Search

Your search keyword '"Schmid-Burgk, Jonathan L."' showing total 50 results
Start Over Author "Schmid-Burgk, Jonathan L." Publication Year Range Last 10 years
50 results on '"Schmid-Burgk, Jonathan L."'

1. NIS-Seq enables cell-type-agnostic optical perturbation screening

Author

Fandrey, Caroline I., Jentzsch, Marius, Konopka, Peter, Hoch, Alexander, Blumenstock, Katja, Zackria, Afraa, Maasewerd, Salie, Lovotti, Marta, Lapp, Dorothee J., Gohr, Florian N., Suwara, Piotr, Świeżewski, Jędrzej, Rossnagel, Lukas, Gobs, Fabienne, Cristodaro, Maia, Muhandes, Lina, Behrendt, Rayk, Lam, Martin C., Walgenbach, Klaus J., Bald, Tobias, Schmidt, Florian I., Latz, Eicke, and Schmid-Burgk, Jonathan L.

Published
2024
Full Text
View/download PDF

2. Design principles for cyclin K molecular glue degraders

Author

Kozicka, Zuzanna, Suchyta, Dakota J., Focht, Vivian, Kempf, Georg, Petzold, Georg, Jentzsch, Marius, Zou, Charles, Di Genua, Cristina, Donovan, Katherine A., Coomar, Seemon, Cigler, Marko, Mayor-Ruiz, Cristina, Schmid-Burgk, Jonathan L., Häussinger, Daniel, Winter, Georg E., Fischer, Eric S., Słabicki, Mikołaj, Gillingham, Dennis, Ebert, Benjamin L., and Thomä, Nicolas H.

Published
2024
Full Text
View/download PDF

4. IKKβ primes inflammasome formation by recruiting NLRP3 to the trans-Golgi network

Author

Schmacke, Niklas A., O’Duill, Fionan, Gaidt, Moritz M., Szymanska, Inga, Kamper, Julia M., Schmid-Burgk, Jonathan L., Mädler, Sophia C., Mackens-Kiani, Timur, Kozaki, Tatsuya, Chauhan, Dhruv, Nagl, Dennis, Stafford, Che A., Harz, Hartmann, Fröhlich, Adrian L., Pinci, Francesca, Ginhoux, Florent, Beckmann, Roland, Mann, Matthias, Leonhardt, Heinrich, and Hornung, Veit

Published
2022
Full Text
View/download PDF

5. LAMP-Seq enables sensitive, multiplexed COVID-19 diagnostics using molecular barcoding

Author

Ludwig, Kerstin U., Schmithausen, Ricarda M., Li, David, Jacobs, Max L., Hollstein, Ronja, Blumenstock, Katja, Liebing, Jana, Słabicki, Mikołaj, Ben-Shmuel, Amir, Israeli, Ofir, Weiss, Shay, Ebert, Thomas S., Paran, Nir, Rüdiger, Wibke, Wilbring, Gero, Feldman, David, Lippke, Bärbel, Ishorst, Nina, Hochfeld, Lara M., Beins, Eva C., Kaltheuner, Ines H., Schmitz, Maximilian, Wöhler, Aliona, Döhla, Manuel, Sib, Esther, Jentzsch, Marius, Borrajo, Jacob D., Strecker, Jonathan, Reinhardt, Julia, Cleary, Brian, Geyer, Matthias, Hölzel, Michael, Macrae, Rhiannon, Nöthen, Markus M., Hoffmann, Per, Exner, Martin, Regev, Aviv, Zhang, Feng, and Schmid-Burgk, Jonathan L.

