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Comparative transcriptomic and epigenetic analyses reveal conserved and divergent regulatory pathways in barley response to temperature stresses

Research Abstract

DNA methylation and histone modification enable plants to rapidly adapt to adverse temperature stresses, including low temperature (LT) and high temperature (HT) stress. In this study, we conducted physiological, epigenetic, and transcriptomic analyses of barley seedlings grown under control (22°C), mild low temperature (MLT, 14°C) and HT (38°C) conditions to elucidate the underlying molecular mechanisms. Compared to MLT, HT implies greater deleterious effects on barley seedlings' growth. The methylation-sensitive amplification polymorphism analysis showed that MLT induced more DNA methylation and HT more DNA demethylation compared to control. Besides, the higher levels of H3K9ac and H3K4me3 under HT compared to MLT stresses might lead to the loosening of chromatin and, subsequently, the activation of gene expression. Consistently, the transcriptome analysis revealed that there were more differentially expressed genes (DEGs) in plants subjected to HT stress than MLT stress compared to control. The common and unique pathways of these DEGs between MLT and HT were also analyzed. Transcription factors, such as ERF, bHLH, NAC, HSF, and MYB, were most involved in MLT and HT stress. The underlying gene regulation networks of epigenetic modulation-related genes were further explored by weight gene co-expression network analysis. Our study provides new insights into the understanding of epigenetic regulation responses to temperature stress in barley, which will lead to improved strategies for the development of cold- and heat-tolerant barley varieties for sustainable barley production in a climate-changing world.

Research Authors
Bo Li, Caixian Yang, Bingzhuang An, Hongpan Wang, Mohammed Albaqami, Salah Fatouh Abou‐Elwafa, Le Xu, Yanhao Xu
Research Date
Research Department
Research Journal
Physiologia Plantarum
Research Publisher
Blackwell Publishing Ltd
Research Rank
Q1
Research Vol
174
Research Website
https://onlinelibrary.wiley.com/doi/full/10.1111/ppl.13727
Research Year
2022

Comparison of short-duration and long-duration rice cultivars cultivated in various planting densities

Research Abstract

The selection of high-yielding, short-duration rice cultivars is essential for the double-rice cropping system. High hill density could be achieved with less labor under machine transplanted conditions. Therefore, dense planting is more practical for machine-transplanted rice. While few studies have been conducted to certify the feasibility of short-duration cultivar combined with dense planting in machine transplanted conditions. The current study was executed to determine the effects of dense planting on yield attributes and grain yield of short-duration cultivars under mechanically transplanted conditions. A field experiment comprises two treatments—i.e., the short-duration cultivar Lingliangyou104 cultivated at a high planting density (SDH) and the long-duration Taiyou390 cultivar cultivated at a low planting density (LDL)—were conducted in the 2018 and 2019 late seasons. The results showed that the SDH exhibited 17% and 19% higher panicle number in a unit, 26% and 24% higher spikelet filling, 8% and 8% higher grain weight, 21% and 11% higher harvest index, and consequently 12% and 4% higher grain yield and 13 and 15 days shortened growth duration compared to the LDL in the 2018 and 2019, respectively. The data revealed that the difference in grain yield between the SDH and LDL was mainly due to the higher harvest index and reasonable dry matter distribution of the SDH, which was conducive to improving yield components and increasing rice grain yield. As a result, short-duration rice cultivars combined with dense planting is a feasible strategy for improving the grain yield of mechanically transplanted late rice.

Research Authors
Jiana Chen, Fangbo Cao, Yu Liu, Zui Tao, Tao Lei, Salah Fatouh Abou-Elwafa, Min Huang
Research Date
Research Department
Research Journal
Agronomy
Research Pages
1739
Research Publisher
MDPI
Research Rank
Q1
Research Vol
12
Research Website
https://www.mdpi.com/2073-4395/12/8/1739
Research Year
2022

Application of Molasses as an Eco-Innovative Approach Substitutes Mineral Nitrogen Fertilization and Enhances Sugar Beet Productivity

Research Abstract

Purpose

Large quantities of byproducts are produced from beet sugar industry causing deleterious environmental pollution. This study aimed to evaluate the surface and foliar application of molasses and vinasses as an eco-innovative amendment and nutritional supplements on sugar beet yield and quality.

Methods

The yield and root juice quality of two sugar beet varieties were evaluated for two growing seasons under nine fertilization and soil amendment application treatments.

Results

Application of molasses to the soil has significantly promoted root yield, with the highest root yield resulting from the application of 360 L ha−1 of molasses to the soil. Likewise, the highest values of sucrose content, quality index (QZ)%, recoverable sugar (RS) % and recoverable sugar yield were produced from the application of 360 L ha−1 of molasses. Moreover, the lowest Na%, K% and α-amino N% values in both varieties resulted from the surface application of 360 L ha−1 molasses. Compared to the control treatment, applying 360 L ha−1 of molasses improved the available N, P and K as well as the organic matter, calcium and magnesium contents in the soil.

