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3 results on '"Kazald1"'

1. A Tissue-Mapped Axolotl De Novo Transcriptome Enables Identification of Limb Regeneration Factors

Author

Donald M. Bryant, Kimberly Johnson, Tia DiTommaso, Timothy Tickle, Matthew Brian Couger, Duygu Payzin-Dogru, Tae J. Lee, Nicholas D. Leigh, Tzu-Hsing Kuo, Francis G. Davis, Joel Bateman, Sevara Bryant, Anna R. Guzikowski, Stephanie L. Tsai, Steven Coyne, William W. Ye, Robert M. Freeman Jr., Leonid Peshkin, Clifford J. Tabin, Aviv Regev, Brian J. Haas, and Jessica L. Whited

Subjects
axolotl, transcriptome, Trinity, Trinotate, limb, regeneration, blastema, expression analysis, cirbp, kazald1, Biology (General), QH301-705.5
Abstract

Mammals have extremely limited regenerative capabilities; however, axolotls are profoundly regenerative and can replace entire limbs. The mechanisms underlying limb regeneration remain poorly understood, partly because the enormous and incompletely sequenced genomes of axolotls have hindered the study of genes facilitating regeneration. We assembled and annotated a de novo transcriptome using RNA-sequencing profiles for a broad spectrum of tissues that is estimated to have near-complete sequence information for 88% of axolotl genes. We devised expression analyses that identified the axolotl orthologs of cirbp and kazald1 as highly expressed and enriched in blastemas. Using morpholino anti-sense oligonucleotides, we find evidence that cirbp plays a cytoprotective role during limb regeneration whereas manipulation of kazald1 expression disrupts regeneration. Our transcriptome and annotation resources greatly complement previous transcriptomic studies and will be a valuable resource for future research in regenerative biology.

Published
2017
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2. A Tissue-Mapped Axolotl De Novo Transcriptome Enables Identification of Limb Regeneration Factors.

Author

Bryant, Donald M., Johnson, Kimberly, DiTommaso, Tia, Tickle, Timothy, Couger, Matthew Brian, Payzin-Dogru, Duygu, Lee, Tae J., Leigh, Nicholas D., Kuo, Tzu-Hsing, Davis, Francis G., Bateman, Joel, Bryant, Sevara, Guzikowski, Anna R., Tsai, Stephanie L., Coyne, Steven, Ye, William W., Jr.Freeman, Robert M., Peshkin, Leonid, Tabin, Clifford J., and Regev, Aviv

Abstract

Summary Mammals have extremely limited regenerative capabilities; however, axolotls are profoundly regenerative and can replace entire limbs. The mechanisms underlying limb regeneration remain poorly understood, partly because the enormous and incompletely sequenced genomes of axolotls have hindered the study of genes facilitating regeneration. We assembled and annotated a de novo transcriptome using RNA-sequencing profiles for a broad spectrum of tissues that is estimated to have near-complete sequence information for 88% of axolotl genes. We devised expression analyses that identified the axolotl orthologs of cirbp and kazald1 as highly expressed and enriched in blastemas. Using morpholino anti-sense oligonucleotides, we find evidence that cirbp plays a cytoprotective role during limb regeneration whereas manipulation of kazald1 expression disrupts regeneration. Our transcriptome and annotation resources greatly complement previous transcriptomic studies and will be a valuable resource for future research in regenerative biology. [ABSTRACT FROM AUTHOR]

Published
2017
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3. A Tissue-Mapped Axolotl De Novo Transcriptome Enables Identification of Limb Regeneration Factors

Author

Aviv Regev, Donald M. Bryant, Duygu Payzin-Dogru, Nicholas D. Leigh, M. B. Couger, Tzu-Hsing Kuo, Sevara Bryant, Tia DiTommaso, Brian J. Haas, William W. Ye, Francis G. Davis, Kimberly Johnson, Clifford J. Tabin, Timothy L. Tickle, Steven Coyne, Leonid Peshkin, Stephanie L. Tsai, Tae J. Lee, Robert Freeman, Joel Bateman, Anna R. Guzikowski, Jessica L. Whited, Broad Institute of MIT and Harvard, Regev, Aviv, and Haas, Brian

Subjects
0301 basic medicine, Trinity, Morpholino, kazald1, RNA Splicing, axolotl, Computational biology, RNA, Small Interfering/metabolism, CIRBP, Genome, General Biochemistry, Genetics and Molecular Biology, Article, Transcriptome, Insulin-Like Growth Factor Binding Proteins/antagonists & inhibitors, 03 medical and health sciences, 0302 clinical medicine, Axolotl, Animals, Regeneration, RNA/chemistry, expression analysis, RNA, Small Interfering, blastema, lcsh:QH301-705.5, In Situ Hybridization, limb, Genetics, Trinotate, cirbp, biology, Sequence Analysis, RNA, Regeneration (biology), RNA-Binding Proteins, Extremities, biology.organism_classification, RNA-Binding Proteins/genetics, Ambystoma mexicanum, Insulin-Like Growth Factor Binding Proteins, Extremities/physiology, 030104 developmental biology, lcsh:Biology (General), RNA, RNA Interference, Blastema, Developmental biology, 030217 neurology & neurosurgery, Developmental Biology
Abstract

Mammals have extremely limited regenerative capabilities; however, axolotls are profoundly regenerative and can replace entire limbs. The mechanisms underlying limb regeneration remain poorly understood, partly because the enormous and incompletely sequenced genomes of axolotls have hindered the study of genes facilitating regeneration. We assembled and annotated a de novo transcriptome using RNA-sequencing profiles for a broad spectrum of tissues that is estimated to have near-complete sequence information for 88% of axolotl genes. We devised expression analyses that identified the axolotl orthologs of cirbp and kazald1 as highly expressed and enriched in blastemas. Using morpholino anti-sense oligonucleotides, we find evidence that cirbp plays a cytoprotective role during limb regeneration whereas manipulation of kazald1 expression disrupts regeneration. Our transcriptome and annotation resources greatly complement previous transcriptomic studies and will be a valuable resource for future research in regenerative biology., United States. National Institutes of Health (1U24CA180922-01)

Published
2016

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