Transcriptomic response in foliar and root tissues of a drought-tolerant Eucalyptus globulus genotype under drought stress

Trees ◽  
2021 ◽  
Author(s):  
José Luis Ulloa ◽  
Paula Aguayo ◽  
Daniel Conejera ◽  
Rafael Rubilar ◽  
Claudio Balocchi ◽  
...  
Keyword(s):  
Drought Stress ◽  
Eucalyptus Globulus ◽  
Transcriptomic Response ◽  
Drought Tolerant ◽  
Root Tissues

scholarly journals New Insights in the Sugarcane Transcriptome Responding to Drought Stress as Revealed by Supersage

2012 ◽  
Vol 2012 ◽  
pp. 1-14 ◽  
Author(s):  
Éderson Akio Kido ◽  
José Ribamar Costa Ferreira Neto ◽  
Roberta Lane de Oliveira Silva ◽  
Valesca Pandolfi ◽  
Ana Carolina Ribeiro Guimarães ◽  
...  
Keyword(s):  
Drought Stress ◽  
Target Genes ◽  
Present Report ◽  
Transcriptome Profiling ◽  
Water Deficit Stress ◽  
New Genes ◽  
Drought Tolerant ◽  
Blastn Analysis ◽  
Root Tissues ◽  
Solexa Sequencing Technology

In the scope of the present work, four SuperSAGE libraries have been generated, using bulked root tissues from four drought-tolerant accessions as compared with four bulked sensitive genotypes, aiming to generate a panel of differentially expressed stress-responsive genes. Both groups were submitted to 24 hours of water deficit stress. The SuperSAGE libraries produced 8,787,315 tags (26 bp) that, after exclusion of singlets, allowed the identification of 205,975 unitags. Most relevant BlastN matches comprised 567,420 tags, regarding 75,404 unitags with 164,860 different ESTs. To optimize the annotation efficiency, the Gene Ontology (GO) categorization was carried out for 186,191 ESTs (BlastN against Uniprot-SwissProt), permitting the categorization of 118,208 ESTs (63.5%). In an attempt to elect a group of the best tags to be validated by RTqPCR, the GO categorization of the tag-related ESTs allowed thein silicoidentification of 213 upregulated unitags responding basically to abiotic stresses, from which 145 presented no hits after BlastN analysis, probably concerning new genes still uncovered in previous studies. The present report analyzes the sugarcane transcriptome under drought stress, using a combination of high-throughput transcriptome profiling by SuperSAGE with the Solexa sequencing technology, allowing the identification of potential target genes during the stress response.

Mitigation of drought stress in maize through inoculation with drought tolerant ACC deaminase containing PGPR under axenic conditions

2019 ◽  
Vol 52 (1) ◽  
Author(s):  
Subhan Danish ◽  
Muhammad Zafar-Ul-Hye ◽  
Shahid Hussain ◽  
Muhammad Riaz ◽  
Muhammad Farooq Qayyum
Keyword(s):  
Drought Stress ◽  
Acc Deaminase ◽  
Drought Tolerant ◽  
Axenic Conditions

scholarly journals Improving Drought Tolerance in Mungbean (Vigna radiata L. Wilczek): Morpho-Physiological, Biochemical and Molecular Perspectives

Agronomy ◽  
2021 ◽  
Vol 11 (8) ◽  
pp. 1534
Author(s):  
Chandra Mohan Singh ◽  
Poornima Singh ◽  
Chandrakant Tiwari ◽  
Shalini Purwar ◽  
Mukul Kumar ◽  
...  
Keyword(s):  
Drought Stress ◽  
Drought Tolerance ◽  
Crop Production ◽  
Mitigation Strategies ◽  
Theoretical Research ◽  
Whole Genome Sequence ◽  
Complex Nature ◽  
Drought Tolerant ◽  
Breeding Programmes ◽  
The Impact

Drought stress is considered a severe threat to crop production. It adversely affects the morpho-physiological, biochemical and molecular functions of the plants, especially in short duration crops like mungbean. In the past few decades, significant progress has been made towards enhancing climate resilience in legumes through classical and next-generation breeding coupled with omics approaches. Various defence mechanisms have been reported as key players in crop adaptation to drought stress. Many researchers have identified potential donors, QTLs/genes and candidate genes associated to drought tolerance-related traits. However, cloning and exploitation of these loci/gene(s) in breeding programmes are still limited. To bridge the gap between theoretical research and practical breeding, we need to reveal the omics-assisted genetic variations associated with drought tolerance in mungbean to tackle this stress. Furthermore, the use of wild relatives in breeding programmes for drought tolerance is also limited and needs to be focused. Even after six years of decoding the whole genome sequence of mungbean, the genome-wide characterization and expression of various gene families and transcriptional factors are still lacking. Due to the complex nature of drought tolerance, it also requires integrating high throughput multi-omics approaches to increase breeding efficiency and genomic selection for rapid genetic gains to develop drought-tolerant mungbean cultivars. This review highlights the impact of drought stress on mungbean and mitigation strategies for breeding high-yielding drought-tolerant mungbean varieties through classical and modern omics technologies.

