Multi-scale comparative transcriptome analysis reveals key genes and metabolic reprogramming processes associated with oil palm fruit abscission
Background: Fruit abscission depends on cell separation that occurs within specialized cell layers that constitute an abscission zone (AZ). To determine the mechanisms of fleshy fruit abscission of the monocot oil palm (Elaeis guineensis Jacq.) compared with other abscission systems, we performed multi-scale comparative transcriptome analyses on fruit targeting the developing primary AZ and adjacent tissues. Results: Combining between-tissue developmental comparisons with exogenous ethylene treatments, and naturally occurring abscission in the field, RNAseq analysis revealed a robust core set of 168 genes with differentially regulated expression, spatially associated with the ripe fruit AZ, and temporally restricted to the abscission timing. The expression of a set of candidate genes was validated by qRT-PCR in the fruit AZ of a natural oil palm variant with blocked fruit abscission, which provides evidence for their functions during abscission. Our results substantiate the conservation of gene function between dicot dry fruit dehiscence and monocot fleshy fruit abscission. The study also revealed major metabolic transitions occur in the AZ during abscission, including key senescence marker genes and transcriptional regulators, in addition to genes involved in nutrient recycling and reallocation, alternative routes for energy supply and adaptation to oxidative stress. Conclusions: The study provides the first reference transcriptome of a monocot fleshy fruit abscission zone and provides insight into the mechanisms underlying abscission by identifying key genes with functional roles and processes, including metabolic transitions, cell wall modifications, signalling, stress adaptations and transcriptional regulation, that occur during ripe fruit abscission of the monocot oil palm. The transcriptome data comprises an original reference and resource useful towards understanding the evolutionary basis of this fundamental plant process.
Main Authors: | , , , , , , , , , , , |
---|---|
Format: | article biblioteca |
Language: | eng |
Subjects: | F30 - Génétique et amélioration des plantes, F60 - Physiologie et biochimie végétale, phytogénétique, abscission, Elaeis guineensis, palmier oléifère, Transcription génique, transcriptome, http://aims.fao.org/aos/agrovoc/c_49985, http://aims.fao.org/aos/agrovoc/c_25, http://aims.fao.org/aos/agrovoc/c_2509, http://aims.fao.org/aos/agrovoc/c_5330, http://aims.fao.org/aos/agrovoc/c_35128, http://aims.fao.org/aos/agrovoc/c_620c5378, |
Online Access: | http://agritrop.cirad.fr/597681/ http://agritrop.cirad.fr/597681/1/Fooyontphanich_2021_BMC%20PB_RNAseqEgAZ.pdf |
Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
id |
dig-cirad-fr-597681 |
---|---|
record_format |
koha |
spelling |
dig-cirad-fr-5976812024-01-29T03:21:10Z http://agritrop.cirad.fr/597681/ http://agritrop.cirad.fr/597681/ Multi-scale comparative transcriptome analysis reveals key genes and metabolic reprogramming processes associated with oil palm fruit abscission. Fooyontphanich Kim, Morcillo Fabienne, Joët Thierry, Dussert Stéphane, Serret Julien, Collin Myriam, Amblard Philippe, Tangphatsornruang Sithichoke, Roongsattham Peerapat, Jantasuriyarat Chatchawan, Verdeil Jean-Luc, Tranbarger Timothy John. 2021. BMC Plant Biology, 21:92, 18 p.https://doi.org/10.1186/s12870-021-02874-1 <https://doi.org/10.1186/s12870-021-02874-1> Multi-scale comparative transcriptome analysis reveals key genes and metabolic reprogramming processes associated with oil palm fruit abscission Fooyontphanich, Kim Morcillo, Fabienne Joët, Thierry Dussert, Stéphane Serret, Julien Collin, Myriam Amblard, Philippe