AP2 transcription factor

Author

Chung, Mi-Young, Nath, Ujjal Kumar, Vrebalov, Julia, Gapper, Nigel, Lee, Je Min, Do-Jin Lee, Kim, Chang Kil, and Giovannoni, James

Subjects
food and beverages
Abstract

Additional file 3 : Supplementary data 1. Sequences of AP2 family genes and putative miR172 binding sites

Published
2020
Full Text
View/download PDF

37. Additional file 2 of Ectopic expression of miRNA172 in tomato (Solanum lycopersicum) reveals novel function in fruit development through regulation of an AP2 transcription factor

Author

Chung, Mi-Young, Nath, Ujjal Kumar, Vrebalov, Julia, Gapper, Nigel, Lee, Je Min, Do-Jin Lee, Kim, Chang Kil, and Giovannoni, James

Subjects
food and beverages
Abstract

Additional file 2 : Supplementary Fig. S1. RACE-PCR analysis of miR172 cleaved products. Analysis was performed on wild-type and miR172 OE lines for (A) ripening stage fruit (B3) and (B) flowers. A fragment of the EF1-α gene was amplified in the same PCR reaction as an internal control. Supplementary Fig. S2. Expression level of the SlAP2a gene in wild-type and miR172 OE lines. WT and miR172 OE lines #16 and #26 tissues (L, leaf; B, breaker; B3, 3 days after breaker) were analyzed. The same filter was stripped and rehybridized to tomato a18S rRNA probe as a loading control. Supplementary Fig. S3. miR172 transcript abundance in wild-type (WT) and ripening mutants (rin, nor, Nr, Cnr). Tomato tissues (L, leaf; F, flower; D10, 10 days after 1 cm fruit; D20, 20 days after 1 cm fruit; D30, 30 days after 1 cm fruit; D35, 35 days after 1 cm fruit), were harvested, extracted for total RNA and 50 μg was loaded for RNA gel-blot analysis using a 5′-end-labeled DNA oligonucleotide probe complementary to miR172. 5S rRNA was used as a loading control. Supplementary Fig. S4. Accumulation of miR172 in wild-type and Cnr mutant fruit. Tomato tissues (F, flower; D10, 10 days after 1 cm fruit; D20, 20 days after 1 cm fruit; D30, 30 days after 1 cm fruit; D35, 35 days after 1 cm fruit) were extracted for total RNA of which 20 μg/sample was separated for RNA gel-blot analysis using a 5′-end-labeled DNA oligonucleotide complementary to miR172 as probe. Tomato 5S rRNA was used as a loading control. RNA gel-blot analysis was repeated three times and relative expression was determined relative to transcript levels in flower.

Published
2020
Full Text
View/download PDF

38. Additional file 4 of Ectopic expression of miRNA172 in tomato (Solanum lycopersicum) reveals novel function in fruit development through regulation of an AP2 transcription factor

Author

Chung, Mi-Young, Nath, Ujjal Kumar, Vrebalov, Julia, Gapper, Nigel, Lee, Je Min, Do-Jin Lee, Kim, Chang Kil, and Giovannoni, James

Abstract

Additional file 4. : Additional file 1. Gel images of Northern blot and RACE-PCR electrophoresis performed for different genes and RNAs which are used in this manuscript.

Published
2020
Full Text
View/download PDF

39. The cauliflower or gene encodes a DnaJ cysteine-rich domain-containing protein that mediates high levels of [beta]-carotene accumulation [W]

Author

Lu, Shan, Van Eck, Joyce, Zhou, Xiangjun, Lopez, Alex B., O'Halloran, Diana M., Cosman, Kelly M., Conlin, Brian J., Paolillo, Dominick J., Garvin, David F., Vrebalov, Julia, Kochian, Leon V., Kupper, Hendrik, Earle, Elizabeth D., Cao, Jun, and Li, Li

Subjects
Gene mutations -- Research, Carotenoids -- Research, Cauliflower -- Genetic aspects, Cysteine proteinases -- Research, Biological sciences, Science and technology
Published
2006

42. 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
Full Text
View/download PDF

44. Genome of Solanum pimpinellifolium provides insights into structural variants during tomato breeding

Author

Wang, Xin, primary, Gao, Lei, additional, Jiao, Chen, additional, Stravoravdis, Stefanos, additional, Hosmani, Prashant S., additional, Saha, Surya, additional, Zhang, Jing, additional, Mainiero, Samantha, additional, Strickler, Susan R., additional, Catala, Carmen, additional, Martin, Gregory B., additional, Mueller, Lukas A., additional, Vrebalov, Julia, additional, Giovannoni, James J., additional, Wu, Shan, additional, and Fei, Zhangjun, additional

