Global analysis of gene expression profiles in physic nut (Jatropha curcas L.) seedlings exposed to drought stress

Zhang, Chao; Lin, Zhongxu; Zhang, Sheng; Zhu, Shuang; Wu, Ping; Chen, Yaping; Li, Meiru; Jiang, Huawu; Wu, Guojiang

doi:10.1186/s12870-014-0397-x

Cited by 61 publications

(39 citation statements)

References 80 publications

(124 reference statements)

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“…Differential expression was observed mainly in roots and stems of A. germinans seedlings, which are the first organs exposed to increased salinity and water deficits in mangroves, thus where osmotic stress sensing and signaling to the whole plant are triggered (Chaves, Maroco, & Pereira, 2003; Janiak, Kwas niewski, & Szarejko, 2016). Such transcriptome changes were associated with various biological processes previously identified to be involved in central aspects of osmotic-, heat- and UV-stress in model and non-model plants (Ding et al, 2013; Fan et al, 2018; Zhang et al, 2015). Being sessile under extreme environmental conditions, PA-arid plants should need to rapidly adjust photosynthesis gene expression to intermittent freshwater availability (Chaves, Flexas, & Pinheiro, 2009; Urban, Aarrouf, & Bidel, 2017).…”

Section: Discussionmentioning

confidence: 86%

Molecular responses to freshwater limitation in the mangrove tree Avicennia germinans (Acanthaceae)

Cruz

Mori

et al. 2019

Preprint

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Environmental variation along the geographical space can shape populations by natural selection. In the context of global warming and changing precipitation regimes, it is crucial to understand the role of environmental heterogeneity in tropical trees adaptation, given their disproportional contribution to water and carbon biogeochemical cycles. Here, we investigated how heterogeneity in freshwater availability along tropical wetlands has influenced molecular variations of the black mangrove (Avicennia germinans). A total of 57 trees were sampled at seven sites differing markedly in precipitation regime and riverine freshwater inputs. Using 2,297 genome‐wide single nucleotide polymorphic markers, we found signatures of natural selection by the association between variations in allele frequencies and environmental variables, including the precipitation of the warmest quarter and the annual precipitation. Additionally, we found candidate loci for selection based on statistical deviations from neutral expectations of interpopulation differentiation. Most candidate loci within transcribed sequences were functionally associated with central aspects of drought tolerance or plant response to drought. Moreover, our results suggest the occurrence of the rapid evolution of a population, probably in response to sudden and persistent limitations in plant access to soil water, following a road construction in 1974. Observations supporting rapid evolution included the reduction in tree size and changes in allele frequencies and in transcript expression associated with increased drought tolerance through the accumulation of osmoprotectants and antioxidants, biosynthesis of cuticles, protection against protein degradation, stomatal closure, photorespiration and photosynthesis. We describe a major role of spatial heterogeneity in freshwater availability in the specialization of this typically tropical tree.

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Section: Discussionmentioning

confidence: 86%

Molecular responses to freshwater limitation in the mangrove tree Avicennia germinans (Acanthaceae)

Cruz

Mori

et al. 2019

Preprint

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“…Mangrove roots are the first organs exposed to increased salinity and water deficits; thus, osmotic stress sensing and signalling to the whole plant are triggered (Chaves, Maroco, & Pereira, 2003;Janiak, Kwaśniewski, & Szarejko, 2016). Interestingly, functional categories associated with the detected transcriptome changes in PA-arid seedlings included various biological processes previously identified to be involved in central aspects of osmotic, heat and UV stress in model and nonmodel plants (Ding et al, 2013;Fan et al, 2018;Zhang et al, 2015). Interestingly, functional categories associated with the detected transcriptome changes in PA-arid seedlings included various biological processes previously identified to be involved in central aspects of osmotic, heat and UV stress in model and nonmodel plants (Ding et al, 2013;Fan et al, 2018;Zhang et al, 2015).…”

Section: Gradual Environmental Variation In Freshwater Availabilitymentioning

confidence: 99%

“…Moreover, these roots are photosynthesizing, contributing to carbon gain and enabling respiration in anaerobic soils, using both atmospheric and photosynthetically regenerated oxygen (Kitaya et al, 2002). Interestingly, functional categories associated with the detected transcriptome changes in PA-arid seedlings included various biological processes previously identified to be involved in central aspects of osmotic, heat and UV stress in model and nonmodel plants (Ding et al, 2013;Fan et al, 2018;Zhang et al, 2015). Being sessile under extreme environmental conditions, PA-arid plants should need to rapidly adjust gene expression to intermittent freshwater availability (Chaves, Flexas, & Pinheiro, 2009;Urban, Aarrouf, & Bidel, 2017).…”