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.

scholarly journals Comprehensive analysis and identification of drought-responsive candidate NAC genes in three semi-arid tropics (SAT) legume crops

BMC Genomics ◽  
2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Sadhana Singh ◽  
Himabindu Kudapa ◽  
Vanika Garg ◽  
Rajeev K. Varshney
Keyword(s):  
Drought Stress ◽  
Candidate Genes ◽  
Developmental Stages ◽  
Biological Activities ◽  
Expression Patterns ◽  
Genome Wide ◽  
Legume Crops ◽  
Root Tissues ◽  
Semi Arid ◽  
Comprehensive Study

Abstract Background Chickpea, pigeonpea, and groundnut are the primary legume crops of semi-arid tropics (SAT) and their global productivity is severely affected by drought stress. The plant-specific NAC (NAM - no apical meristem, ATAF - Arabidopsis transcription activation factor, and CUC - cup-shaped cotyledon) transcription factor family is known to be involved in majority of abiotic stresses, especially in the drought stress tolerance mechanism. Despite the knowledge available regarding NAC function, not much information is available on NAC genes in SAT legume crops. Results In this study, genome-wide NAC proteins – 72, 96, and 166 have been identified from the genomes of chickpea, pigeonpea, and groundnut, respectively, and later grouped into 10 clusters in chickpea and pigeonpea, while 12 clusters in groundnut. Phylogeny with well-known stress-responsive NACs in Arabidopsis thaliana, Oryza sativa (rice), Medicago truncatula, and Glycine max (soybean) enabled prediction of putative stress-responsive NACs in chickpea (22), pigeonpea (31), and groundnut (33). Transcriptome data revealed putative stress-responsive NACs at various developmental stages that showed differential expression patterns in the different tissues studied. Quantitative real-time PCR (qRT-PCR) was performed to validate the expression patterns of selected stress-responsive, Ca_NAC (Cicer arietinum - 14), Cc_NAC (Cajanus cajan - 15), and Ah_NAC (Arachis hypogaea - 14) genes using drought-stressed and well-watered root tissues from two contrasting drought-responsive genotypes of each of the three legumes. Based on expression analysis, Ca_06899, Ca_18090, Ca_22941, Ca_04337, Ca_04069, Ca_04233, Ca_12660, Ca_16379, Ca_16946, and Ca_21186; Cc_26125, Cc_43030, Cc_43785, Cc_43786, Cc_22429, and Cc_22430; Ah_ann1.G1V3KR.2, Ah_ann1.MI72XM.2, Ah_ann1.V0X4SV.1, Ah_ann1.FU1JML.2, and Ah_ann1.8AKD3R.1 were identified as potential drought stress-responsive candidate genes. Conclusion As NAC genes are known to play role in several physiological and biological activities, a more comprehensive study on genome-wide identification and expression analyses of the NAC proteins have been carried out in chickpea, pigeonpea and groundnut. We have identified a total of 21 potential drought-responsive NAC genes in these legumes. These genes displayed correlation between gene expression, transcriptional regulation, and better tolerance against drought. The identified candidate genes, after validation, may serve as a useful resource for molecular breeding for drought tolerance in the SAT legume crops.

scholarly journals Drought Tolerant near Isogenic Lines (NILs) of Pusa 44 Developed through Marker Assisted Introgression of qDTY2.1 and qDTY3.1 Enhances Yield under Reproductive Stage Drought Stress

Agriculture ◽  
2021 ◽  
Vol 11 (1) ◽  
pp. 64
Author(s):  
Priyanka Dwivedi ◽  
Naleeni Ramawat ◽  
Gaurav Dhawan ◽  
Subbaiyan Gopala Krishnan ◽  
Kunnummal Kurungara Vinod ◽  
...  
Keyword(s):  
Drought Stress ◽  
Drought Tolerance ◽  
Grain Quality ◽  
Reproductive Stage ◽  
Recurrent Parent ◽  
Near Isogenic Lines ◽  
Improvement Project ◽  
Isogenic Lines ◽  
Drought Tolerant ◽  
Rice Improvement

