scholarly journals Genome-Wide Identification and Characterization of Drought Stress Responsive microRNAs in Tibetan Wild Barley

2020 ◽  
Vol 21 (8) ◽  
pp. 2795
Author(s):  
Cheng-Wei Qiu ◽  
Li Liu ◽  
Xue Feng ◽  
Peng-Fei Hao ◽  
Xiaoyan He ◽  
...  
Keyword(s):  
Drought Stress ◽  
Drought Tolerance ◽  
Target Genes ◽  
Wild Barley ◽  
Expression Profiles ◽  
Tibetan Wild Barley ◽  
Drought Tolerant ◽  
Genome Wide ◽  
Barley Genotypes

Drought stress is a major obstacle to agricultural production. Tibetan wild barley with rich genetic diversity is useful for drought-tolerant improvement of cereals. MicroRNAs (miRNAs) play critical roles in controlling gene expression in response to various environment perturbations in plants. However, the genome-wide expression profiles of miRNAs and their targets in response to drought stress are largely unknown in wild barley. In this study, a polyethylene glycol (PEG) induced drought stress hydroponic experiment was performed, and the expression profiles of miRNAs from the roots of two contrasting Tibetan wild barley genotypes XZ5 (drought-tolerant) and XZ54 (drought-sensitive), and one cultivated barley Tadmor (drought-tolerant) generated by high-throughput sequencing were compared. There were 69 conserved miRNAs and 1574 novel miRNAs in the dataset of three genotypes under control and drought conditions. Among them, seven conserved miRNAs and 36 novel miRNAs showed significantly genotype-specific expression patterns in response to drought stress. And 12 miRNAs were further regarded as drought tolerant associated miRNAs in XZ5, which mostly participate in gene expression, metabolism, signaling and transportation, suggesting that they and their target genes play important roles in plant drought tolerance. This is the first comparation study on the miRNA transcriptome in the roots of two Tibetan wild barley genotypes differing in drought tolerance and one drought tolerant cultivar in response to PEG treatment. Further results revealed the candidate drought tolerant miRNAs and target genes in the miRNA regulation mechanism in wild barley under drought stress. Our findings provide valuable understandings for the functional characterization of miRNAs in drought tolerance.

scholarly journals Response of Tibetan Wild Barley Genotypes to Drought Stress and Identification of Quantitative Trait Loci by Genome-Wide Association Analysis

2019 ◽  
Vol 20 (3) ◽  
pp. 791
Author(s):  
Mian Zhang ◽  
Man-Man Fu ◽  
Cheng-Wei Qiu ◽  
Fangbin Cao ◽  
Zhong-Hua Chen ◽  
...  
Keyword(s):  
Genetic Variation ◽  
Drought Stress ◽  
Drought Tolerance ◽  
Quantitative Trait ◽  
Wild Barley ◽  
Genome Wide Association ◽  
Dart Markers ◽  
Tibetan Wild Barley ◽  
Genome Wide ◽  
Barley Genotypes

Tibetan wild barley has been identified to show large genetic variation and stress tolerance. A genome-wide association (GWA) analysis was performed to detect quantitative trait loci (QTLs) for drought tolerance using 777 Diversity Array Technology (DArT) markers and morphological and physiological traits of 166 Tibetan wild barley accessions in both hydroponic and pot experiments. Large genotypic variation for these traits was found; and population structure and kinship analysis identified three subpopulations among these barley genotypes. The average LD (linkage disequilibrium) decay distance was 5.16 cM, with the minimum on 6H (0.03 cM) and the maximum on 4H (23.48 cM). A total of 91 DArT markers were identified to be associated with drought tolerance-related traits, with 33, 26, 16, 1, 3, and 12 associations for morphological traits, H+K+-ATPase activity, antioxidant enzyme activities, malondialdehyde (MDA) content, soluble protein content, and potassium concentration, respectively. Furthermore, 7 and 24 putative candidate genes were identified based on the reference Meta-QTL map and by searching the Barleymap. The present study implicated that Tibetan annual wild barley from Qinghai–Tibet Plateau is rich in genetic variation for drought stress. The QTLs detected by genome-wide association analysis could be used in marker-assisting breeding for drought-tolerant barley genotypes and provide useful information for discovery and functional analysis of key genes in the future.

