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A transcriptome profile for developing seed of polyploid cotton
Year:
2015
Source of publication :
Plant Genome
Authors :
Hovav, Ran H.
;
.
Kadmon, Noa
;
.
Volume :
8
Co-Authors:
Hovav, R., ARO (Volcani Center), Bet Dagan, Israel
Faigenboim-Doron, A., ARO (Volcani Center), Bet Dagan, Israel
Kadmon, N., ARO (Volcani Center), Bet Dagan, Israel
Hu, G., Iowa State Univ., Ames, IA, United States
Zhang, X., Iowa State Univ., Ames, IA, United States
Gallagher, J.P., Iowa State Univ., Ames, IA, United States
Wendel, J.F., Iowa State Univ., Ames, IA, United States
Facilitators :
From page:
To page:
(
Total pages:
1
)
Abstract:
Cotton ranks among the world’s important oilseed crops, yet relative to other oilseeds there are few studies of oil-related biosynthetic and regulatory pathways. We present global transcriptome analyses of cotton seed development using RNA-seq and four developmental time-points. Because Upland cotton (Gossypium hirsutum L.) is an allopolyploid containing two genomes (A/D), we partitioned expression into the individual contributions of each homeologous gene copy. Data were explored with respect to genic and subgenomic patterns of expression, globally and with respect to seed pathways and networks. The most dynamic period of transcriptome change is from 20–30 d postanthesis (DPA), with about 20% of genes showing homeolog expression bias. Co-expression analysis shows largely congruent homeolog networks, but also homeolog-specific divergence. Functional enrichment tests show that flavonoid biosynthesis and lipid related genes were significantly represented early and later in seed development, respectively. An involvement of new features in oil biosynthesis was found, like the contribution of DGAT3 (diacylglycerol acyltransferase) to the total triglyceride expression pool. Also, catechin-based and epicatechin-based proanthocyanidin expression are reciprocally biased with respect to homeolog usage. This study provides the first temporal analysis of duplicated gene expression in cotton seed and a resource for understanding new aspects of oil and flavonoid biosynthetic processes. © Crop Science Society of America.
Note:
Related Files :
Gossypium hirsutum
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More details
DOI :
10.3835/plantgenome2014.08.0041
Article number:
Affiliations:
Database:
Scopus
Publication Type:
article
;
.
Language:
English
Editors' remarks:
ID:
29938
Last updated date:
02/03/2022 17:27
Creation date:
17/04/2018 00:50
Scientific Publication
A transcriptome profile for developing seed of polyploid cotton
8
Hovav, R., ARO (Volcani Center), Bet Dagan, Israel
Faigenboim-Doron, A., ARO (Volcani Center), Bet Dagan, Israel
Kadmon, N., ARO (Volcani Center), Bet Dagan, Israel
Hu, G., Iowa State Univ., Ames, IA, United States
Zhang, X., Iowa State Univ., Ames, IA, United States
Gallagher, J.P., Iowa State Univ., Ames, IA, United States
Wendel, J.F., Iowa State Univ., Ames, IA, United States
A transcriptome profile for developing seed of polyploid cotton
Cotton ranks among the world’s important oilseed crops, yet relative to other oilseeds there are few studies of oil-related biosynthetic and regulatory pathways. We present global transcriptome analyses of cotton seed development using RNA-seq and four developmental time-points. Because Upland cotton (Gossypium hirsutum L.) is an allopolyploid containing two genomes (A/D), we partitioned expression into the individual contributions of each homeologous gene copy. Data were explored with respect to genic and subgenomic patterns of expression, globally and with respect to seed pathways and networks. The most dynamic period of transcriptome change is from 20–30 d postanthesis (DPA), with about 20% of genes showing homeolog expression bias. Co-expression analysis shows largely congruent homeolog networks, but also homeolog-specific divergence. Functional enrichment tests show that flavonoid biosynthesis and lipid related genes were significantly represented early and later in seed development, respectively. An involvement of new features in oil biosynthesis was found, like the contribution of DGAT3 (diacylglycerol acyltransferase) to the total triglyceride expression pool. Also, catechin-based and epicatechin-based proanthocyanidin expression are reciprocally biased with respect to homeolog usage. This study provides the first temporal analysis of duplicated gene expression in cotton seed and a resource for understanding new aspects of oil and flavonoid biosynthetic processes. © Crop Science Society of America.
Scientific Publication
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