Sebastian Soyk

Publications | Phd and Masters theses

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18 publications

En préparation
Repairing a deleterious domestication variant in a floral regulator of tomato by base editing
Glaus Anna N., Brechet Marion, Lebeigle Ludivine, Iwaszkiewicz Justyna, Ambrosini Giovanna, Julca Irene, Zhang Jing, Roberts Robyn, Iseli Christian, Guex Nicolas et al..
[URN][DOI][serval:BIB_D6B8B598E8AC]
2022
Automated assembly scaffolding using RagTag elevates a new tomato system for high-throughput genome editing.
Alonge M., Lebeigle L., Kirsche M., Jenike K., Ou S., Aganezov S., Wang X., Lippman Z.B., Schatz M.C., Soyk S., 2022/12/15. Genome biology, 23 (1) p. 258. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_534AE24D7E44]
2021
Meristem transitions and plant architecture-learning from domestication for crop breeding.
Gaarslev N., Swinnen G., Soyk S., 2021/11/03. Plant physiology, 187 (3) pp. 1045-1056. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_CD5674CEC8F4]
 
Optimized sample selection for cost-efficient long-read population sequencing.
Ranallo-Benavidez T.R., Lemmon Z., Soyk S., Aganezov S., Salerno W.J., McCoy R.C., Lippman Z.B., Schatz M.C., Sedlazeck F.J., 2021/05. Genome research, 31 (5) pp. 910-918. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_9450E1C359BB]
2020
 
New Horizons for Dissecting Epistasis in Crop Quantitative Trait Variation.
Soyk S., Benoit M., Lippman Z.B., 2020/11/23. Annual review of genetics, 54 pp. 287-307. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_737563E17177]
 
SVCollector: Optimized sample selection for cost-efficient long-read population sequencing
Ranallo-Benavidez T. Rhyker, Lemmon Zachary, Soyk Sebastian, Aganezov Sergey, Salerno William J., McCoy Rajiv C., Lippman Zachary B., Schatz Michael C., Sedlazeck Fritz J., 2020/08/06. bioRxiv.
[DOI][serval:BIB_D92BF4A8CB07]
 
Major Impacts of Widespread Structural Variation on Gene Expression and Crop Improvement in Tomato
Alonge Michael, Wang Xingang, Benoit Matthias, Soyk Sebastian, Pereira Lara, Zhang Lei, Suresh Hamsini, Ramakrishnan Srividya, Maumus Florian, Ciren Danielle et al., 2020/07. Cell, 182 (1) pp. 145-161.e23.
[DOI][WoS][Pmid][serval:BIB_47BF86869B49]
2019
 
RaGOO: fast and accurate reference-guided scaffolding of draft genomes
Alonge Michael, Soyk Sebastian, Ramakrishnan Srividya, Wang Xingang, Goodwin Sara, Sedlazeck Fritz J., Lippman Zachary B., Schatz Michael C., 2019/12. Genome Biology, 20 (1).
[DOI][WoS][Pmid][serval:BIB_BAEF9EA58998]
 
Author Correction: Duplication of a domestication locus neutralized a cryptic variant that caused a breeding barrier in tomato
Soyk Sebastian, Lemmon Zachary H., Sedlazeck Fritz J., Jiménez-Gómez José M., Alonge Michael, Hutton Samuel F., Van Eck Joyce, Schatz Michael C., Lippman Zachary B., 2019/08. Nature Plants, 5 (8) pp. 903-903.
[DOI][WoS][Pmid][serval:BIB_B23ABEBE94AA]
 
Duplication of a domestication locus neutralized a cryptic variant that caused a breeding barrier in tomato
Soyk Sebastian, Lemmon Zachary H., Sedlazeck Fritz J., Jiménez-Gómez José M., Alonge Michael, Hutton Samuel F., Van Eck Joyce, Schatz Michael C., Lippman Zachary B., 2019/05. Nature Plants, 5 (5) pp. 471-479.
[DOI][WoS][Pmid][serval:BIB_CC66E43DD1BE]
2018
 