Published
2021
Full Text
View/download PDF

9. Author Correction: LAMP-Seq enables sensitive, multiplexed COVID-19 diagnostics using molecular barcoding

Author

Ludwig, Kerstin U., Schmithausen, Ricarda M., Li, David, Jacobs, Max L., Hollstein, Ronja, Blumenstock, Katja, Liebing, Jana, Słabicki, Mikołaj, Ben-Shmuel, Amir, Israeli, Ofir, Weiss, Shay, Ebert, Thomas S., Paran, Nir, Rüdiger, Wibke, Wilbring, Gero, Feldman, David, Lippke, Bärbel, Ishorst, Nina, Hochfeld, Lara M., Beins, Eva C., Kaltheuner, Ines H., Schmitz, Maximilian, Wöhler, Aliona, Döhla, Manuel, Sib, Esther, Jentzsch, Marius, Moench, Eva-Maria C., Borrajo, Jacob D., Strecker, Jonathan, Reinhardt, Julia, Cleary, Brian, Geyer, Matthias, Hölzel, Michael, Macrae, Rhiannon, Nöthen, Markus M., Hoffmann, Per, Exner, Martin, Regev, Aviv, Zhang, Feng, and Schmid-Burgk, Jonathan L.

Published
2022
Full Text
View/download PDF

16. Table S6 from MAPK Signaling and Inflammation Link Melanoma Phenotype Switching to Induction of CD73 during Immunotherapy

Author

Reinhardt, Julia, primary, Landsberg, Jennifer, primary, Schmid-Burgk, Jonathan L., primary, Ramis, Bartomeu Bibiloni, primary, Bald, Tobias, primary, Glodde, Nicole, primary, Lopez-Ramos, Dorys, primary, Young, Arabella, primary, Ngiow, Shin Foong, primary, Nettersheim, Daniel, primary, Schorle, Hubert, primary, Quast, Thomas, primary, Kolanus, Waldemar, primary, Schadendorf, Dirk, primary, Long, Georgina V., primary, Madore, Jason, primary, Scolyer, Richard A., primary, Ribas, Antoni, primary, Smyth, Mark J., primary, Tumeh, Paul C., primary, Tüting, Thomas, primary, and Hölzel, Michael, primary

Published
2023
Full Text
View/download PDF

17. Tables S1, S2, S4, S8, S9 from MAPK Signaling and Inflammation Link Melanoma Phenotype Switching to Induction of CD73 during Immunotherapy

Author

Reinhardt, Julia, primary, Landsberg, Jennifer, primary, Schmid-Burgk, Jonathan L., primary, Ramis, Bartomeu Bibiloni, primary, Bald, Tobias, primary, Glodde, Nicole, primary, Lopez-Ramos, Dorys, primary, Young, Arabella, primary, Ngiow, Shin Foong, primary, Nettersheim, Daniel, primary, Schorle, Hubert, primary, Quast, Thomas, primary, Kolanus, Waldemar, primary, Schadendorf, Dirk, primary, Long, Georgina V., primary, Madore, Jason, primary, Scolyer, Richard A., primary, Ribas, Antoni, primary, Smyth, Mark J., primary, Tumeh, Paul C., primary, Tüting, Thomas, primary, and Hölzel, Michael, primary

Published
2023
Full Text
View/download PDF

18. Legends to Suppl. Figures from MAPK Signaling and Inflammation Link Melanoma Phenotype Switching to Induction of CD73 during Immunotherapy

Author

Reinhardt, Julia, primary, Landsberg, Jennifer, primary, Schmid-Burgk, Jonathan L., primary, Ramis, Bartomeu Bibiloni, primary, Bald, Tobias, primary, Glodde, Nicole, primary, Lopez-Ramos, Dorys, primary, Young, Arabella, primary, Ngiow, Shin Foong, primary, Nettersheim, Daniel, primary, Schorle, Hubert, primary, Quast, Thomas, primary, Kolanus, Waldemar, primary, Schadendorf, Dirk, primary, Long, Georgina V., primary, Madore, Jason, primary, Scolyer, Richard A., primary, Ribas, Antoni, primary, Smyth, Mark J., primary, Tumeh, Paul C., primary, Tüting, Thomas, primary, and Hölzel, Michael, primary

Published
2023
Full Text
View/download PDF

19. Supplementary Figure 1 to 7 from MAPK Signaling and Inflammation Link Melanoma Phenotype Switching to Induction of CD73 during Immunotherapy