Reproductive stage drought stress (RSDS) is detrimental for rice, which affects its productivity as well as grain quality. In the present study, we introgressed two major quantitative trait loci (QTLs), namely, qDTY2.1 and qDTY3.1, governing RSDS tolerance in a popular high yielding non-aromatic rice cultivar, Pusa 44, through marker-assisted backcross breeding (MABB). Pusa 44 is highly sensitive to RSDS, which restricts its cultivation across drought-prone environments. Foreground selection was carried out using markers, RM520 for qDTY3.1 and RM 521 for qDTY2.1. Background selection was achieved with 97 polymorphic SSR markers in tandem with phenotypic selection to achieve faster recurrent parent genome (RPG) recovery. Three successive backcrosses followed by three selfings aided RPG recoveries of 98.6% to 99.4% among 31 near isogenic lines (NILs). Fourteen NILs were found to be significantly superior in yield and grain quality under RSDS with higher drought tolerance efficiency (DTE) than Pusa 44. Among these, the evaluation of two promising NILs in the multilocational trial during Kharif 2019 showed that they were significantly superior to Pusa 44 under reproductive stage drought stress, while performing on par with Pusa 44 under normal irrigated conditions. These di-QTL pyramided drought-tolerant NILs are in the final stages of testing the All India Coordinated Rice Improvement Project varietal trials for cultivar release. Alternately, the elite drought-tolerant Pusa 44 NILs will serve as an invaluable source of drought tolerance in rice improvement.

scholarly journals Genetic Diversity of Selected Rice Genotypes under Water Stress Conditions

Plants ◽  
2020 ◽  
Vol 10 (1) ◽  
pp. 27
Author(s):  
Mahmoud M. Gaballah ◽  
Azza M. Metwally ◽  
Milan Skalicky ◽  
Mohamed M. Hassan ◽  
Marian Brestic ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Water Stress ◽  
Drought Stress ◽  
Drought Tolerance ◽  
Ssr Markers ◽  
Similarity Index ◽  
Stress Conditions ◽  
Yield Potential ◽  
Drought Tolerant ◽  
Rice Genotypes

Drought is the most challenging abiotic stress for rice production in the world. Thus, developing new rice genotype tolerance to water scarcity is one of the best strategies to achieve and maximize high yield potential with water savings. The study aims to characterize 16 rice genotypes for grain and agronomic parameters under normal and drought stress conditions, and genetic differentiation, by determining specific DNA markers related to drought tolerance using Simple Sequence Repeats (SSR) markers and grouping cultivars, establishing their genetic relationship for different traits. The experiment was conducted under irrigated (normal) and water stress conditions. Mean squares due to genotype × environment interactions were highly significant for major traits. For the number of panicles/plants, the genotypes Giza179, IET1444, Hybrid1, and Hybrid2 showed the maximum mean values. The required sterility percentage values were produced by genotypes IET1444, Giza178, Hybrid2, and Giza179, while, Sakha101, Giza179, Hybrid1, and Hybrid2 achieved the highest values of grain yield/plant. The genotypes Giza178, Giza179, Hybrid1, and Hybrid2, produced maximum values for water use efficiency. The effective number of alleles per locus ranged from 1.20 alleles to 3.0 alleles with an average of 1.28 alleles, and the He values for all SSR markers used varied from 0.94 to 1.00 with an average of 0.98. The polymorphic information content (PIC) values for the SSR were varied from 0.83 to 0.99, with an average of 0.95 along with a highly significant correlation between PIC values and the number of amplified alleles detected per locus. The highest similarity coefficient between Giza181 and Giza182 (Indica type) was observed and are susceptible to drought stress. High similarity percentage between the genotypes (japonica type; Sakha104 with Sakha102 and Sakha106 (0.45), Sakha101 with Sakha102 and Sakha106 (0.40), Sakha105 with Hybrid1 (0.40), Hybrid1 with Giza178 (0.40) and GZ1368-S-5-4 with Giza181 (0.40)) was also observed, which are also susceptible to drought stress. All genotypes are grouped into two major clusters in the dendrogram at 66% similarity based on Jaccard’s similarity index. The first cluster (A) was divided into two minor groups A1 and A2, in which A1 had two groups A1-1 and A1-2, containing drought-tolerant genotypes like IET1444, GZ1386-S-5-4 and Hybrid1. On the other hand, the A1-2 cluster divided into A1-2-1 containing Hybrid2 genotype and A1-2-2 containing Giza179 and Giza178 at coefficient 0.91, showing moderate tolerance to drought stress. The genotypes GZ1368-S-5-4, IET1444, Giza 178, and Giza179, could be included as appropriate materials for developing a drought-tolerant variety breeding program. Genetic diversity to grow new rice cultivars that combine drought tolerance with high grain yields is essential to maintaining food security.