Rapid improvement of domestication traits in an orphan crop by genome editing
Lemmon Zachary H., Reem Nathan T., Dalrymple Justin, Soyk Sebastian, Swartwood Kerry E., Rodriguez-Leal Daniel, Van Eck Joyce, Lippman Zachary B., 2018/10. Nature Plants, 4 (10) pp. 766-770.
[DOI][WoS][Pmid][serval:BIB_538DEFB61317]
2017
 
Bypassing Negative Epistasis on Yield in Tomato Imposed by a Domestication Gene
Soyk Sebastian, Lemmon Zachary H., Oved Matan, Fisher Josef, Liberatore Katie L., Park Soon Ju, Goren Anna, Jiang Ke, Ramos Alexis, van der Knaap Esther et al., 2017/06. Cell, 169 (6) pp. 1142-1155.e12.
[DOI][WoS][Pmid][serval:BIB_0FE2BFF695B5]
 
Variation in the flowering gene SELF PRUNING 5G promotes day-neutrality and early yield in tomato
Soyk Sebastian, Müller Niels A, Park Soon Ju, Schmalenbach Inga, Jiang Ke, Hayama Ryosuke, Zhang Lei, Van Eck Joyce, Jiménez-Gómez José M, Lippman Zachary B, 2017/01. Nature Genetics, 49 (1) pp. 162-168.
[DOI][WoS][Pmid][serval:BIB_4C90399D75FF]
2016
 
The Starch Granule-Associated Protein EARLY STARVATION1 Is Required for the Control of Starch Degradation in Arabidopsis thaliana Leaves
Feike Doreen, Seung David, Graf Alexander, Bischof Sylvain, Ellick Tamaryn, Coiro Mario, Soyk Sebastian, Eicke Simona, Mettler-Altmann Tabea, Lu Kuan Jen et al., 2016/06. The Plant Cell, 28 (6) pp. 1472-1489.
[DOI][WoS][Pmid][serval:BIB_37871A38F780]
2015
 
PROTEIN TARGETING TO STARCH Is Required for Localising GRANULE-BOUND STARCH SYNTHASE to Starch Granules and for Normal Amylose Synthesis in Arabidopsis
Seung David, Soyk Sebastian, Coiro Mario, Maier Benjamin A., Eicke Simona, Zeeman Samuel C., 2015/02/24. PLOS Biology, 13 (2) pp. e1002080.
[DOI][WoS][Pmid][serval:BIB_A56E795C3203]
2014
 
The Enzyme-Like Domain of Arabidopsis Nuclear β-Amylases Is Critical for DNA Sequence Recognition and Transcriptional Activation
Soyk Sebastian, Šimková Klára, Zürcher Evelyne, Luginbühl Leonie, Brand Luise H., Vaughan Cara K., Wanke Dierk, Zeeman Samuel C., 2014/05/27. The Plant Cell, 26 (4) pp. 1746-1763.
[DOI][WoS][Pmid][serval:BIB_234BC4D7AB6B]
2011
 
β-Amylase–Like Proteins Function as Transcription Factors in Arabidopsis, Controlling Shoot Growth and Development
Reinhold Heike, Soyk Sebastian, Šimková Klára, Hostettler Carmen, Marafino John, Mainiero Samantha, Vaughan Cara K., Monroe Jonathan D., Zeeman Samuel C., 2011/04/01. The Plant Cell, 23 (4) pp. 1391-1403.
[DOI][WoS][Pmid][serval:BIB_157D7DAB9F41]
2009
 
Non-invasive topology analysis of membrane proteins in the secretory pathway
Brach Thorsten, Soyk Sebastian, Müller Christopher, Hinz Giselbert, Hell Rüdiger, Brandizzi Federica, Meyer Andreas J., 2009/02. The Plant Journal, 57 (3) pp. 534-541.
[DOI][WoS][Pmid][serval:BIB_F3BEE48347C0]
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