Author

Reinhardt, Julia, primary, Landsberg, Jennifer, primary, Schmid-Burgk, Jonathan L., primary, Ramis, Bartomeu Bibiloni, primary, Bald, Tobias, primary, Glodde, Nicole, primary, Lopez-Ramos, Dorys, primary, Young, Arabella, primary, Ngiow, Shin Foong, primary, Nettersheim, Daniel, primary, Schorle, Hubert, primary, Quast, Thomas, primary, Kolanus, Waldemar, primary, Schadendorf, Dirk, primary, Long, Georgina V., primary, Madore, Jason, primary, Scolyer, Richard A., primary, Ribas, Antoni, primary, Smyth, Mark J., primary, Tumeh, Paul C., primary, Tüting, Thomas, primary, and Hölzel, Michael, primary

Published
2023
Full Text
View/download PDF

20. Movie S2 from The Second-Generation Exportin-1 Inhibitor KPT-8602 Demonstrates Potent Activity against Acute Lymphoblastic Leukemia

Author

Vercruysse, Thomas, primary, De Bie, Jolien, primary, Neggers, Jasper E., primary, Jacquemyn, Maarten, primary, Vanstreels, Els, primary, Schmid-Burgk, Jonathan L., primary, Hornung, Veit, primary, Baloglu, Erkan, primary, Landesman, Yosef, primary, Senapedis, William, primary, Shacham, Sharon, primary, Dagklis, Antonis, primary, Cools, Jan, primary, and Daelemans, Dirk, primary

Published
2023
Full Text
View/download PDF

21. Supplementary Methods from MAPK Signaling and Inflammation Link Melanoma Phenotype Switching to Induction of CD73 during Immunotherapy

Author

Reinhardt, Julia, primary, Landsberg, Jennifer, primary, Schmid-Burgk, Jonathan L., primary, Ramis, Bartomeu Bibiloni, primary, Bald, Tobias, primary, Glodde, Nicole, primary, Lopez-Ramos, Dorys, primary, Young, Arabella, primary, Ngiow, Shin Foong, primary, Nettersheim, Daniel, primary, Schorle, Hubert, primary, Quast, Thomas, primary, Kolanus, Waldemar, primary, Schadendorf, Dirk, primary, Long, Georgina V., primary, Madore, Jason, primary, Scolyer, Richard A., primary, Ribas, Antoni, primary, Smyth, Mark J., primary, Tumeh, Paul C., primary, Tüting, Thomas, primary, and Hölzel, Michael, primary

Published
2023
Full Text
View/download PDF

22. A Conserved Histidine in the RNA Sensor RIG-I Controls Immune Tolerance to N1-2′O-Methylated Self RNA

Author

Schuberth-Wagner, Christine, Ludwig, Janos, Bruder, Ann Kristin, Herzner, Anna-Maria, Zillinger, Thomas, Goldeck, Marion, Schmidt, Tobias, Schmid-Burgk, Jonathan L., Kerber, Romy, Wolter, Steven, Stümpel, Jan-Philip, Roth, Andreas, Bartok, Eva, Drosten, Christian, Coch, Christoph, Hornung, Veit, Barchet, Winfried, Kümmerer, Beate M., Hartmann, Gunther, and Schlee, Martin

Published
2015
Full Text
View/download PDF

25. Antiviral signalling by a cyclic nucleotide activated CRISPR protease

Author

Rouillon, Christophe, primary, Schneberger, Niels, additional, Chi, Haotian, additional, Blumenstock, Katja, additional, Da Vela, Stefano, additional, Ackermann, Katrin, additional, Moecking, Jonas, additional, Peter, Martin F., additional, Boenigk, Wolfgang, additional, Seifert, Reinhard, additional, Bode, Bela E., additional, Schmid-Burgk, Jonathan L., additional, Svergun, Dmitri, additional, Geyer, Matthias, additional, White, Malcolm F., additional, and Hagelueken, Gregor, additional