Tangphatsornruang, Sithichoke Roongsattham, Peerapat Jantasuriyarat, Chatchawan Verdeil, Jean-Luc Tranbarger, Timothy John eng 2021 BMC Plant Biology F30 - Génétique et amélioration des plantes F60 - Physiologie et biochimie végétale phytogénétique abscission Elaeis guineensis palmier oléifère Transcription génique transcriptome http://aims.fao.org/aos/agrovoc/c_49985 http://aims.fao.org/aos/agrovoc/c_25 http://aims.fao.org/aos/agrovoc/c_2509 http://aims.fao.org/aos/agrovoc/c_5330 http://aims.fao.org/aos/agrovoc/c_35128 http://aims.fao.org/aos/agrovoc/c_620c5378 Background: Fruit abscission depends on cell separation that occurs within specialized cell layers that constitute an abscission zone (AZ). To determine the mechanisms of fleshy fruit abscission of the monocot oil palm (Elaeis guineensis Jacq.) compared with other abscission systems, we performed multi-scale comparative transcriptome analyses on fruit targeting the developing primary AZ and adjacent tissues. Results: Combining between-tissue developmental comparisons with exogenous ethylene treatments, and naturally occurring abscission in the field, RNAseq analysis revealed a robust core set of 168 genes with differentially regulated expression, spatially associated with the ripe fruit AZ, and temporally restricted to the abscission timing. The expression of a set of candidate genes was validated by qRT-PCR in the fruit AZ of a natural oil palm variant with blocked fruit abscission, which provides evidence for their functions during abscission. Our results substantiate the conservation of gene function between dicot dry fruit dehiscence and monocot fleshy fruit abscission. The study also revealed major metabolic transitions occur in the AZ during abscission, including key senescence marker genes and transcriptional regulators, in addition to genes involved in nutrient recycling and reallocation, alternative routes for energy supply and adaptation to oxidative stress. Conclusions: The study provides the first reference transcriptome of a monocot fleshy fruit abscission zone and provides insight into the mechanisms underlying abscission by identifying key genes with functional roles and processes, including metabolic transitions, cell wall modifications, signalling, stress adaptations and transcriptional regulation, that occur during ripe fruit abscission of the monocot oil palm. The transcriptome data comprises an original reference and resource useful towards understanding the evolutionary basis of this fundamental plant process. article info:eu-repo/semantics/article Journal Article info:eu-repo/semantics/publishedVersion http://agritrop.cirad.fr/597681/1/Fooyontphanich_2021_BMC%20PB_RNAseqEgAZ.pdf text cc_by info:eu-repo/semantics/openAccess https://creativecommons.org/licenses/by/4.0/ https://doi.org/10.1186/s12870-021-02874-1 10.1186/s12870-021-02874-1 info:eu-repo/semantics/altIdentifier/doi/10.1186/s12870-021-02874-1 info:eu-repo/semantics/altIdentifier/purl/https://doi.org/10.1186/s12870-021-02874-1 info:eu-repo/semantics/dataset/purl/https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE166314 |
institution |
CIRAD FR |
collection |
DSpace |
country |
Francia |
countrycode |
FR |
component |
Bibliográfico |
access |
En linea |
databasecode |
dig-cirad-fr |
tag |
biblioteca |
region |
Europa del Oeste |
libraryname |
Biblioteca del CIRAD Francia |
language |
eng |
topic |
