The planarian regeneration transcriptome reveals a shared but temporally shifted regulatory program between opposing head and tail scenarios

BACKGROUND: Planarians can regenerate entire animals from a small fragment of the body. The regenerating fragment is able to create new tissues and remodel existing tissues to form a complete animal. Thus different fragments with very different starting components eventually converge on the same sol...

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Detalhes bibliográficos
Autores: Kao, Damian, Felix, Daniel, Aboobaker, Aziz
Tipo de documento: artigo
Data de publicação:2013
País:España
Recursos:Instituto de Salud Carlos III (ISCIII)
Repositório:Repisalud
Idioma:inglês
OAI Identifier:oai:repisalud.isciii.es:20.500.12105/7572
Acesso em linha:http://hdl.handle.net/20.500.12105/7572
Access Level:Acceso aberto
Palavra-chave:Animals
Cluster Analysis
Expressed Sequence Tags
Head
Helminth Proteins
Open Reading Frames
Planarians
RNA Interference
RNA, Helminth
RNA, Messenger
Tail
Gene Expression Regulation
Regeneration
Transcriptome
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spelling The planarian regeneration transcriptome reveals a shared but temporally shifted regulatory program between opposing head and tail scenariosKao, DamianFelix, DanielAboobaker, AzizAnimalsCluster AnalysisExpressed Sequence TagsHeadHelminth ProteinsOpen Reading FramesPlanariansRNA InterferenceRNA, HelminthRNA, MessengerTailGene Expression RegulationRegenerationTranscriptomeBACKGROUND: Planarians can regenerate entire animals from a small fragment of the body. The regenerating fragment is able to create new tissues and remodel existing tissues to form a complete animal. Thus different fragments with very different starting components eventually converge on the same solution. In this study, we performed an extensive RNA-seq time-course on regenerating head and tail fragments to observe the differences and similarities of the transcriptional landscape between head and tail fragments during regeneration. RESULTS: We have consolidated existing transcriptomic data for S. mediterranea to generate a high confidence set of transcripts for use in genome wide expression studies. We performed a RNA-seq time-course on regenerating head and tail fragments from 0 hours to 3 days. We found that the transcriptome profiles of head and tail regeneration were very different at the start of regeneration; however, an unexpected convergence of transcriptional profiles occurred at 48 hours when head and tail fragments are still morphologically distinct. By comparing differentially expressed transcripts at various time-points, we revealed that this divergence/convergence pattern is caused by a shared regulatory program that runs early in heads and later in tails.Additionally, we also performed RNA-seq on smed-prep(RNAi) tail fragments which ultimately fail to regenerate anterior structures. We find the gene regulation program in response to smed-prep(RNAi) to display the opposite regulatory trend compared to the previously mentioned share regulatory program during regeneration. Using annotation data and comparative approaches, we also identified a set of approximately 4,800 triclad specific transcripts that were enriched amongst the genes displaying differential expression during the regeneration time-course. CONCLUSION: The regeneration transcriptome of head and tail regeneration provides us with a rich resource for investigating the global expression changes that occurs during regeneration. We show that very different regenerative scenarios utilize a shared core regenerative program. Furthermore, our consolidated transcriptome and annotations allowed us to identity triclad specific transcripts that are enriched within this core regulatory program. Our data support the hypothesis that both conserved aspects of animal developmental programs and recent evolutionarily innovations work in concert to control regeneration.BioMed Central (BMC)20192019-05-1420132013-11-1620132013-11-16journal articlehttp://purl.org/coar/resource_type/c_6501VoRhttp://purl.org/coar/version/c_970fb48d4fbd8a85info:eu-repo/semantics/articleapplication/pdfhttp://hdl.handle.net/20.500.12105/7572reponame:Repisaludinstname:Instituto de Salud Carlos III (ISCIII)Inglésengopen accesshttp://purl.org/coar/access_right/c_abf2Atribución 4.0 Internacionalhttp://creativecommons.org/licenses/by/4.0/info:eu-repo/semantics/openAccessoai:repisalud.isciii.es:20.500.12105/75722026-06-12T12:43:37Z
dc.title.none.fl_str_mv The planarian regeneration transcriptome reveals a shared but temporally shifted regulatory program between opposing head and tail scenarios
title The planarian regeneration transcriptome reveals a shared but temporally shifted regulatory program between opposing head and tail scenarios
spellingShingle The planarian regeneration transcriptome reveals a shared but temporally shifted regulatory program between opposing head and tail scenarios
Kao, Damian
Animals
Cluster Analysis
Expressed Sequence Tags
Head
Helminth Proteins
Open Reading Frames
Planarians
RNA Interference
RNA, Helminth
RNA, Messenger
Tail
Gene Expression Regulation
Regeneration
Transcriptome