Published
2022
Full Text
View/download PDF

26. Myoglobin regulates fatty acid trafficking and lipid metabolism in mammary epithelial cells

Author

Armbruster, Julia, primary, Aboouf, Mostafa A., additional, Gassmann, Max, additional, Egert, Angela, additional, Schorle, Hubert, additional, Hornung, Veit, additional, Schmidt, Tobias, additional, Schmid-Burgk, Jonathan L., additional, Kristiansen, Glen, additional, Bicker, Anne, additional, Hankeln, Thomas, additional, Zhu, Hao, additional, and Gorr, Thomas A., additional

Published
2022
Full Text
View/download PDF

27. Myoglobin regulates fatty acid trafficking and lipid metabolism in mammary epithelial cells

Author

Appanna, Vasu D, Appanna, V D ( Vasu D ), Armbruster, Julia, Aboouf, Mostafa A; https://orcid.org/0000-0003-0377-5939, Gassmann, Max, Egert, Angela, Schorle, Hubert; https://orcid.org/0000-0001-8272-0076, Hornung, Veit, Schmidt, Tobias, Schmid-Burgk, Jonathan L, Kristiansen, Glen, Bicker, Anne, Hankeln, Thomas, Zhu, Hao; https://orcid.org/0000-0003-0866-9246, Gorr, Thomas A; https://orcid.org/0000-0002-6023-4234, Appanna, Vasu D, Appanna, V D ( Vasu D ), Armbruster, Julia, Aboouf, Mostafa A; https://orcid.org/0000-0003-0377-5939, Gassmann, Max, Egert, Angela, Schorle, Hubert; https://orcid.org/0000-0001-8272-0076, Hornung, Veit, Schmidt, Tobias, Schmid-Burgk, Jonathan L, Kristiansen, Glen, Bicker, Anne, Hankeln, Thomas, Zhu, Hao; https://orcid.org/0000-0003-0866-9246, and Gorr, Thomas A; https://orcid.org/0000-0002-6023-4234

Abstract

Myoglobin (MB) is known to bind and deliver oxygen in striated muscles at high expression levels. MB is also expressed at much reduced levels in mammary epithelial cells, where the protein´s function is unclear. In this study, we aim to determine whether MB impacts fatty acid trafficking and facilitates aerobic fatty acid ß-oxidation in mammary epithelial cells. We utilized MB-wildtype versus MB-knockout mice and human breast cancer cells to examine the impact of MB and its oxygenation status on fatty acid metabolism in mouse milk and mammary epithelia. MB deficient cells were generated through CRISPR/Cas9 and TALEN approaches and exposed to various oxygen tensions. Fatty acid profiling of milk and cell extracts were performed along with cell labelling and immunocytochemistry. Our findings show that MB expression in mammary epithelial cells promoted fatty acid oxidation while reducing stearyl-CoA desaturase activity for lipogenesis. In cells and milk product, presence of oxygenated MB significantly elevated indices of limited fatty acid ß-oxidation, i.e., the organelle-bound removal of a C2 moiety from long-chain saturated or monounsaturated fatty acids, thus shifting the composition toward more saturated and shorter fatty acid species. Presence of the globin also increased cytoplasmic fatty acid solubility under normoxia and fatty acid deposition to lipid droplets under severe hypoxia. We conclude that MB can function in mammary epithelia as intracellular O$_{2}$-dependent shuttle of oxidizable fatty acid substrates. MB’s impact on limited oxidation of fatty acids could generate inflammatory mediator lipokines, such as 7-hexadecenoate. Thus, the novel functions of MB in breast epithelia described herein range from controlling fatty acid turnover and homeostasis to influencing inflammatory signalling cascade. Future work is needed to analyse to what extent these novel roles of MB also apply to myocytic cell physiology and malignant cell behaviour, respectively.

