Search Results - "Niederhuth, Chad E."

Widespread natural variation of DNA methylation within angiosperms by Niederhuth, Chad E, Bewick, Adam J, Ji, Lexiang, Alabady, Magdy S, Kim, Kyung Do, Li, Qing, Rohr, Nicholas A, Rambani, Aditi, Burke, John M, Udall, Joshua A, Egesi, Chiedozie, Schmutz, Jeremy, Grimwood, Jane, Jackson, Scott A, Springer, Nathan M, Schmitz, Robert J

“…DNA methylation is an important feature of plant epigenomes, involved in the formation of heterochromatin and affecting gene expression. Extensive variation of…”
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The evolution of CHROMOMETHYLASES and gene body DNA methylation in plants by Bewick, Adam J, Niederhuth, Chad E, Ji, Lexiang, Rohr, Nicholas A, Griffin, Patrick T, Leebens-Mack, Jim, Schmitz, Robert J

“…The evolution of gene body methylation (gbM), its origins, and its functional consequences are poorly understood. By pairing the largest collection of…”
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On the origin and evolutionary consequences of gene body DNA methylation by Bewick, Adam J., Ji, Lexiang, Niederhuth, Chad E., Willing, Eva-Maria, Hofmeister, Brigitte T., Shi, Xiuling, Wang, Li, Lu, Zefu, Rohr, Nicholas A., Hartwig, Benjamin, Kiefer, Christiane, Deal, Roger B., Schmutz, Jeremy, Grimwood, Jane, Stroud, Hume, Jacobsen, Steven E., Schneeberger, Korbinian, Zhang, Xiaoyu, Schmitz, Robert J.

“…In plants, CG DNA methylation is prevalent in the transcribed regions of many constitutively expressed genes (gene body methylation; gbM), but the origin and…”
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A Comparative Analysis of 5-Azacytidine- and Zebularine-Induced DNA Demethylation by Griffin, Patrick T, Niederhuth, Chad E, Schmitz, Robert J

“…The nonmethylable cytosine analogs, 5-azacytidine and zebularine, are widely used to inhibit DNA methyltransferase activity and reduce genomic DNA methylation…”
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Covering Your Bases： Inheritance of DNA Methylation in Plant Genomes by Niederhuth, Chad E., Schmitz, Robert J.

“…Cytosine methylation is an important base modification that is inherited across mitotic and meiotic cell divisions in plant genomes. Heritable methylation…”
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Prenatal testosterone triggers long-term behavioral changes in male zebra finches: unravelling the neurogenomic mechanisms by Bentz, Alexandra B, Niederhuth, Chad E, Carruth, Laura L, Navara, Kristen J

“…Maternal hormones, like testosterone, can strongly influence developing offspring, even generating long-term organizational effects on adult behavior; yet, the…”
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The Molecular Basis of Kale Domestication: Transcriptional Profiling of Developing Leaves Provides New Insights Into the Evolution of a Brassica oleracea Vegetative Morphotype by Arias, Tatiana, Niederhuth, Chad E, McSteen, Paula, Pires, J Chris

“…Morphotypes of are the result of a dynamic interaction between genes that regulate the transition between vegetative and reproductive stages and those that…”
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Transcriptional profiling of the Arabidopsis abscission mutant hae hsl2 by RNA-Seq by Niederhuth, Chad E, Patharkar, O Rahul, Walker, John C

“…Abscission is a mechanism by which plants shed entire organs in response to both developmental and environmental signals. Arabidopsis thaliana, in which only…”
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Maternal dominance contributes to subgenome differentiation in allopolyploid fishes by Xu, Min-Rui-Xuan, Liao, Zhen-Yang, Brock, Jordan R., Du, Kang, Li, Guo-Yin, Chen, Zhi-Qiang, Wang, Ying-Hao, Gao, Zhong-Nan, Agarwal, Gaurav, Wei, Kevin H-C, Shao, Feng, Pang, Shuai, Platts, Adrian E., van de Velde, Jozefien, Lin, Hong-Min, Teresi, Scott J., Bird, Kevin, Niederhuth, Chad E., Xu, Jin-Gen, Yu, Guo-Hua, Yang, Jian-Yuan, Dai, Si-Fa, Nelson, Andrew, Braasch, Ingo, Zhang, Xiao-Gu, Schartl, Manfred, Edger, Patrick P., Han, Min-Jin, Zhang, Hua-Hao

“…Teleost fishes, which are the largest and most diverse group of living vertebrates, have a rich history of ancient and recent polyploidy. Previous studies of…”
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The Dnmt3L ADD Domain Controls Cytosine Methylation Establishment during Spermatogenesis by Vlachogiannis, Georgios, Niederhuth, Chad E., Tuna, Salih, Stathopoulou, Athanasia, Viiri, Keijo, de Rooij, Dirk G., Jenner, Richard G., Schmitz, Robert J., Ooi, Steen K.T.