Conclusions

Beet sugar molasses could be applied to the soil surface as a soil amendment and a substitute for the application of inorganic nitrogen and phosphorus fertilizers. Molasses is a promising eco-friendly soil amendment that greatly enhances sugar beet productivity and biofortification by improving the physical and chemical properties of the soil.

Research Authors
Sami A Al-Dhumri, Mobarak S Al Mosallam, Wenying Zhang, Saif Alharbi, Salah F Abou-Elwafa
Research Date
Research Department
Research Journal
Waste and Biomass Valorization
Research Pages
287-296
Research Publisher
Springer Netherlands
Research Rank
Q2
Research Vol
14
Research Website
https://link.springer.com/article/10.1007/s12649-022-01873-z
Research Year
2022

Genome-wide identification of cold-tolerance genes and functional analysis of IbbHLH116 gene in sweet potato

Research Abstract

Sweet potato (Ipomoea batatas L.) originated from South America; therefore, it is vulnerable to low temperature. Here, the evolutionary analysis of 22 cold-responsive genes in 35 plant species revealed that the identified MYC-type basic helix-loop-helix (bHLH) transcription factors exhibit diverse structures. We found that the number of bHLH gene family members was significantly lower than that of cold-tolerant species. We further systematically evaluated the gene structure, promoter analysis, synteny analysis, and expression pattern of 28 bHLH gene family members in sweet potato. The basic helix-loop-helix protein 116 (IbbHLH116) has the closest phylogeny to the AtICE1 protein of Athaliana. However, the IbbHLH116 protein from cold-tolerant variety FS18 showed a 37.90% of sequence homology with AtICE1 protein. Subcellular localization analysis showed that IbbHLH116 is localized in the nucleus. The transcripts of IbbHLH116 were highly accumulated in cold-tolerant genotype FS18, particularly in new leaves and stems, compared to the cold-sensitive genotype NC1 under cold stress. Overexpression of IbbHLH116 in the wild type (Col-0) A. thaliana significantly enhanced cold tolerance in transgenic plants by regulating activities of oxidative protective enzymes, such as peroxidase (POD), superoxide dismutase (SOD), and the contents of malondialdehyde (MDA), proline and soluble proteins. Moreover, overexpression of IbbHLH116 in ice1 mutant A. thaliana fully rescued the cold-sensitive phenotype by promoting the expression of C-repeat binding factors 3 (CBF3). Overexpression of IbbHLH116 in the sweet potato callus also induced the expression of CBF3 under low temperature. These results imply that IbbHLH116 can perform the function of the ICE1 gene in conferring cold tolerance in sweet potato.

Research Authors
Rui Pan, Sebastian Buitrago, Ying Peng, Salah Fatouh Abou-Elwafa, Kui Wan, Yi Liu, Rongsen Wang, Xinsun Yang, Wenying Zhang
Research Date
Research Department
Research Journal
Gene
Research Publisher
ELSEVIER
Research Rank
Q1
Research Vol
837
Research Website
https://www.sciencedirect.com/science/article/pii/S0378111922005091
Research Year
2022

A multienvironmental evaluation of the N, P and K use efficiency of a large wheat diversity panel

Research Abstract

Although the genotypic variation of nutrient use efficiency of bread wheat has been a focus of many previous studies, this variation may largely depend on the growth environment and the range of wheat cultivars being investigated. The present study aimed to examine the influence of the growth environment on the genotypic variation of nutrient use efficiency of wheat, the relationship between nutrient use efficiency parameters and yield or grain quality, and the changes in nutrient use efficiency parameters with wheat breeding history. We conducted a two-year field experiment at four different sites, and the genotypic variation of 12 nitrogen (N), phosphorus (P) and potassium (K) use efficiency parameters (NUE, PUE and KUE) were investigated in a large wheat diversity panel composed of 437 wheat cultivars released over more than 150 years. Compared with previous reports, our study expanded the lower limits of the ranges of nutrient use efficiency parameters. The NUE parameters were strongly positively correlated with the corresponding PUE parameters. Yield showed significant positive genetic correlations with most nutrient use efficiency parameters and was more strongly correlated with nutrient uptake efficiency. There was no significant genetic correlation between NUE, PUE or KUE with grain N concentration. Compared to tall cultivars, semi-dwarf wheat cultivars had higher P, K harvest index, N, K grain production efficiency. N harvest index, N, P uptake efficiency of the semi-dwarf cultivars slowly increased along with breeding history, and the relationships with breeding history for other parameters are largely environmental dependent. In conclusion, the greater genotypic variation of nutrient use efficiency of wheat revealed in our study provides insights into the improvement of nutrient-efficient wheat cultivar breeding. NUE and PUE could be improved simultaneously through wheat breeding. The nutrient harvest index, nutrient uptake and grain production efficiency could be target traits for nutrient-efficient wheat cultivar breeding.