Published
2022

30. LAMP-Seq: Sensitive, Scalable, and Multiplexable COVID-19 Diagnostics Using Molecular Barcoding

Author

Ludwig, Kerstin U., Schmithausen, Ricarda M., Li, David, Jacobs, Max L., Hollstein, Ronja, Blumenstock, Katja, Liebing, Jana, Słabicki, Mikołaj, Ben-Shmuel, Amir, Israeli, Ofir, Weiss, Shay, Ebert, Thomas S., Paran, Nir, Rüdiger, Wibke, Wilbring, Gero, Feldman, David, Lippke, Bärbel, Ishorst, Nina, Hochfeld, Lara M., Beins, Eva C., Kaltheuner, Ines H., Schmitz, Maximilian, Wöhler, Aliona, Döhla, Manuel, Sib, Esther, Jentzsch, Marius, Borrajo, Jacob D., Strecker, Jonathan, Reinhardt, Julia, Cleary, Brian, Geyer, Matthias, Hölzel, Michael, Macrae, Rhiannon, Nöthen, Markus M., Hoffmann, Per, Exner, Martin, Regev, Aviv, Zhang, Feng, and Schmid-Burgk, Jonathan L.

Subjects
Article
Abstract

Frequent testing of large population groups combined with contact tracing and isolation measures will be crucial for containing COVID-19 outbreaks. Here, we present LAMP-Seq, a modified, highly scalable reverse-transcription loop-mediated isothermal amplification (RT-LAMP) method. Unpurified biosamples are barcoded and amplified in a single heat step, and pooled products are analyzed en masse by sequencing. Using commercial reagents, LAMP-Seq has a limit of detection of ~2.2 molecules/µl at 95% confidence, and near-perfect specificity for SARS-CoV-2 given its sequence readout. Clinical validation of an open-source protocol with 676 swab samples, 98 of which were deemed positive by standard RT-qPCR, demonstrated 100% sensitivity in individuals with Ct values up to 33, and a specificity of 99.7%, at material cost of 2.73 USD per sample. With a time-to-result less than 24 hours, low cost, and little new infrastructure requirement, LAMP-Seq can be readily deployed for frequent testing as part of an integrated public health surveillance program.

Published
2021

31. LAMP-Seq: Population-Scale COVID-19 Diagnostics Using a Compressed Barcode Space

Author

Schmid-Burgk, Jonathan L., Li, David, Feldman, David, Słabicki, Mikołaj, Borrajo, Jacob, Strecker, Jonathan, Cleary, Brian, Regev, Aviv, and Zhang, Feng

Abstract

Summary The ongoing COVID-19 pandemic has already caused devastating losses. Early evidence shows that the exponential spread of COVID-19 can be slowed by restrictive isolation measures, but these place a tremendous burden on society. Moreover, once these restrictions are lifted, the exponential spread is likely to re-emerge. It has been suggested that population-scale testing can help break the cycle of isolation and spread, but current detection methods are not capable of such large-scale processing. Here we propose LAMP-Seq, a barcoded Reverse-Transcription Loop-mediated Isothermal Amplification (RT-LAMP) protocol that could dramatically reduce the cost and complexity of population-scale testing. In this approach, individual samples are processed in a single heat step, producing barcoded amplicons that can be shipped to a sequencing center, pooled, and analyzed en masse . Using unique barcode combinations per sample from a compressed barcode space enables extensive pooling, significantly reducing cost and organizational efforts. Given the low cost and scalability of next-generation sequencing, we believe that this method can be affordably scaled to analyze millions of samples per day using existing sequencing infrastructure.

