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RNA-Seq Analysis of Plant Maturity in Crested Wheatgrass (Agropyron cristatum L.)

Crested wheatgrass (Agropyron cristatum L.) breeding programs aim to develop later maturing cultivars for extending early spring grazing in Western Canada. Plant maturity is a complex genetic trait, and little is known about genes associated with late maturity in this species. An attempt was made us...

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Autores principales: Zeng, Fangqin, Biligetu, Bill, Coulman, Bruce, Schellenberg, Michael P., Fu, Yong-Bi
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5704204/
https://www.ncbi.nlm.nih.gov/pubmed/29068370
http://dx.doi.org/10.3390/genes8110291
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author Zeng, Fangqin
Biligetu, Bill
Coulman, Bruce
Schellenberg, Michael P.
Fu, Yong-Bi
author_facet Zeng, Fangqin
Biligetu, Bill
Coulman, Bruce
Schellenberg, Michael P.
Fu, Yong-Bi
author_sort Zeng, Fangqin
collection PubMed
description Crested wheatgrass (Agropyron cristatum L.) breeding programs aim to develop later maturing cultivars for extending early spring grazing in Western Canada. Plant maturity is a complex genetic trait, and little is known about genes associated with late maturity in this species. An attempt was made using RNA-Seq to profile the transcriptome of crested wheatgrass maturity and to analyze differentially expressed genes (DEGs) between early and late maturing lines. Three cDNA libraries for each line were generated by sampling leaves at the stem elongation stage, spikes at the boot and anthesis stages. A total of 75,218,230 and 74,015,092 clean sequence reads were obtained for early and late maturing lines, respectively. De novo assembly of all sequence reads generated 401,587 transcripts with a mean length of 546 bp and N50 length of 691 bp. Out of 13,133 DEGs detected, 22, 17, and eight flowering related DEGs were identified for the three stages, respectively. Twelve DEGs, including nine flowering related DEGs at the stem elongation stage were further confirmed by qRT-PCR. The analysis of homologous genes of the photoperiod pathway revealed their lower expression in the late maturing line at the stem elongation stage, suggesting that their differential expression contributed to late maturity in crested wheatgrass.
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spelling pubmed-57042042017-11-30 RNA-Seq Analysis of Plant Maturity in Crested Wheatgrass (Agropyron cristatum L.) Zeng, Fangqin Biligetu, Bill Coulman, Bruce Schellenberg, Michael P. Fu, Yong-Bi Genes (Basel) Communication Crested wheatgrass (Agropyron cristatum L.) breeding programs aim to develop later maturing cultivars for extending early spring grazing in Western Canada. Plant maturity is a complex genetic trait, and little is known about genes associated with late maturity in this species. An attempt was made using RNA-Seq to profile the transcriptome of crested wheatgrass maturity and to analyze differentially expressed genes (DEGs) between early and late maturing lines. Three cDNA libraries for each line were generated by sampling leaves at the stem elongation stage, spikes at the boot and anthesis stages. A total of 75,218,230 and 74,015,092 clean sequence reads were obtained for early and late maturing lines, respectively. De novo assembly of all sequence reads generated 401,587 transcripts with a mean length of 546 bp and N50 length of 691 bp. Out of 13,133 DEGs detected, 22, 17, and eight flowering related DEGs were identified for the three stages, respectively. Twelve DEGs, including nine flowering related DEGs at the stem elongation stage were further confirmed by qRT-PCR. The analysis of homologous genes of the photoperiod pathway revealed their lower expression in the late maturing line at the stem elongation stage, suggesting that their differential expression contributed to late maturity in crested wheatgrass. MDPI 2017-10-25 /pmc/articles/PMC5704204/ /pubmed/29068370 http://dx.doi.org/10.3390/genes8110291 Text en © 2017 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Communication
Zeng, Fangqin
Biligetu, Bill
Coulman, Bruce
Schellenberg, Michael P.
Fu, Yong-Bi
RNA-Seq Analysis of Plant Maturity in Crested Wheatgrass (Agropyron cristatum L.)
title RNA-Seq Analysis of Plant Maturity in Crested Wheatgrass (Agropyron cristatum L.)
title_full RNA-Seq Analysis of Plant Maturity in Crested Wheatgrass (Agropyron cristatum L.)
title_fullStr RNA-Seq Analysis of Plant Maturity in Crested Wheatgrass (Agropyron cristatum L.)
title_full_unstemmed RNA-Seq Analysis of Plant Maturity in Crested Wheatgrass (Agropyron cristatum L.)
title_short RNA-Seq Analysis of Plant Maturity in Crested Wheatgrass (Agropyron cristatum L.)
title_sort rna-seq analysis of plant maturity in crested wheatgrass (agropyron cristatum l.)
topic Communication
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5704204/
https://www.ncbi.nlm.nih.gov/pubmed/29068370
http://dx.doi.org/10.3390/genes8110291
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