title_short The planarian regeneration transcriptome reveals a shared but temporally shifted regulatory program between opposing head and tail scenarios
title_full The planarian regeneration transcriptome reveals a shared but temporally shifted regulatory program between opposing head and tail scenarios
title_fullStr The planarian regeneration transcriptome reveals a shared but temporally shifted regulatory program between opposing head and tail scenarios
title_full_unstemmed The planarian regeneration transcriptome reveals a shared but temporally shifted regulatory program between opposing head and tail scenarios
title_sort The planarian regeneration transcriptome reveals a shared but temporally shifted regulatory program between opposing head and tail scenarios
dc.creator.none.fl_str_mv Kao, Damian
Felix, Daniel
Aboobaker, Aziz
author Kao, Damian
author_facet Kao, Damian
Felix, Daniel
Aboobaker, Aziz
author_role author
author2 Felix, Daniel
Aboobaker, Aziz
author2_role author
author
dc.contributor.none.fl_str_mv
dc.subject.none.fl_str_mv Animals
Cluster Analysis
Expressed Sequence Tags
Head
Helminth Proteins
Open Reading Frames
Planarians
RNA Interference
RNA, Helminth
RNA, Messenger
Tail
Gene Expression Regulation
Regeneration
Transcriptome
topic Animals
Cluster Analysis
Expressed Sequence Tags
Head
Helminth Proteins
Open Reading Frames
Planarians
RNA Interference
RNA, Helminth
RNA, Messenger
Tail
Gene Expression Regulation
Regeneration
Transcriptome
description BACKGROUND: Planarians can regenerate entire animals from a small fragment of the body. The regenerating fragment is able to create new tissues and remodel existing tissues to form a complete animal. Thus different fragments with very different starting components eventually converge on the same solution. In this study, we performed an extensive RNA-seq time-course on regenerating head and tail fragments to observe the differences and similarities of the transcriptional landscape between head and tail fragments during regeneration. RESULTS: We have consolidated existing transcriptomic data for S. mediterranea to generate a high confidence set of transcripts for use in genome wide expression studies. We performed a RNA-seq time-course on regenerating head and tail fragments from 0 hours to 3 days. We found that the transcriptome profiles of head and tail regeneration were very different at the start of regeneration; however, an unexpected convergence of transcriptional profiles occurred at 48 hours when head and tail fragments are still morphologically distinct. By comparing differentially expressed transcripts at various time-points, we revealed that this divergence/convergence pattern is caused by a shared regulatory program that runs early in heads and later in tails.Additionally, we also performed RNA-seq on smed-prep(RNAi) tail fragments which ultimately fail to regenerate anterior structures. We find the gene regulation program in response to smed-prep(RNAi) to display the opposite regulatory trend compared to the previously mentioned share regulatory program during regeneration. Using annotation data and comparative approaches, we also identified a set of approximately 4,800 triclad specific transcripts that were enriched amongst the genes displaying differential expression during the regeneration time-course. CONCLUSION: The regeneration transcriptome of head and tail regeneration provides us with a rich resource for investigating the global expression changes that occurs during regeneration. We show that very different regenerative scenarios utilize a shared core regenerative program. Furthermore, our consolidated transcriptome and annotations allowed us to identity triclad specific transcripts that are enriched within this core regulatory program. Our data support the hypothesis that both conserved aspects of animal developmental programs and recent evolutionarily innovations work in concert to control regeneration.
publishDate 2013
dc.date.none.fl_str_mv 2013
2013-11-16
2013
2013-11-16
2019
2019-05-14
dc.type.none.fl_str_mv journal article
http://purl.org/coar/resource_type/c_6501
VoR
http://purl.org/coar/version/c_970fb48d4fbd8a85
dc.type.openaire.fl_str_mv info:eu-repo/semantics/article
format article
dc.identifier.none.fl_str_mv http://hdl.handle.net/20.500.12105/7572
url http://hdl.handle.net/20.500.12105/7572
dc.language.none.fl_str_mv Inglés
eng
language_invalid_str_mv Inglés
language eng
dc.rights.none.fl_str_mv open access
http://purl.org/coar/access_right/c_abf2
Atribución 4.0 Internacional
http://creativecommons.org/licenses/by/4.0/
dc.rights.openaire.fl_str_mv info:eu-repo/semantics/openAccess
rights_invalid_str_mv open access
http://purl.org/coar/access_right/c_abf2
Atribución 4.0 Internacional
http://creativecommons.org/licenses/by/4.0/
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
dc.publisher.none.fl_str_mv BioMed Central (BMC)
publisher.none.fl_str_mv BioMed Central (BMC)
dc.source.none.fl_str_mv reponame:Repisalud
instname:Instituto de Salud Carlos III (ISCIII)
instname_str Instituto de Salud Carlos III (ISCIII)
reponame_str Repisalud
collection Repisalud
repository.name.fl_str_mv
repository.mail.fl_str_mv
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score 15.812429

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