Published
2020
Full Text
View/download PDF

32. Diverse enzymatic activities mediate antiviral immunity in prokaryotes

Author

Howard Hughes Medical Institute, Massachusetts Institute of Technology. Department of Biological Engineering, McGovern Institute for Brain Research at MIT, Massachusetts Institute of Technology. Department of Brain and Cognitive Sciences, Gao, Linyi, Altae-Tran, Han, Böhning, Francisca, Makarova, Kira S, Segel, Michael, Schmid-Burgk, Jonathan L, Koob, Jeremy, Wolf, Yuri I, Koonin, Eugene V, Zhang, Feng, Howard Hughes Medical Institute, Massachusetts Institute of Technology. Department of Biological Engineering, McGovern Institute for Brain Research at MIT, Massachusetts Institute of Technology. Department of Brain and Cognitive Sciences, Gao, Linyi, Altae-Tran, Han, Böhning, Francisca, Makarova, Kira S, Segel, Michael, Schmid-Burgk, Jonathan L, Koob, Jeremy, Wolf, Yuri I, Koonin, Eugene V, and Zhang, Feng

Abstract

Bacteria and archaea are frequently attacked by viruses and other mobile genetic elements and rely on dedicated antiviral defense systems, such as restriction endonucleases and CRISPR, to survive. The enormous diversity of viruses suggests that more types of defense systems exist than are currently known. By systematic defense gene prediction and heterologous reconstitution, here we discover 29 widespread antiviral gene cassettes, collectively present in 32% of all sequenced bacterial and archaeal genomes, that mediate protection against specific bacteriophages. These systems incorporate enzymatic activities not previously implicated in antiviral defense, including RNA editing and retron satellite DNA synthesis. In addition, we computationally predict a diverse set of other putative defense genes that remain to be characterized. These results highlight an immense array of molecular functions that microbes use against viruses.

Published
2021

33. Structure-guided multivalent nanobodies block SARS-CoV-2 infection and suppress mutational escape

Author

Koenig, Paul-Albert, primary, Das, Hrishikesh, additional, Liu, Hejun, additional, Kümmerer, Beate M., additional, Gohr, Florian N., additional, Jenster, Lea-Marie, additional, Schiffelers, Lisa D. J., additional, Tesfamariam, Yonas M., additional, Uchima, Miki, additional, Wuerth, Jennifer D., additional, Gatterdam, Karl, additional, Ruetalo, Natalia, additional, Christensen, Maria H., additional, Fandrey, Caroline I., additional, Normann, Sabine, additional, Tödtmann, Jan M. P., additional, Pritzl, Steffen, additional, Hanke, Leo, additional, Boos, Jannik, additional, Yuan, Meng, additional, Zhu, Xueyong, additional, Schmid-Burgk, Jonathan L., additional, Kato, Hiroki, additional, Schindler, Michael, additional, Wilson, Ian A., additional, Geyer, Matthias, additional, Ludwig, Kerstin U., additional, Hällberg, B. Martin, additional, Wu, Nicholas C., additional, and Schmidt, Florian I., additional

Published
2021
Full Text
View/download PDF

34. Design principles for cyclin K molecular glue degraders

Author

Kozicka, Zuzanna, Suchyta, Dakota J., Focht, Vivian, Kempf, Georg, Petzold, Georg, Jentzsch, Marius, Zou, Charles, Di Genua, Cristina, Donovan, Katherine A., Coomar, Seemon, Cigler, Marko, Mayor-Ruiz, Cristina, Schmid-Burgk, Jonathan L., Häussinger, Daniel, Winter, Georg E., Fischer, Eric S., Słabicki, Mikołaj, Gillingham, Dennis, Ebert, Benjamin L., and Thomä, Nicolas H.

Abstract

Molecular glue degraders are an effective therapeutic modality, but their design principles are not well understood. Recently, several unexpectedly diverse compounds were reported to deplete cyclin K by linking CDK12–cyclin K to the DDB1–CUL4–RBX1 E3 ligase. Here, to investigate how chemically dissimilar small molecules trigger cyclin K degradation, we evaluated 91 candidate degraders in structural, biophysical and cellular studies and reveal all compounds acquire glue activity via simultaneous CDK12 binding and engagement of DDB1 interfacial residues, in particular Arg928. While we identify multiple published kinase inhibitors as cryptic degraders, we also show that these glues do not require pronounced inhibitory properties for activity and that the relative degree of CDK12 inhibition versus cyclin K degradation is tuneable. We further demonstrate cyclin K degraders have transcriptional signatures distinct from CDK12 inhibitors, thereby offering unique therapeutic opportunities. The systematic structure–activity relationship analysis presented herein provides a conceptual framework for rational molecular glue design.