“…A critical aspect of mammalian gametogenesis is the reprogramming of genomic DNA methylation. The catalytically inactive adaptor Dnmt3L is essential to…”
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Letting Go is Never Easy： Abscission and Receptor- Like Protein Kinases by Niederhuth, Chad E., Cho, Sung Ki, Seitz, Kati, Walker, John C.

“…Abscission is the process by which plants discard organs in response to environmental cues/stressors, or as part of their normal development. Abscission has…”
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Regulatory dynamics distinguishing desiccation tolerance strategies within resurrection grasses by St. Aubin, Brian, Wai, Ching Man, Kenchanmane Raju, Sunil K., Niederhuth, Chad E., VanBuren, Robert

“…Desiccation tolerance has evolved recurrently in grasses using two unique strategies of either protecting or dismantling the photosynthetic apparatus to…”
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Putting DNA methylation in context: from genomes to gene expression in plants by Niederhuth, Chad E., Schmitz, Robert J.

“…Plant DNA methylation is its own language, interpreted by the cell to maintain silencing of transposons, facilitate chromatin structure, and to ensure proper…”
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From Gigabyte to Kilobyte: A Bioinformatics Protocol for Mining Large RNA-Seq Transcriptomics Data by Li, Jilong, Hou, Jie, Sun, Lin, Wilkins, Jordan Maximillian, Lu, Yuan, Niederhuth, Chad E, Merideth, Benjamin Ryan, Mawhinney, Thomas P, Mossine, Valeri V, Greenlief, C Michael, Walker, John C, Folk, William R, Hannink, Mark, Lubahn, Dennis B, Birchler, James A, Cheng, Jianlin

“…RNA-Seq techniques generate hundreds of millions of short RNA reads using next-generation sequencing (NGS). These RNA reads can be mapped to reference genomes…”
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Intertwined evolution of plant epigenomes and genomes by Ritter, Eleanore J, Niederhuth, Chad E

“…DNA methylation is found across eukaryotes; however, plants have evolved patterns and pathways of DNA methylation that are distinct from animals and fungi. DNA…”
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DNA methylation signatures of duplicate gene evolution in angiosperms by Ledford, Marshall, Niederhuth, Chad E

“…Abstract Gene duplication is a source of evolutionary novelty. DNA methylation may play a role in the evolution of duplicate genes (paralogs) through its…”
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Replaying the evolutionary tape to investigate subgenome dominance in allopolyploid Brassica napus by Bird, Kevin A., Niederhuth, Chad E., Ou, Shujun, Gehan, Malia, Pires, J. Chris, Xiong, Zhiyong, VanBuren, Robert, Edger, Patrick P.

“…Summary Allopolyploidisation merges evolutionarily distinct parental genomes (subgenomes) into a single nucleus. A frequent observation is that one subgenome…”
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The Dnmt3L ADD Domain Controls Cytosine Methylation Establishment during Spermatogenesis by Vlachogiannis, Georgios, Niederhuth, Chad E., Tuna, Salih, Stathopoulou, Athanasia, Viiri, Keijo, de Rooij, Dirk G., Jenner, Richard G., Schmitz, Robert J., Ooi, Steen K.T.

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Arabidopsis uses a molecular grounding mechanism and a biophysical circuit breaker to limit floral abscission signaling by Taylor, Isaiah W, Patharkar, O Rahul, Mijar, Medhavinee, Hsu, Che-Wei, Baer, John, Niederhuth, Chad E, Ohler, Uwe, Benfey, Philip N, Walker, John C

“…Abscission is the programmed separation of plant organs. It is widespread in the plant kingdom with important functions in development and environmental…”
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Single-molecule sequencing and optical mapping yields an improved genome of woodland strawberry (Fragaria vesca) with chromosome-scale contiguity by Edger, Patrick P, VanBuren, Robert, Colle, Marivi, Poorten, Thomas J, Wai, Ching Man, Niederhuth, Chad E, Alger, Elizabeth I, Ou, Shujun, Acharya, Charlotte B, Wang, Jie, Callow, Pete, McKain, Michael R, Shi, Jinghua, Collier, Chad, Xiong, Zhiyong, Mower, Jeffrey P, Slovin, Janet P, Hytönen, Timo, Jiang, Ning, Childs, Kevin L, Knapp, Steven J

“…Although draft genomes are available for most agronomically important plant species, the majority are incomplete, highly fragmented, and often riddled with…”
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