Research Authors
Jili Xu, Zhiyuan Gao, Shuo Liu, Salah F Abou Elwafa, Hui Tian
Research Date
Research Department
Research Journal
Field Crops Research
Research Pages
108634
Research Publisher
ELSEVIER
Research Rank
Q1
Research Vol
286
Research Website
https://www.sciencedirect.com/science/article/pii/S0378429022002052
Research Year
2022

Dynamic changes in the fossil energy use efficiency in crop production: A case study from Hunan province of China

Research Abstract

This study analyzes dynamic changes in fossil energy input, energy output and fossil energy use efficiency in crop production in Hunan province, China, from 2010 to 2019 to determine the factors contributing to fossil energy use efficiency in crop production. The results showed that energy input decreased from 19.98 to 18.13 GJ ha-1 from 2010 to 2019, whereas energy output increased from 64.57 to 69.57 GJ ha-1. Energy use efficiency was estimated at 3.23 in 2010 and increased to 3.84 in 2019. The application of fertilizers (nitrogen and phosphorus) and pesticides was decreased, while the application of compound fertilizers was increased from 1.00 to 1.43 GJ ha-1 with a steady energy input during the study period. The yield of advantageous industry crops in Hunan province (cereals, oil-bearing crops, vegetables and fruits) was increased, while other crops (fiber crops, beans, sugarcane, tubers, tobacco and cotton) showed an indiscernible pattern. Our results indicate that developing countries need to promote the production and application of compound fertilizers to reduce energy input, develop competitive industries to increase energy output, adopt policies to optimize crop production structure and establish sustainable agricultural production systems.

Research Authors
Jiana Chen, Salah Fatouh Abou-Elwafa, Min Huang
Research Date
Research Department
Research Journal
Journal of Cleaner Production
Research Pages
133627
Research Publisher
ElSevier
Research Rank
Q1
Research Vol
371
Research Website
https://www.sciencedirect.com/science/article/pii/S095965262203205X
Research Year
2022

Functional analysis of a late embryogenesis abundant protein ZmNHL1 in maize under drought stress

Research Abstract

Maize is an important feed and industrial cereal crop and is crucial for global food security. The development of drought-tolerant genotypes is a major aim of breeding programs to fight water scarcity and maintain sustainable maize production. Late embryogenesis abundant (LEA) proteins are a family of proteins related to osmotic regulation that widely exist in organisms. Here, we implemented a previously generated maize transcriptomic dataset to identify a drought-responsive gene designated ZmNHL1. Bioinformatics analysis of ZmNHL1 showed that the protein encoded by ZmNHL1 belongs to the LEA-2 protein family. Tissue specific expression analysis showed that ZmNHL1 is relatively abundant in stems and leaves, highly expressed in tassels and only slightly expressed in roots, pollens and ears. Moreover, the activity of SOD and POD of plants from three 35S::ZmNHL1 transgenic lines under either the …

Research Authors
Guorui Wang, Huihui Su, Salah Fatouh Abou-Elwafa, Pengyu Zhang, Liru Cao, Jiaxu Fu, Xiaowen Xie, Lixia Ku, Pengfei Wen, Tongchao Wang, Li Wei
Research Date
Research Department
Research Journal
Journal of Plant Physiology
Research Pages
153883
Research Publisher
ElSevier
Research Rank
Q1
Research Vol
280
Research Website
https://www.sciencedirect.com/science/article/pii/S0176161722002693
Research Year
2023

Towards Decentralization in local Rural Units in Menya Governorate: Challenges and Constraints

Research Authors
Rashed, G.; Ali, Abdel-Samad M.; Bakr, Asmaa B. M.; Aly, Hend H.and Nady, M. A.
Research Journal
Assiut Journal for Agricultural Science
Research Member
Research Pages
pp. 105-110
Research Publisher
Faculty of Agriculture ,Assiut University
Research Vol
47
Research Year
2016

الإحتياجات الإرشادية للزراع في مجال التأقلم مع التغيرات المناخية ببعض قرى محافظة أسيوط

Research Authors
عمرو بهاء الدين أحمد، وأسماء بكر محمد بكر
Research Journal
المجلة العلمية للعلوم الزراعية
Research Member
Research Pages
pp: 161 – 168
Research Publisher
كلية الزراعة - جامعة بني سويف
Research Vol
3
Research Year
2022

الإحتراق الوظيفي ومسبباته بين العاملين بالجهاز الإرشادي بمحافظة المنيا

Research Authors
أسماء بكر محمد بكر
Research Journal
المجلة العلمية للعلوم الزراعية
Research Member
Research Pages
pp: 154 – 160
Research Publisher
كلية الزراعة - جامعة بني سويف
Research Vol
3
Research Year
2022
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