scholarly journals Mechanistic Insights into Potassium-Conferred Drought Stress Tolerance in Cultivated and Tibetan Wild Barley: Differential Osmoregulation, Nutrient Retention, Secondary Metabolism and Antioxidative Defense Capacity

2021 ◽  
Vol 22 (23) ◽  
pp. 13100
Author(s):  
Shafaque Sehar ◽  
Muhammad Faheem Adil ◽  
Muhammad Zeeshan ◽  
Paul Holford ◽  
Fangbin Cao ◽  
...  
Keyword(s):  
Drought Stress ◽  
Wild Barley ◽  
Turgor Pressure ◽  
Nutrient Retention ◽  
Photosynthetic Parameters ◽  
Chlorophyll Contents ◽  
Tibetan Wild Barley ◽  
Drought Tolerant ◽  
Activity Enhancement ◽  
Barley Genotypes

Keeping the significance of potassium (K) nutrition in focus, this study explores the genotypic responses of two wild Tibetan barley genotypes (drought tolerant XZ5 and drought sensitive XZ54) and one drought tolerant barley cv. Tadmor, under the exposure of polyethylene glycol-induced drought stress. The results revealed that drought and K deprivation attenuated overall plant growth in all the tested genotypes; however, XZ5 was least affected due to its ability to retain K in its tissues which could be attributed to the smallest reductions of photosynthetic parameters, relative chlorophyll contents and the lowest Na+/K+ ratios in all treatments. Our results also indicate that higher H+/K+-ATPase activity (enhancement of 1.6 and 1.3-fold for shoot; 1.4 and 2.5-fold for root), higher shoot K+ (2 and 2.3-fold) and Ca2+ content (1.5 and 1.7-fold), better maintenance of turgor pressure by osmolyte accumulation and enhanced antioxidative performance to scavenge ROS, ultimately suppress lipid peroxidation (in shoots: 4% and 35%; in roots 4% and 20% less) and bestow higher tolerance to XZ5 against drought stress in comparison with Tadmor and XZ54, respectively. Conclusively, this study adds further evidence to support the concept that Tibetan wild barley genotypes that utilize K efficiently could serve as a valuable genetic resource for the provision of genes for improved K metabolism in addition to those for combating drought stress, thereby enabling the development of elite barley lines better tolerant of abiotic stresses.

scholarly journals Genome wide identification and characterization of light-harvesting Chloro a/b binding (LHC) genes reveals their potential role in enhancing drought tolerance in Gossypium hirsutum

2021 ◽  
Vol 4 (1) ◽  
Author(s):  
Teame Gereziher MEHARI ◽  
Yanchao XU ◽  
Richard Odongo MAGWANGA ◽  
Muhammad Jawad UMER ◽  
Joy Nyangasi KIRUNGU ◽  
...  
Keyword(s):  
Drought Stress ◽  
Gossypium Hirsutum ◽  
Abiotic Stresses ◽  
Substitution Rate ◽  
Synonymous Substitution ◽  
Synonymous Substitution Rate ◽  
Drought Tolerant ◽  
Genome Wide ◽  
Identification And Characterization

Abstract Background Cotton is an important commercial crop for being a valuable source of natural fiber. Its production has undergone a sharp decline because of abiotic stresses, etc. Drought is one of the major abiotic stress causing significant yield losses in cotton. However, plants have evolved self-defense mechanisms to cope abiotic factors like drought, salt, cold, etc. The evolution of stress responsive transcription factors such as the trihelix, a nodule-inception-like protein (NLP), and the late embryogenesis abundant proteins have shown positive response in the resistance improvement to several abiotic stresses. Results Genome wide identification and characterization of the effects of Light-Harvesting Chloro a/b binding (LHC) genes were carried out in cotton under drought stress conditions. A hundred and nine proteins encoded by the LHC genes were found in the cotton genome, with 55, 27, and 27 genes found to be distributed in Gossypium hirsutum, G. arboreum, and G. raimondii, respectively. The proteins encoded by the genes were unevenly distributed on various chromosomes. The Ka/Ks (Non-synonymous substitution rate/Synonymous substitution rate) values were less than one, an indication of negative selection of the gene family. Differential expressions of genes showed that majority of the genes are being highly upregulated in the roots as compared with leaves and stem tissues. Most genes were found to be highly expressed in MR-85, a relative drought tolerant germplasm. Conclusion The results provide proofs of the possible role of the LHC genes in improving drought stress tolerance, and can be explored by cotton breeders in releasing a more drought tolerant cotton varieties.