Published
2023
Full Text
View/download PDF

36. LAMP-Seq: Population-Scale COVID-19 Diagnostics Using Combinatorial Barcoding

Author

Schmid-Burgk, Jonathan L., primary, Schmithausen, Ricarda M., additional, Li, David, additional, Hollstein, Ronja, additional, Ben-Shmuel, Amir, additional, Israeli, Ofir, additional, Weiss, Shay, additional, Paran, Nir, additional, Wilbring, Gero, additional, Liebing, Jana, additional, Feldman, David, additional, Słabicki, Mikołaj, additional, Lippke, Bärbel, additional, Sib, Esther, additional, Borrajo, Jacob, additional, Strecker, Jonathan, additional, Reinhardt, Julia, additional, Hoffmann, Per, additional, Cleary, Brian, additional, Hölzel, Michael, additional, Nöthen, Markus M., additional, Exner, Martin, additional, Ludwig, Kerstin U., additional, Regev, Aviv, additional, and Zhang, Feng, additional

Published
2020
Full Text
View/download PDF

37. RNA-guided DNA insertion with CRISPR-associated transposases

Author

McGovern Institute for Brain Research at MIT, Massachusetts Institute of Technology. Department of Brain and Cognitive Sciences, Massachusetts Institute of Technology. Department of Biological Engineering, Strecker, Jonathan, Ladha, Alim, Gardner, Zachary, Schmid-Burgk, Jonathan L., Makarova, Kira S., Koonin, Eugene V., Zhang, Feng, McGovern Institute for Brain Research at MIT, Massachusetts Institute of Technology. Department of Brain and Cognitive Sciences, Massachusetts Institute of Technology. Department of Biological Engineering, Strecker, Jonathan, Ladha, Alim, Gardner, Zachary, Schmid-Burgk, Jonathan L., Makarova, Kira S., Koonin, Eugene V., and Zhang, Feng

Abstract

CRISPR-Cas nucleases are powerful tools for manipulating nucleic acids; however, targeted insertion of DNA remains a challenge, as it requires host cell repair machinery. Here we characterize a CRISPR-associated transposase from cyanobacteria Scytonema hofmanni (ShCAST) that consists of Tn7-like transposase subunits and the type V-K CRISPR effector (Cas12k). ShCAST catalyzes RNA-guided DNA transposition by unidirectionally inserting segments of DNA 60 to 66 base pairs downstream of the protospacer. ShCAST integrates DNA into targeted sites in the Escherichia coli genome with frequencies of up to 80% without positive selection. This work expands our understanding of the functional diversity of CRISPR-Cas systems and establishes a paradigm for precision DNA insertion., National Institutes of Health (Grant 1R01-HG009761), National Institutes of Health (Grant 1R01-MH110049), National Institutes of Health (Grant 1DP1-HL141201)

Published
2020

38. Experimental and stochastic models of melanoma T-cell therapy define impact of subclone fitness on selection of antigen loss variants

Author

Glodde, Nicole, primary, Kraut, Anna, additional, van den Boorn-Konijnenberg, Debby, additional, Vadder, Saskia, additional, Kreten, Florian, additional, Schmid-Burgk, Jonathan L., additional, Aymans, Pia, additional, Echelmeyer, Kai, additional, Rumpf, Martin, additional, Landsberg, Jennifer, additional, Bald, Tobias, additional, Tüting, Thomas, additional, Bovier, Anton, additional, and Hölzel, Michael, additional

Published
2019
Full Text
View/download PDF

39. Priming enables a NEK7-independent route of NLRP3 activation

Author

Schmacke, Niklas A., primary, Gaidt, Moritz M., additional, Szymanska, Inga, additional, O’Duill, Fionan, additional, Stafford, Che A., additional, Chauhan, Dhruv, additional, Fröhlich, Adrian L., additional, Nagl, Dennis, additional, Pinci, Francesca, additional, Schmid-Burgk, Jonathan L., additional, and Hornung, Veit, additional

