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Your search keyword '"Sauka-Spengler, Tatjana"' showing total 7 results
Start Over Author "Sauka-Spengler, Tatjana" Journal nature genetics
7 results on '"Sauka-Spengler, Tatjana"'

2. Multiomic atlas with functional stratification and developmental dynamics of zebrafish cis-regulatory elements

Author

Baranasic, Damir, Hörtenhuber, Matthias, Balwierz, Piotr J., Zehnder, Tobias, Mukarram, Abdul Kadir, Nepal, Chirag, Várnai, Csilla, Hadzhiev, Yavor, Jimenez-Gonzalez, Ada, Li, Nan, Wragg, Joseph, D’Orazio, Fabio M., Relic, Dorde, Pachkov, Mikhail, Díaz, Noelia, Hernández-Rodríguez, Benjamín, Chen, Zelin, Stoiber, Marcus, Dong, Michaël, Stevens, Irene, Ross, Samuel E., Eagle, Anne, Martin, Ryan, Obasaju, Oluwapelumi, Rastegar, Sepand, McGarvey, Alison C., Kopp, Wolfgang, Chambers, Emily, Wang, Dennis, Kim, Hyejeong R., Acemel, Rafael D., Naranjo, Silvia, Łapiński, Maciej, Chong, Vanessa, Mathavan, Sinnakaruppan, Peers, Bernard, Sauka-Spengler, Tatjana, Vingron, Martin, Carninci, Piero, Ohler, Uwe, Lacadie, Scott Allen, Burgess, Shawn M., Winata, Cecilia, van Eeden, Freek, Vaquerizas, Juan M., Gómez-Skarmeta, José Luis, Onichtchouk, Daria, Brown, Ben James, Bogdanovic, Ozren, van Nimwegen, Erik, Westerfield, Monte, Wardle, Fiona C., Daub, Carsten O., Lenhard, Boris, and Müller, Ferenc

Published
2022
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3. The sea lamprey germline genome provides insights into programmed genome rearrangement and vertebrate evolution

Author

Smith, Jeramiah J, Timoshevskaya, Nataliya, Ye, Chengxi, Holt, Carson, Keinath, Melissa C, Parker, Hugo J, Cook, Malcolm E, Hess, Jon E, Narum, Shawn R, Lamanna, Francesco, Kaessmann, Henrik, Timoshevskiy, Vladimir A, Waterbury, Courtney KM, Saraceno, Cody, Wiedemann, Leanne M, Robb, Sofia MC, Baker, Carl, Eichler, Evan E, Hockman, Dorit, Sauka-Spengler, Tatjana, Yandell, Mark, Krumlauf, Robb, Elgar, Greg, and Amemiya, Chris T

Subjects
Biological Sciences, Bioinformatics and Computational Biology, Genetics, Stem Cell Research - Nonembryonic - Non-Human, Human Genome, Prevention, Stem Cell Research, Underpinning research, 1.1 Normal biological development and functioning, Generic health relevance, Animals, Cellular Reprogramming, Chromatin Assembly and Disassembly, Evolution, Molecular, Genome, Germ Cells, Mutagenesis, Petromyzon, Vertebrates, Medical and Health Sciences, Developmental Biology, Agricultural biotechnology, Bioinformatics and computational biology
Abstract

The sea lamprey (Petromyzon marinus) serves as a comparative model for reconstructing vertebrate evolution. To enable more informed analyses, we developed a new assembly of the lamprey germline genome that integrates several complementary data sets. Analysis of this highly contiguous (chromosome-scale) assembly shows that both chromosomal and whole-genome duplications have played significant roles in the evolution of ancestral vertebrate and lamprey genomes, including chromosomes that carry the six lamprey HOX clusters. The assembly also contains several hundred genes that are reproducibly eliminated from somatic cells during early development in lamprey. Comparative analyses show that gnathostome (mouse) homologs of these genes are frequently marked by polycomb repressive complexes (PRCs) in embryonic stem cells, suggesting overlaps in the regulatory logic of somatic DNA elimination and bivalent states that are regulated by early embryonic PRCs. This new assembly will enhance diverse studies that are informed by lampreys' unique biology and evolutionary/comparative perspective.

Published
2018

4. Genetic dissection of the α-globin super-enhancer in vivo

Author

Hay, Deborah, Hughes, Jim R, Babbs, Christian, Davies, James OJ, Graham, Bryony J, Hanssen, Lars LP, Kassouf, Mira T, Oudelaar, A Marieke, Sharpe, Jacqueline A, Suciu, Maria C, Telenius, Jelena, Williams, Ruth, Rode, Christina, Li, Pik-Shan, Pennacchio, Len A, Sloane-Stanley, Jacqueline A, Ayyub, Helena, Butler, Sue, Sauka-Spengler, Tatjana, Gibbons, Richard J, Smith, Andrew JH, Wood, William G, and Higgs, Douglas R