Evaluation of wild barley species as possible sources of drought tolerance for arid environments

2017 ◽  
Vol 16 (3) ◽  
pp. 209-217 ◽  
Author(s):  
Mohammad Barati ◽  
Mohammad Mahdi Majidi ◽  
Fateme Mostafavi ◽  
Aghafakhr Mirlohi ◽  
Maryam Safari ◽  
...  
Keyword(s):  
Drought Stress ◽  
Drought Tolerance ◽  
Wild Species ◽  
Wild Barley ◽  
Principal Component ◽  
Kernel Weight ◽  
Stress Conditions ◽  
Wild Plants ◽  
Arid Environments ◽  
Barley Genotypes

AbstractIn this study, agro-morphological and yield-related traits associated with drought tolerance in 80 barley genotypes belonging to 15 wild species together with the cultivated one, and their potential to improve adaptation to different levels of drought stress conditions (moisture environments) were studied. There was significant genetic variation among the genotypes and species for all of the measured traits, as well as differential responses of genotypes across environments. The results indicated high variation for grain yield (GY) under drought stress among the genotypes, and that some of the wild genotypes had consistently superior specific adaptation to the water stress conditions. The genotypes belong to wild barley species, especially Hordeum murinum and Hordeum marinum had lower GY but relatively higher yield stability under different environments. Traits such as number of seed per plant and hundred kernel weight were positively correlated with GY in all of the environments. High negative correlation between GY and days to ripening was observed only under intense drought environment, showing drought escape as a strategy of wild plants under highly stressed conditions. Grouping of the genotypes by principal component analysis completely separated cultivated barley and its progenitor (Hordeum vulgare ssp. spontaneum) from other wild genotypes; however, the other wild species were slightly separated from each other. In addition, the Iranian and foreign genotypes did not completely separate from each other. The identified wild barley genotypes with favourable characters and high drought tolerance could be used in genetic studies and barley improvement programmes especially for drought stress.

Distinct morpho-physiological and biochemical features of arid and hyper-arid ecotypes of Ziziphus nummularia under drought suggest its higher tolerance compared to semi-arid ecotype

2021 ◽  
Author(s):  
P N Sivalingam ◽  
Mahesh M Mahajan ◽  
Viswanathan Satheesh ◽  
Sarita Chauhan ◽  
Harish Changal ◽  
...  
Keyword(s):  
Drought Stress ◽  
Drought Tolerance ◽  
Expression Profiles ◽  
Sugar Content ◽  
Crop Improvement ◽  
Annual Rainfall ◽  
Drought Tolerant ◽  
Ziziphus Nummularia ◽  
Physiological And Biochemical ◽  
Semi Arid

Abstract Tree species in the arid and semi-arid regions use various strategies to combat drought stress. Ziziphus nummularia, native to the Thar Desert in India, is highly drought-tolerant. To identify the most drought-tolerant ecotype of Z. nummularia, one ecotype each from semi-arid (Godhra, annual rainfall > 750 mm), arid (Bikaner, 250–350 mm) and hyper-arid (Jaisalmer, < 150 mm) regions was selected along with two other Ziziphus species; Z. mauritiana and Z. rotundifolia, and screened for parameters contributing to drought tolerance. Among these, Z. nummularia (Jaisalmer) (CIAHZN-J) was the most drought-tolerant. The tolerance nature of CIAHZN-J was associated with increased membrane stability, root length and number, length of hairs and thorns, root dry/fresh weight ratio, seed germination (at −0.5 MPa), proline content (31 fold), catalase and sugar content (2 to 3 fold). Apart from these characteristics, it also exhibited the longest duration to reach highest cumulative drought stress rating, maintained higher relative water content for a longer period of time with reduced leaf size, leaf rolling and falling of older leaves, and displayed sustained shoot growth during drought stress. To determine drought tolerance in Ziziphus, we developed a morphological symptom-based screening technique in this study. Additionally, transcriptome profiling of CIAHZN-J in response to drought revealed the up-regulation of genes involved in sugar metabolism and transport, ABA biosynthesis, osmo-regulation, ROS homeostasis and maintaining water potential. Expression profiles and semi-quantitative reverse transcription PCR results further correlated with the physiological and biochemical mechanisms. In conclusion, CIAHZN-J is an excellent genetic stock for the identification of drought-responsive genes and can also be deployed in crop improvement programmes for drought tolerance.