Published
2019
Full Text
View/download PDF

40. Pooled optical screens in human cells

Author

Feldman, David, primary, Singh, Avtar, additional, Schmid-Burgk, Jonathan L., additional, Mezger, Anja, additional, Garrity, Anthony J., additional, Carlson, Rebecca J., additional, Zhang, Feng, additional, and Blainey, Paul C., additional

Published
2018
Full Text
View/download PDF

41. MAPK Signaling and Inflammation Link Melanoma Phenotype Switching to Induction of CD73 during Immunotherapy

Author

Reinhardt, Julia, primary, Landsberg, Jennifer, additional, Schmid-Burgk, Jonathan L., additional, Ramis, Bartomeu Bibiloni, additional, Bald, Tobias, additional, Glodde, Nicole, additional, Lopez-Ramos, Dorys, additional, Young, Arabella, additional, Ngiow, Shin Foong, additional, Nettersheim, Daniel, additional, Schorle, Hubert, additional, Quast, Thomas, additional, Kolanus, Waldemar, additional, Schadendorf, Dirk, additional, Long, Georgina V., additional, Madore, Jason, additional, Scolyer, Richard A., additional, Ribas, Antoni, additional, Smyth, Mark J., additional, Tumeh, Paul C., additional, Tüting, Thomas, additional, and Hölzel, Michael, additional

Published
2017
Full Text
View/download PDF

42. The Second-Generation Exportin-1 Inhibitor KPT-8602 Demonstrates Potent Activity against Acute Lymphoblastic Leukemia

Author

Vercruysse, Thomas, primary, De Bie, Jolien, additional, Neggers, Jasper E., additional, Jacquemyn, Maarten, additional, Vanstreels, Els, additional, Schmid-Burgk, Jonathan L., additional, Hornung, Veit, additional, Baloglu, Erkan, additional, Landesman, Yosef, additional, Senapedis, William, additional, Shacham, Sharon, additional, Dagklis, Antonis, additional, Cools, Jan, additional, and Daelemans, Dirk, additional

Published
2017
Full Text
View/download PDF

47. ATP-Dependent Effector-like Functions of RIG-I-like Receptors

Author

Yao, Hui, primary, Dittmann, Meike, additional, Peisley, Alys, additional, Hoffmann, Hans-Heinrich, additional, Gilmore, Rachel H., additional, Schmidt, Tobias, additional, Schmid-Burgk, Jonathan L., additional, Hornung, Veit, additional, Rice, Charles M., additional, and Hur, Sun, additional

Published
2015
Full Text
View/download PDF

50. Ligation-independent cloning (LIC) assembly of TALEN genes.

Author

Schmid-Burgk JL, Schmidt T, and Hornung V

Subjects
DNA-Binding Proteins genetics, DNA-Binding Proteins metabolism, Endonucleases metabolism, Gene Targeting, Homeodomain Proteins metabolism, Homologous Recombination, Plasmids genetics, Plasmids isolation & purification, Protein Engineering methods, Cloning, Molecular methods, Endonucleases genetics, Homeodomain Proteins genetics
Abstract

Modular DNA binding protein architectures hold the promise of wide application in functional genomic studies. Functionalization of DNA binding proteins, e.g. using the FokI nuclease domain, provides a potent tool to induce DNA double strand breaks at user-defined genomic loci. In this regard, TAL (transcription activator-like) effector proteins, secreted by bacteria of the Xanthomonas family, provide the highest degree of modularity in their DNA binding mode. However, the assembly of large and highly repetitive TALE protein coding genes can be challenging. We describe a ligation-independent cloning (LIC) based method to allow high-throughput assembly of TALE nuclease genes at high fidelity and low effort and cost.

Published
2015
Full Text
View/download PDF

Catalog

Books, media, physical & digital resources
See catalog results