Genetic Dissection of Epistatic Interactions Contributing Grain Yield Variability in Rice under Drought

2021 ◽  
Vol 22 ◽  
Author(s):  
Ratna Rani Majumder ◽  
Nitika Sandhu ◽  
Shailesh Yadav ◽  
Margaret Catolos ◽  
Ma. Teresa Sta. Cruz ◽  
...  
Keyword(s):  
Drought Stress ◽  
Grain Yield ◽  
Genetic Background ◽  
Reproductive Stage ◽  
Yield Variability ◽  
Marker Interval ◽  
Negative Interaction ◽  
Epistatic Interactions ◽  
Lattice Design ◽  
Drought Tolerant

Aims: The aim of the present study was to evaluate the performance of ‘high’-‘low’ yielding pyramided lines (PLs) with the same combinations of qDTYs in Samba Mahsuri, MR219 and IR64-Sub1 genetic backgrounds and understand the genetic interactions of QTL and with genetic background affecting grain yield. Background: Epistasis regulates the expression of traits governed by several major/minor genes/QTL. Multiple pyramided lines (PLs) with the same grain yield QTL (qDTYs) combinations but possessing grain yield variability under different levels of reproductive stage drought stress were identified in different rice genetic backgrounds at International Rice Research Institute (IRRI). Objectives: The objectives of the present study were to evaluate the performance pyramided lines (PLs) with drought QTL in the backgrounds of Samba Mahsuri, MR219 and IR64-Sub1 under reproductive stage drought stress (RS) and NS (non-stress) conditions ii) to understand the effect of epistatic interactions of qDTYs and with genetic background on GY under the differential level of stress iii) to identify the promising drought-tolerant lines with high yield under drought and higher background recovery in different genetic backgrounds. Results: Several digenic interactions were found in different genetic backgrounds, 13 interactions in Samba Mahsuri, 11 in MR219 and 20 in IR64-Sub1 backgrounds. Among all digenic interactions, one QTL × QTL interaction, 17 QTL × background and 26 background × background interactions resulted in GY reduction in low yielding PLs in different genetic backgrounds under LSS or LMS. Negative interaction of qDTY3.1, qDTY4.1 and qDTY9.1 with background markers and background × background interactions caused up to 15% GY reduction compared to the high yielding PLs under LMS in the Samba Mahsuri PLs. In MR219 PLs, the negative interaction of qDTY2.2, qDTY3.2, qDTY4.1 and qDTY12.1 with the background marker interval RM314-RM539, RM273-RM349 and RM445-RM346, RM473D-RM16, respectively resulted in 52% GY reduction compared to the high yielding PLs under LSS. In IR64-Sub1 PLs, qDTY6.1 interacted with background loci at RM16-RM135, RM228-RM333, RM202-RM287 and RM415-RM558A marker interval under LSS; and at RM475-RM525 marker interval under LMS, causing GY reduction to 58% compared to the high yielding PLs. Conclusion: High yielding PLs in Samba Mahsuri (IR 99734:1-33-69-1-22-6), MR219 (IR 99784-156-87-2-4-1) and IR64-Sub1 (IR 102784:2-89-632-2-1-2) backgrounds without any negative interactions were identified. The identified selected promising PLs may be used as potential drought-tolerant donors or may be released as varieties for drought-prone ecosystems in different countries. Methods: The experiments were conducted in 2015DS (dry season), 2015WS (wet season) and 2017 DS at IRRI, Los Baños, Philippines, in a transplanted lowland ecosystem under lowland severe stress (LSS), moderate lowland stress (LMS) and lowland non-stress (LNS). The experiments were laid out in alpha lattice design with two replications.

scholarly journals Drought Stress in Grain Legumes: Effects, Tolerance Mechanisms and Management

Agronomy ◽  
2021 ◽  
Vol 11 (12) ◽  
pp. 2374
Author(s):  
Marium Khatun ◽  
Sumi Sarkar ◽  
Farzana Mustafa Era ◽  
A. K. M. Mominul Islam ◽  
Md. Parvez Anwar ◽  
...  
Keyword(s):  
Drought Stress ◽  
Drought Tolerance ◽  
Association Studies ◽  
Stomatal Closure ◽  
Grain Legumes ◽  
Grain Legume ◽  
Developmental Cycle ◽  
Genome Wide Association Studies ◽  
Tolerance Mechanisms ◽  
Drought Tolerant