scholarly journals The Effect of Drought on Transcriptome and Hormonal Profiles in Barley Genotypes With Contrasting Drought Tolerance

2020 ◽  
Vol 11 ◽  
Author(s):  
Amal Harb ◽  
Craig Simpson ◽  
Wenbin Guo ◽  
Ganesan Govindan ◽  
Vijaya Gopal Kakani ◽  
...  
Keyword(s):  
Drought Tolerance ◽  
Expression Profiles ◽  
Gene Expression Profiles ◽  
Biomass Accumulation ◽  
Net Photosynthesis ◽  
Betaine Aldehyde Dehydrogenase ◽  
Transcriptional Responses ◽  
Drought Tolerant ◽  
Hormonal Profiles ◽  
Barley Genotypes

Like many cereal crops, barley is also negatively affected by drought stress. However, due to its simple genome as well as enhanced stress resilient nature compared to rice and wheat, barley has been considered as a model to decipher drought tolerance in cereals. In the present study, transcriptomic and hormonal profiles along with several biochemical features were compared between drought-tolerant (Otis) and drought-sensitive (Baronesse) barley genotypes subjected to drought to identify molecular and biochemical differences between the genotypes. The drought-induced decrease in the leaf relative water content, net photosynthesis, and biomass accumulation was relatively low in Otis compared to Baronesse. The hormonal profiles did not reveal significant differences for majority of the compounds other than the GA20 and the cis-zeatin-o-glucoside (c-ZOG), whose levels were greatly increased in Otis compared to Baronesse under drought. The major differences that emerged from the transcriptome analysis are; (1), the overall number of differentially expressed genes was relatively low in drought-tolerant Otis compared to drought-sensitive Baronesse; (2), a wax biosynthesis gene (CER1), and NAC transcription factors were specifically induced in Otis but not in Baronesse; (3), the degree of upregulation of betaine aldehyde dehydrogenase and a homeobox transcription factor (genes with proven roles in imparting drought tolerance), was greater in Otis compared to Baronesse; (4) the extent of downregulation of gene expression profiles for proteins of the reaction center photosystem II (PSII) (D1 and D2) was low in Otis compared to Baronesse; and, (5), alternative splicing (AS) was also found to differ between the genotypes under drought. Taken together, the overall transcriptional responses were low in drought-tolerant Otis but the genes that could confer drought tolerance were either specifically induced or greatly upregulated in the tolerant genotype and these differences could be important for drought tolerance in barley.

scholarly journals Single Nucleotide Polymorphisms in Bmy1 Intron III Alleles Conferring the Genotypic Variation in β-amylase Activity under Drought Stress Between Tibetan Wild and Cultivated Barley

2021 ◽  
Author(s):  
Xiaojian Wu ◽  
Huan Wang ◽  
Fanrong Zeng ◽  
Junmei Wang
Keyword(s):  
Amino Acid ◽  
Drought Stress ◽  
Wild Barley ◽  
Amylase Activity ◽  
Genotypic Variation ◽  
Nucleotide Polymorphisms ◽  
Unique Amino Acid Substitution ◽  
Tibetan Wild Barley ◽  
Cultivated Barley ◽  
Barley Genotypes

Abstract β-amylase activity is related to the polymorphism of Bmy1 intron III; however, no attention has been given to such relationship under environmental stresses like drought. In this study, 73 cultivated barley genotypes and 52 Tibetan wild barley accessions were used to test the association between Bmy1 gene intron III polymorphisms and β-amylase activity under drought stress. Our results showed that three alleles, Bmy1.a, Bmy1.b and Bmy1.c, existed in the examined barley genotypes. Tibetan wild barley had higher proportion of Bmy1.b, whereas cultivated barley showed higher proportion of Bmy1.a. Impressively, barley genotypes with Bmy1.b showed significant increase in β-amylase activity under drought stress, compared with those with Bmy1.a or Bmy1.c, indicating that Bmy1.b allele might provide more chances for developing barley cultivars with higher β-amylase activity under water stress than both Bmy1.a and Bmy1.c alleles. Furthermore, the Tibetan wild barley XZ147, belonging to Bmy1.b allele type, showed significant higher β-amylase activity than the cultivar Triumph under drought stress. This might result from the unique amino acid substitution M527 or the amino acid composition of R115, D165, A233, S347 and M527 of XZ147.