F30 - Génétique et amélioration des plantes F60 - Physiologie et biochimie végétale phytogénétique abscission Elaeis guineensis palmier oléifère Transcription génique transcriptome http://aims.fao.org/aos/agrovoc/c_49985 http://aims.fao.org/aos/agrovoc/c_25 http://aims.fao.org/aos/agrovoc/c_2509 http://aims.fao.org/aos/agrovoc/c_5330 http://aims.fao.org/aos/agrovoc/c_35128 http://aims.fao.org/aos/agrovoc/c_620c5378 F30 - Génétique et amélioration des plantes F60 - Physiologie et biochimie végétale phytogénétique abscission Elaeis guineensis palmier oléifère Transcription génique transcriptome http://aims.fao.org/aos/agrovoc/c_49985 http://aims.fao.org/aos/agrovoc/c_25 http://aims.fao.org/aos/agrovoc/c_2509 http://aims.fao.org/aos/agrovoc/c_5330 http://aims.fao.org/aos/agrovoc/c_35128 http://aims.fao.org/aos/agrovoc/c_620c5378 |
spellingShingle |
F30 - Génétique et amélioration des plantes F60 - Physiologie et biochimie végétale phytogénétique abscission Elaeis guineensis palmier oléifère Transcription génique transcriptome http://aims.fao.org/aos/agrovoc/c_49985 http://aims.fao.org/aos/agrovoc/c_25 http://aims.fao.org/aos/agrovoc/c_2509 http://aims.fao.org/aos/agrovoc/c_5330 http://aims.fao.org/aos/agrovoc/c_35128 http://aims.fao.org/aos/agrovoc/c_620c5378 F30 - Génétique et amélioration des plantes F60 - Physiologie et biochimie végétale phytogénétique abscission Elaeis guineensis palmier oléifère Transcription génique transcriptome http://aims.fao.org/aos/agrovoc/c_49985 http://aims.fao.org/aos/agrovoc/c_25 http://aims.fao.org/aos/agrovoc/c_2509 http://aims.fao.org/aos/agrovoc/c_5330 http://aims.fao.org/aos/agrovoc/c_35128 http://aims.fao.org/aos/agrovoc/c_620c5378 Fooyontphanich, Kim Morcillo, Fabienne Joët, Thierry Dussert, Stéphane Serret, Julien Collin, Myriam Amblard, Philippe Tangphatsornruang, Sithichoke Roongsattham, Peerapat Jantasuriyarat, Chatchawan Verdeil, Jean-Luc Tranbarger, Timothy John Multi-scale comparative transcriptome analysis reveals key genes and metabolic reprogramming processes associated with oil palm fruit abscission |
description |
Background: Fruit abscission depends on cell separation that occurs within specialized cell layers that constitute an abscission zone (AZ). To determine the mechanisms of fleshy fruit abscission of the monocot oil palm (Elaeis guineensis Jacq.) compared with other abscission systems, we performed multi-scale comparative transcriptome analyses on fruit targeting the developing primary AZ and adjacent tissues. Results: Combining between-tissue developmental comparisons with exogenous ethylene treatments, and naturally occurring abscission in the field, RNAseq analysis revealed a robust core set of 168 genes with differentially regulated expression, spatially associated with the ripe fruit AZ, and temporally restricted to the abscission timing. The expression of a set of candidate genes was validated by qRT-PCR in the fruit AZ of a natural oil palm variant with blocked fruit abscission, which provides evidence for their functions during abscission. Our results substantiate the conservation of gene function between dicot dry fruit dehiscence and monocot fleshy fruit abscission. The study also revealed major metabolic transitions occur in the AZ during abscission, including key senescence marker genes and transcriptional regulators, in addition to genes involved in nutrient recycling and reallocation, alternative routes for energy supply and adaptation to oxidative stress. Conclusions: The study provides the first reference transcriptome of a monocot fleshy fruit abscission zone and provides insight into the mechanisms underlying abscission by identifying key genes with functional roles and processes, including metabolic transitions, cell wall modifications, signalling, stress adaptations and transcriptional regulation, that occur during ripe fruit abscission of the monocot oil palm. The transcriptome data comprises an original reference and resource useful towards understanding the evolutionary basis of this fundamental plant process. |
format |
article |
topic_facet |
