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Transcriptome-wide characterization of candidate genes for improving the water use efficiency of energy crops grown on semiarid land

Understanding the genetic basis of water use efficiency (WUE) and its roles in plant adaptation to a drought environment is essential for the production of second-generation energy crops in water-deficit marginal land. In this study, RNA-Seq and WUE measurements were performed for 78 individuals of...

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Autores principales: Fan, Yangyang, Wang, Qian, Kang, Lifang, Liu, Wei, Xu, Qin, Xing, Shilai, Tao, Chengcheng, Song, Zhihong, Zhu, Caiyun, Lin, Cong, Yan, Juan, Li, Jianqiang, Sang, Tao
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2015
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4588889/
https://www.ncbi.nlm.nih.gov/pubmed/26175351
http://dx.doi.org/10.1093/jxb/erv353
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author Fan, Yangyang
Wang, Qian
Kang, Lifang
Liu, Wei
Xu, Qin
Xing, Shilai
Tao, Chengcheng
Song, Zhihong
Zhu, Caiyun
Lin, Cong
Yan, Juan
Li, Jianqiang
Sang, Tao
author_facet Fan, Yangyang
Wang, Qian
Kang, Lifang
Liu, Wei
Xu, Qin
Xing, Shilai
Tao, Chengcheng
Song, Zhihong
Zhu, Caiyun
Lin, Cong
Yan, Juan
Li, Jianqiang
Sang, Tao
author_sort Fan, Yangyang
collection PubMed
description Understanding the genetic basis of water use efficiency (WUE) and its roles in plant adaptation to a drought environment is essential for the production of second-generation energy crops in water-deficit marginal land. In this study, RNA-Seq and WUE measurements were performed for 78 individuals of Miscanthus lutarioriparius grown in two common gardens, one located in warm and wet Central China near the native habitats of the species and the other located in the semiarid Loess Plateau, the domestication site of the energy crop. The field measurements showed that WUE of M. lutarioriparius in the semiarid location was significantly higher than that in the wet location. A matrix correlation analysis was conducted between gene expression levels and WUE to identify candidate genes involved in the improvement of WUE from the native to the domestication site. A total of 48 candidate genes were identified and assigned to functional categories, including photosynthesis, stomatal regulation, protein metabolism, and abiotic stress responses. Of these genes, nearly 73% were up-regulated in the semiarid site. It was also found that the relatively high expression variation of the WUE-related genes was affected to a larger extent by environment than by genetic variation. The study demonstrates that transcriptome-wide correlation between physiological phenotypes and expression levels offers an effective means for identifying candidate genes involved in the adaptation to environmental changes.
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spelling pubmed-45888892015-10-01 Transcriptome-wide characterization of candidate genes for improving the water use efficiency of energy crops grown on semiarid land Fan, Yangyang Wang, Qian Kang, Lifang Liu, Wei Xu, Qin Xing, Shilai Tao, Chengcheng Song, Zhihong Zhu, Caiyun Lin, Cong Yan, Juan Li, Jianqiang Sang, Tao J Exp Bot Research Paper Understanding the genetic basis of water use efficiency (WUE) and its roles in plant adaptation to a drought environment is essential for the production of second-generation energy crops in water-deficit marginal land. In this study, RNA-Seq and WUE measurements were performed for 78 individuals of Miscanthus lutarioriparius grown in two common gardens, one located in warm and wet Central China near the native habitats of the species and the other located in the semiarid Loess Plateau, the domestication site of the energy crop. The field measurements showed that WUE of M. lutarioriparius in the semiarid location was significantly higher than that in the wet location. A matrix correlation analysis was conducted between gene expression levels and WUE to identify candidate genes involved in the improvement of WUE from the native to the domestication site. A total of 48 candidate genes were identified and assigned to functional categories, including photosynthesis, stomatal regulation, protein metabolism, and abiotic stress responses. Of these genes, nearly 73% were up-regulated in the semiarid site. It was also found that the relatively high expression variation of the WUE-related genes was affected to a larger extent by environment than by genetic variation. The study demonstrates that transcriptome-wide correlation between physiological phenotypes and expression levels offers an effective means for identifying candidate genes involved in the adaptation to environmental changes. Oxford University Press 2015-09 2015-07-13 /pmc/articles/PMC4588889/ /pubmed/26175351 http://dx.doi.org/10.1093/jxb/erv353 Text en © The Author 2015. Published by Oxford University Press on behalf of the Society for Experimental Biology. http://creativecommons.org/licenses/by/3.0 This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/3.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Research Paper
Fan, Yangyang
Wang, Qian
Kang, Lifang
Liu, Wei
Xu, Qin
Xing, Shilai
Tao, Chengcheng
Song, Zhihong
Zhu, Caiyun
Lin, Cong
Yan, Juan
Li, Jianqiang
Sang, Tao
Transcriptome-wide characterization of candidate genes for improving the water use efficiency of energy crops grown on semiarid land
title Transcriptome-wide characterization of candidate genes for improving the water use efficiency of energy crops grown on semiarid land
title_full Transcriptome-wide characterization of candidate genes for improving the water use efficiency of energy crops grown on semiarid land
title_fullStr Transcriptome-wide characterization of candidate genes for improving the water use efficiency of energy crops grown on semiarid land
title_full_unstemmed Transcriptome-wide characterization of candidate genes for improving the water use efficiency of energy crops grown on semiarid land
title_short Transcriptome-wide characterization of candidate genes for improving the water use efficiency of energy crops grown on semiarid land
title_sort transcriptome-wide characterization of candidate genes for improving the water use efficiency of energy crops grown on semiarid land
topic Research Paper
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4588889/
https://www.ncbi.nlm.nih.gov/pubmed/26175351
http://dx.doi.org/10.1093/jxb/erv353
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