scholarly journals Genome Wide Identification and Characterization of Light-Harvesting Chloro a/b Binding Genes Reveals their Potential Role in Enhancing Drought Tolerance in Gossypium hirsutum

2020 ◽  
Author(s):  
Teame Gereziher ◽  
Yanchao Xu ◽  
Richard Odongo Magwanga ◽  
Joy Nyangasi Kirungu ◽  
Xiaoyan Cai ◽  
...  
Keyword(s):  
Abiotic Stress ◽  
Drought Stress ◽  
Gossypium Hirsutum ◽  
Natural Fiber ◽  
Light Harvesting ◽  
Drought Tolerant ◽  
Genome Wide ◽  
Lhc Genes ◽  
Identification And Characterization

Abstract BackgroundCotton is an important commercial crop for its valuable source of natural fiber. Its production has undergone a sharp failure because of abiotic stress influences, of significance is drought. Moreover, plants have evolved self-defense mechanisms against the effects of several ways of abiotic factors like drought, salt, cold among others. The evolution of stress responsive transcription factors such as the trihelix, a nodule-inception-like protein (NLP), the late embryogenesis abundant (LEA) proteins among others have shown positive response in improving resistance to several forms of abiotic stress features.ResultsGenome wide identification and characterization of the effects of Light-Harvesting Chloro a/b binding (LHC) genes was carried out in cotton under drought stress conditions. A hundred and nine proteins encoded by the LHC genes were found in the cotton genome, with 55, 27, and 27 genes found to be distributed in Gossypium hirsutum, G. arboreum, and G. raimondii, respectively. The proteins encoded by the genes were unevenly distributed in various chromosomes. The Ka/Ks values were less than one, and an indication of negative selection of the gene family. differential expression arrangement of genes was showed with the majority of the genes being highly upregulated in the root tissues in relative to leave and stem tissues. Moreover, more genes were induced in M85 a relative drought tolerant germplasm.Conclusion:The results provide proof of the possible role of the LHC genes in improving drought stress tolerance, and can be explored by cotton breeders in releasing a more drought tolerant cotton germplasms.

scholarly journals Genome-wide analysis of maize OSCA family members and their involvement in drought stress

PeerJ ◽  
2019 ◽  
Vol 7 ◽  
pp. e6765 ◽  
Author(s):  
Shuangcheng Ding ◽  
Xin Feng ◽  
Hewei Du ◽  
Hongwei Wang
Keyword(s):  
Genetic Variation ◽  
Drought Stress ◽  
Drought Tolerance ◽  
Gene Family ◽  
Association Analysis ◽  
Expression Profiles ◽  
Protein Domain ◽  
Maize Genome ◽  
Genome Wide ◽  
A Genome

Background Worldwide cultivation of maize is often impacted negatively by drought stress. Hyperosmolality-gated calcium-permeable channels (OSCA) have been characterized as osmosensors in Arabidopsis. However, the involvement of members of the maize OSCA (ZmOSCA) gene family in response to drought stress is unknown. It is furthermore unclear which ZmOSCA gene plays a major role in genetic improvement of drought tolerance in Maize. Methods We predicted the protein domain structure and transmembrane regions by using the NCBI Conserved Domain Database database and TMHMM server separately. The phylogeny tree was built by Mega7. We used the mixed linear model in TASSEL to perform the family-based association analysis. Results In this report, 12 ZmOSCA genes were uncovered in the maize genome by a genome-wide survey and analyzed systematically to reveal their synteny and phylogenetic relationship with the genomes of rice, maize, and sorghum. These analyses indicated a relatively conserved evolutionary history of the ZmOSCA gene family. Protein domain and transmembrane analysis indicated that most of the 12 ZmOSCAs shared similar structures with their homologs. The result of differential expression analysis under drought at various stages, as well as the expression profiles in 15 tissues, revealed a functional divergence of ZmOSCA genes. Notably, the expression level of ZmOSCA4.1 being up-regulated in both seedlings and adult leaves. Notably, the association analysis between genetic variations in these genes and drought tolerance was detected. Significant associations between genetic variation in ZmOSCA4.1 and drought tolerance were found at the seedling stage. Our report provides a detailed analysis of the ZmOSCAs in the maize genome. These findings will contribute to future studies on the functional characterization of ZmOSCA proteins in response to water deficit stress, as well as understanding the mechanism of genetic variation in drought tolerance in maize.

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