F30 - Génétique et amélioration des plantes F60 - Physiologie et biochimie végétale phytogénétique abscission Elaeis guineensis palmier oléifère Transcription génique transcriptome http://aims.fao.org/aos/agrovoc/c_49985 http://aims.fao.org/aos/agrovoc/c_25 http://aims.fao.org/aos/agrovoc/c_2509 http://aims.fao.org/aos/agrovoc/c_5330 http://aims.fao.org/aos/agrovoc/c_35128 http://aims.fao.org/aos/agrovoc/c_620c5378 |
author |
Fooyontphanich, Kim Morcillo, Fabienne Joët, Thierry Dussert, Stéphane Serret, Julien Collin, Myriam Amblard, Philippe Tangphatsornruang, Sithichoke Roongsattham, Peerapat Jantasuriyarat, Chatchawan Verdeil, Jean-Luc Tranbarger, Timothy John |
author_facet |
Fooyontphanich, Kim Morcillo, Fabienne Joët, Thierry Dussert, Stéphane Serret, Julien Collin, Myriam Amblard, Philippe Tangphatsornruang, Sithichoke Roongsattham, Peerapat Jantasuriyarat, Chatchawan Verdeil, Jean-Luc Tranbarger, Timothy John |
author_sort |
Fooyontphanich, Kim |
title |
Multi-scale comparative transcriptome analysis reveals key genes and metabolic reprogramming processes associated with oil palm fruit abscission |
title_short |
Multi-scale comparative transcriptome analysis reveals key genes and metabolic reprogramming processes associated with oil palm fruit abscission |
title_full |
Multi-scale comparative transcriptome analysis reveals key genes and metabolic reprogramming processes associated with oil palm fruit abscission |
title_fullStr |
Multi-scale comparative transcriptome analysis reveals key genes and metabolic reprogramming processes associated with oil palm fruit abscission |
title_full_unstemmed |
Multi-scale comparative transcriptome analysis reveals key genes and metabolic reprogramming processes associated with oil palm fruit abscission |
title_sort |
multi-scale comparative transcriptome analysis reveals key genes and metabolic reprogramming processes associated with oil palm fruit abscission |
url |
http://agritrop.cirad.fr/597681/ http://agritrop.cirad.fr/597681/1/Fooyontphanich_2021_BMC%20PB_RNAseqEgAZ.pdf |
work_keys_str_mv |
AT fooyontphanichkim multiscalecomparativetranscriptomeanalysisrevealskeygenesandmetabolicreprogrammingprocessesassociatedwithoilpalmfruitabscission AT morcillofabienne multiscalecomparativetranscriptomeanalysisrevealskeygenesandmetabolicreprogrammingprocessesassociatedwithoilpalmfruitabscission AT joetthierry multiscalecomparativetranscriptomeanalysisrevealskeygenesandmetabolicreprogrammingprocessesassociatedwithoilpalmfruitabscission AT dussertstephane multiscalecomparativetranscriptomeanalysisrevealskeygenesandmetabolicreprogrammingprocessesassociatedwithoilpalmfruitabscission AT serretjulien multiscalecomparativetranscriptomeanalysisrevealskeygenesandmetabolicreprogrammingprocessesassociatedwithoilpalmfruitabscission AT collinmyriam multiscalecomparativetranscriptomeanalysisrevealskeygenesandmetabolicreprogrammingprocessesassociatedwithoilpalmfruitabscission AT amblardphilippe multiscalecomparativetranscriptomeanalysisrevealskeygenesandmetabolicreprogrammingprocessesassociatedwithoilpalmfruitabscission AT tangphatsornruangsithichoke multiscalecomparativetranscriptomeanalysisrevealskeygenesandmetabolicreprogrammingprocessesassociatedwithoilpalmfruitabscission AT roongsatthampeerapat multiscalecomparativetranscriptomeanalysisrevealskeygenesandmetabolicreprogrammingprocessesassociatedwithoilpalmfruitabscission AT jantasuriyaratchatchawan multiscalecomparativetranscriptomeanalysisrevealskeygenesandmetabolicreprogrammingprocessesassociatedwithoilpalmfruitabscission AT verdeiljeanluc multiscalecomparativetranscriptomeanalysisrevealskeygenesandmetabolicreprogrammingprocessesassociatedwithoilpalmfruitabscission AT tranbargertimothyjohn multiscalecomparativetranscriptomeanalysisrevealskeygenesandmetabolicreprogrammingprocessesassociatedwithoilpalmfruitabscission |
_version_ |
1792500109505724416 |