Grain legumes are important sources of proteins, essential micronutrients and vitamins and for human nutrition. Climate change, including drought, is a severe threat to grain legume production throughout the world. In this review, the morpho-physiological, physio-biochemical and molecular levels of drought stress in legumes are described. Moreover, different tolerance mechanisms, such as the morphological, physio-biochemical and molecular mechanisms of legumes, are also reviewed. Moreover, various management approaches for mitigating the drought stress effects in grain legumes are assessed. Reduced leaf area, shoot and root growth, chlorophyll content, stomatal conductance, CO2 influx, nutrient uptake and translocation, and water-use efficiency (WUE) ultimately affect legume yields. The yield loss of grain legumes varies from species to species, even variety to variety within a species, depending upon the severity of drought stress and several other factors, such as phenology, soil textures and agro-climatic conditions. Closure of stomata leads to an increase in leaf temperature by reducing the transpiration rate, and, so, the legume plant faces another stress under drought stress. The biosynthesis of reactive oxygen species (ROS) is the most detrimental effect of drought stress. Legumes can adapt to the drought stress by changing their morphology, physiology and molecular mechanism. Improved root system architecture (RSA), reduced number and size of leaves, stress-induced phytohormone, stomatal closure, antioxidant defense system, solute accumulation (e.g., proline) and altered gene expression play a crucial role in drought tolerance. Several agronomic, breeding both conventional and molecular, biotechnological approaches are used as management practices for developing a drought-tolerant legume without affecting crop yield. Exogenous application of plant-growth regulators (PGRs), osmoprotectants and inoculation by Rhizobacteria and arbuscular mycorrhizal fungi promotes drought tolerance in legumes. Genome-wide association studies (GWASs), genomic selection (GS), marker-assisted selection (MAS), OMICS-based technology and CRISPR/Cas9 make the breeding work easy and save time in the developmental cycle to get resistant legumes. Several drought-resistant grain legumes, such as the chickpea, faba bean, common bean and pigeon pea, were developed by different institutions. Drought-tolerant transgenic legumes, for example, chickpeas, are developed by introgressing desired genes through breeding and biotechnological approaches. Several quantitative trait loci (QTLs), candidate genes occupying drought-tolerant traits, are identified from a variety of grain legumes, but not all are under proper implementation. Hence, more research should be conducted to improve the drought-tolerant traits of grain legumes for avoiding losses during drought.

scholarly journals Physiological Responses under Drought Stress of Improved Drought-Tolerant Rice Lines and their Parents

2018 ◽  
Vol 46 (2) ◽  
pp. 679-687 ◽  
Author(s):  
Preeyanuch LARKUNTHOD ◽  
Noppawan NOUNJAN ◽  
Jonaliza L SIANGLIW ◽  
Theerayut TOOJINDA ◽  
Jirawat SANITCHON ◽  
...  
Keyword(s):  
Drought Stress ◽  
Drought Tolerance ◽  
Water Status ◽  
Physiological Responses ◽  
High Water ◽  
Recurrent Parent ◽  
Potential Candidate ◽  
Substitution Lines ◽  
Chromosome Segment Substitution Lines ◽  
Drought Tolerant

Many of the economically important rice cultivars including ‘Khao Dawk Mali 105’ (KDML105) or jasmine rice, one of the world’s famous rice exported from Thailand suffers from drought due to erratic rainfalls and limited irrigation. To improve drought tolerance and reserve genetic background of KDML105, chromosome segment substitution lines (CSSL) containing drought tolerant quantitative trait loci (DT-QTL) has been previously developed by backcrossing between KDML105 and drought tolerant donor, IR58586-F2-CA-143 (DH212). To understand the physiological responses related to drought tolerance in CSSL lines compared to parents, two CSSLs namely CSSL1-16 and CSSL1-18, respectively were used in this study. Twenty-one-d-old hydroponically grown plants were subjected to 20% PEG for 0, 7, 14 d and then recovered from stress for 3 d. The results indicated that CSSL lines especially, CSSL1-16 showed better performance under drought stress compared to their recurrent parent. Drought tolerance superior CSSL1-16 line was indicated by high water status (high relative water content and leaf water potential), good osmotic adjustment, high proline and greater membrane stability. Moreover, this line was able to resume growth after stress recovery whereas other lines/cultivar could not recover. Similarly, drought tolerant donor showed high water status suggesting that well-maintained plant water status was associated with drought tolerant trait. It could be concluded that the highest drought tolerant line was CSSL1-16 followed by DH212, CSSL1-18 and KDML105. It would be interesting to go further into introgressed section in CSSL1-16 to identify potential candidate genes in DT-QTL for breeding drought tolerant rice in the future.

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