Section: Gradual Environmental Variation In Freshwater Availabilitymentioning

confidence: 99%

Molecular responses to freshwater limitation in the mangrove tree Avicennia germinans (Acanthaceae)

Cruz

Mori

et al. 2019

Molecular Ecology

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Environmental variation along the geographical space can shape populations by natural selection. In the context of global warming and changing precipitation regimes, it is crucial to understand the role of environmental heterogeneity in tropical trees adaptation, given their disproportional contribution to water and carbon biogeochemical cycles. Here, we investigated how heterogeneity in freshwater availability along tropical wetlands has influenced molecular variations of the black mangrove (Avicennia germinans). A total of 57 trees were sampled at seven sites differing markedly in precipitation regime and riverine freshwater inputs. Using 2,297 genome-wide single nucleotide polymorphic markers, we found signatures of natural selection by the association between variations in allele frequencies and environmental variables, including the precipitation of the warmest quarter and the annual precipitation. Additionally, we found candidate loci for selection based on statistical deviations from neutral expectations of interpopulation differentiation. Most candidate loci within transcribed sequences were functionally associated with central aspects of drought tolerance or plant response to drought. Moreover, our results suggest the occurrence of the rapid evolution of a population, probably in response to sudden and persistent limitations in plant access to soil water, following a road construction in 1974. Observations supporting rapid evolution included the reduction in tree size and changes in allele frequencies and in transcript expression associated with increased drought tolerance through the accumulation of osmoprotectants and antioxidants, biosynthesis of cuticles, protection against protein degradation, stomatal closure, photorespiration and photosynthesis. We describe a major role of spatial heterogeneity in freshwater availability in the specialization of this typically tropical tree. K E Y W O R D SAvicennia germinans (Black Mangrove), drought-tolerance, ecological genomics, nextRAD, RNA-Seq, tropical tree | 345 CRUZ et al.

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“…The essential role of roots under the abiotic stresses is accompanied by the activation of transcriptome changes, which create a molecular network of responses, and some of its elements may improve plant tolerance to the stress. The spectrum of changes at the molecular level is very broad and includes the alteration of many metabolic pathways, the synthesis of osmoprotectants and antioxidants, or proteins involved in hormone signaling [3,4]. Any transcriptional change relies on the action of transcription factors (TFs) and other proteins that are responsible for gene expression regulation.…”

Section: Introductionmentioning

confidence: 99%

Insights into Barley Root Transcriptome under Mild Drought Stress with an Emphasis on Gene Expression Regulatory Mechanisms

Janiak

Kwaśniewski

Sowa

et al. 2019

IJMS

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Root systems play a pivotal role in coupling with drought stress, which is accompanied with a substantial transcriptome rebuilding in the root tissues. Here, we present the results of global gene expression profiling of roots of two barley genotypes with contrasting abilities to cope with drought that were subjected to a mild level of the stress. We concentrate our analysis on gene expression regulation processes, which allowed the identification of 88 genes from 39 families involved in transcriptional regulation in roots upon mild drought. They include 13 genes encoding transcription factors (TFs) from AP2 family represented by ERFs, DREB, or B3 domain-containing TFs, eight WRKYs, six NACs, five of the HD-domain, MYB or MYB-related, bHLH and bZIP TFs. Also, the representatives of C3H, CPP, GRAS, LOB-domain, TCP, Tiffy, Tubby, and NF-Ys TFs, among others were found to be regulated by the mild drought in barley roots. We found that drought tolerance is accompanied with a lower number of gene expression changes than the amount observed in a susceptible genotype. The better drought acclimation may be related to the activation of transcription factors involved in the maintenance of primary root growth and in the epigenetic control of chromatin and DNA methylation. In addition, our analysis pointed to fives TFs from ERF, LOB, NAC, WRKY and bHLH families that may be important in the mild but not the severe drought response of barley roots.

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Global analysis of gene expression profiles in physic nut (Jatropha curcas L.) seedlings exposed to drought stress

Cited by 61 publications

References 80 publications

Molecular responses to freshwater limitation in the mangrove tree Avicennia germinans (Acanthaceae)

Molecular responses to freshwater limitation in the mangrove tree Avicennia germinans (Acanthaceae)

Molecular responses to freshwater limitation in the mangrove tree Avicennia germinans (Acanthaceae)

Insights into Barley Root Transcriptome under Mild Drought Stress with an Emphasis on Gene Expression Regulatory Mechanisms

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