Subjects
Biological Sciences, Genetics, Rare Diseases, 5.2 Cellular and gene therapies, Generic health relevance, Animals, Chromatin, Embryo, Mammalian, Enhancer Elements, Genetic, Erythroid Cells, Gene Expression Regulation, Mice, Mice, Knockout, Transcription Factors, Transcription, Genetic, alpha-Globins, Medical and Health Sciences, Developmental Biology, Agricultural biotechnology, Bioinformatics and computational biology
Abstract

Many genes determining cell identity are regulated by clusters of Mediator-bound enhancer elements collectively referred to as super-enhancers. These super-enhancers have been proposed to manifest higher-order properties important in development and disease. Here we report a comprehensive functional dissection of one of the strongest putative super-enhancers in erythroid cells. By generating a series of mouse models, deleting each of the five regulatory elements of the α-globin super-enhancer individually and in informative combinations, we demonstrate that each constituent enhancer seems to act independently and in an additive fashion with respect to hematological phenotype, gene expression, chromatin structure and chromosome conformation, without clear evidence of synergistic or higher-order effects. Our study highlights the importance of functional genetic analyses for the identification of new concepts in transcriptional regulation.

Published
2016

5. Publisher Correction: The sea lamprey germline genome provides insights into programmed genome rearrangement and vertebrate evolution

Author

Smith, Jeramiah J., Timoshevskaya, Nataliya, Ye, Chengxi, Holt, Carson, Keinath, Melissa C., Parker, Hugo J., Cook, Malcolm E., Hess, Jon E., Narum, Shawn R., Lamanna, Francesco, Kaessmann, Henrik, Timoshevskiy, Vladimir A., Waterbury, Courtney K. M., Saraceno, Cody, Wiedemann, Leanne M., Robb, Sofia M. C., Baker, Carl, Eichler, Evan E., Hockman, Dorit, Sauka-Spengler, Tatjana, Yandell, Mark, Krumlauf, Robb, Elgar, Greg, and Amemiya, Chris T.

Published
2018
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6. Active DNA demethylation at enhancers during the vertebrate phylotypic period

Author

Bogdanović, Ozren, primary, Smits, Arne H, additional, de la Calle Mustienes, Elisa, additional, Tena, Juan J, additional, Ford, Ethan, additional, Williams, Ruth, additional, Senanayake, Upeka, additional, Schultz, Matthew D, additional, Hontelez, Saartje, additional, van Kruijsbergen, Ila, additional, Rayon, Teresa, additional, Gnerlich, Felix, additional, Carell, Thomas, additional, Veenstra, Gert Jan C, additional, Manzanares, Miguel, additional, Sauka-Spengler, Tatjana, additional, Ecker, Joseph R, additional, Vermeulen, Michiel, additional, Gómez-Skarmeta, José Luis, additional, and Lister, Ryan, additional

Published
2016
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7. Sequencing of the sea lamprey (Petromyzon marinus) genome provides insights into vertebrate evolution

Author

Smith, Jeramiah J, primary, Kuraku, Shigehiro, additional, Holt, Carson, additional, Sauka-Spengler, Tatjana, additional, Jiang, Ning, additional, Campbell, Michael S, additional, Yandell, Mark D, additional, Manousaki, Tereza, additional, Meyer, Axel, additional, Bloom, Ona E, additional, Morgan, Jennifer R, additional, Buxbaum, Joseph D, additional, Sachidanandam, Ravi, additional, Sims, Carrie, additional, Garruss, Alexander S, additional, Cook, Malcolm, additional, Krumlauf, Robb, additional, Wiedemann, Leanne M, additional, Sower, Stacia A, additional, Decatur, Wayne A, additional, Hall, Jeffrey A, additional, Amemiya, Chris T, additional, Saha, Nil R, additional, Buckley, Katherine M, additional, Rast, Jonathan P, additional, Das, Sabyasachi, additional, Hirano, Masayuki, additional, McCurley, Nathanael, additional, Guo, Peng, additional, Rohner, Nicolas, additional, Tabin, Clifford J, additional, Piccinelli, Paul, additional, Elgar, Greg, additional, Ruffier, Magali, additional, Aken, Bronwen L, additional, Searle, Stephen M J, additional, Muffato, Matthieu, additional, Pignatelli, Miguel, additional, Herrero, Javier, additional, Jones, Matthew, additional, Brown, C Titus, additional, Chung-Davidson, Yu-Wen, additional, Nanlohy, Kaben G, additional, Libants, Scot V, additional, Yeh, Chu-Yin, additional, McCauley, David W, additional, Langeland, James A, additional, Pancer, Zeev, additional, Fritzsch, Bernd, additional, de Jong, Pieter J, additional, Zhu, Baoli, additional, Fulton, Lucinda L, additional, Theising, Brenda, additional, Flicek, Paul, additional, Bronner, Marianne E, additional, Warren, Wesley C, additional, Clifton, Sandra W, additional, Wilson, Richard K, additional, and Li, Weiming, additional

Published
2013
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