Published
2020
Full Text
View/download PDF

45. Melon ethylene-mediated transcriptome and methylome dynamics provide insights to volatile production

Author

Feder, Ari, primary, Jiao, Chen, additional, Galpaz, Navot, additional, Vrebalov, Julia, additional, Xu, Yimin, additional, Portnoy, Vitaly, additional, Tzuri, Galil, additional, Gonda, Itay, additional, Burger, Joseph, additional, Gur, Amit, additional, Tadmor, Yaakov, additional, Schaffer, Arthur A., additional, Lewinsohn, Efraim, additional, Katzir, Nurit, additional, Fei, Zhangjun, additional, and Giovannoni, James J., additional

Published
2020
Full Text
View/download PDF

47. Allelic diversity of NAC18.1 is a major determinant of fruit firmness and harvest date in apple (Malus domestica)

Author

Yeats, Trevor H., Migicovsky, Zoë, Watts, Sophie, Song, Jun, Forney, Charles F., Burgher-MacLellan, Karen, Somers, Daryl J., Vrebalov, Julia, Giovannoni, James G., Rose, Jocelyn K. C., and Myles, Sean

Subjects
food and beverages
Abstract

Softening is a hallmark of ripening in fleshy fruits, and has both desirable and undesirable implications for texture and postharvest stability. Accordingly, the timing and extent of ripening and associated textural changes are key targets for improving fruit quality through breeding. Previously, we identified a large effect locus associated with harvest date and firmness in apple ( Malus domestica ) using genome-wide association studies (GWAS). Here, we present additional evidence that polymorphisms in or around a transcription factor gene, NAC18.1 , cause variation in these traits. First, we confirmed our previous findings with new phenotype and genotype data from ~800 apple accessions. In this population, we compared NAC18.1 to three other ripening-related markers currently used by breeders ( ACS1 , ACO1 , and PG1 ), and found that the effect of the NAC18.1 genotype on both traits greatly exceeded that observed for the other markers. By sequencing NAC18.1 across 18 accessions, we revealed two predominant haplotypes containing the SNP previously identified using GWAS, as well as dozens of additional SNPs and indels in both the coding and promoter sequences. NAC18.1 encodes a protein with high similarity to the NON-RIPENING (NOR) transcription factor, an early regulator of ripening in tomato ( Solanum lycopersicum ). To test whether these genes are functionally orthologous, we introduced NAC18.1 transgenes into the tomato nor mutant and showed that both haplotypes complement the nor ripening deficiency. Taken together, these results indicate that polymorphisms in NAC18.1 underlie substantial variation in apple firmness and harvest time through modulation of a conserved ripening program. Highlight NAC18.1 is a member of a family of conserved transcriptional regulators of ripening that underlies variation in fruit firmness and harvest date in diverse apple accessions.

Published
2019
Full Text
View/download PDF

48. A physical map of the highly heterozygous Populus genome: integration with the genome sequence and genetic map and analysis of haplotype variation

Author

Kelleher, Colin T., Chiu, Readman, Shin, Heesun, Bosdet, Ian E., Krzywinski, Martin I., Fjell, Chris D., Wilkin, Jennifer, Yin, TongMing, DiFazio, Stephen P., Ali, Johar, Asano, Jennifer K., Chan, Susanna, Cloutier, Alison, Girn, Noreen, Leach, Stephen, Lee, Darlene, Mathewson, Carrie A., Olson, Teika, OʼConnor, Katie, Prabhu, Anna-Liisa, Smailus, Duane E., Stott, Jeffery M., Tsai, Miranda, Wye, Natasja H., Yang, George S., Zhuang, Jun, Holt, Robert A., Putnam, Nicholas H., Vrebalov, Julia, Giovannoni, James J., Grimwood, Jane, Schmutz, Jeremy, Rokhsar, Daniel, Jones, Steven J.M., Marra, Marco A., Tuskan, Gerald A., Bohlmann, Jörg, Ellis, Brian E., Ritland, Kermit, Douglas, Carl J., and Schein, Jacqueline E.

Published
2007

Catalog

Books, media, physical & digital resources
See catalog results