| 1. |
- Ahmed, Mukhtar
(författare)
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Association analysis for agronomic traits in wheat under terminal heat stress
- 2021
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Ingår i: Saudi Journal of Biological Sciences. - : Elsevier BV. - 1319-562X. ; 28, s. 7404-7415
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Tidskriftsartikel (refereegranskat)abstract
- Terminal heat stress causes irreversible damage to wheat crop productivity. It reduces the vegetative growth and flowering period that consequently declines the efficiency to capture available stem reserves (carbohydrates) in grains. Markers associated with thermotolerant traits ease in marker assisted selection (MAS) for crop improvement. It identifies the genomic regions associated with thermotolerant traits in wheat, but the scarcity of markers is the major hindrance in crop improvement. Therefore, 158 wheat genotypes were subjected to genotyping with 165 simple sequence repeat markers dispersed on three genomes (A, B and D). Allelic frequency and polymorphic information content values were highest on genome A (5.34 (14% greater than the lowest value at genome D) and 0.715 (3% greater than the lowest value at genome D)), chromosome 4 (5.40 (16% greater than the lowest value at chromosome 2) and 0.725 (5% greater than the lowest value at chromosome 6)) and marker xgwm44 (13.0 (84% greater than the lowest value at marker xbarc148) and 0.916 (46% greater than the lowest value at marker xbarc148)). Bayesian based population structure discriminated the wheat genotypes into seven groups based on genetic similarity indicating their ancestral origin and geographical ecotype. Linkage disequilibrium pat-tern had highest significant (P < 0.001) linked loci pairs 732 on genome A at r(2) > 0.1 whereas, 58 on gen-ome B at r(2) > 0.5. Linkage disequilibrium decay (P < 0.01 and r(2) > 0.1) had larger LD block (5-10 cM) on genome A. Highly significant MTAs (P < 0.000061) under heat stress conditions were identified for flag leaf area (xwmc336), spikelet per spike (xwmc553), grains per spike (cxfa2147, xwmc418 and xwmc121), biomass (xbarc7) and grain yield (xcfa2147 and xwmc671). The identified markers in this study could facil-itate in MAS and gene pyramiding against heat stress in wheat. (C) 2021 Published by Elsevier B.V. on behalf of King Saud University.
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| 2. |
- Ahmed, Mukhtar
(författare)
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Enhancing water use efficiency and grain yield of wheat by optimizing irrigation supply in arid and semi-arid regions of Pakistan
- 2022
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Ingår i: Saudi Journal of Biological Sciences. - : Elsevier BV. - 1319-562X. ; 29, s. 878-885
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Tidskriftsartikel (refereegranskat)abstract
- The lack of good irrigation practices and policy reforms in Pakistan triggers major threats to the water and food security of the country. In the future, irrigation will happen under the scarcity of water, as inadequate irrigation water becomes the requirement rather than the exception. The precise application of water with irrigation management is therefore needed. This research evaluated the wheat grain yield and water use efficiency (WUE) under limited irrigation practices in arid and semi-arid regions of Pakistan. DSSAT was used to simulate yield and assess alternative irrigation scheduling based on different levels of irrigation starting from the actual irrigation level up to 65% less irrigation. The findings demonstrated that different levels of irrigation had substantial effects on wheat grain yield and total water consumption. After comparing the different irrigation levels, the high amount of actual irrigation level in semi-arid sites decreased the WUE and wheat grain yield. However, the arid site (Site-1) showed the highest wheat grain yield 2394 kg ha(-1) and WUE 5.9 kg(-3) on actual irrigation (T-1), and with the reduction of water, wheat grain yield decreased continuously. The optimal irrigation level was attained on semiarid (site-2) with 50% (T-11) less water where the wheat grain yield and WUE were 1925 kg ha(-1) and 4.47 kg(-3) respectively. The best irrigation level was acquired with 40% less water (T-9) on semi-arid (site-3), where wheat grain yield and WUE were 1925 kg ha(-1) and 4.57 kg(-3), respectively. The results demonstrated that reducing the irrigation levels could promote the growth of wheat, resulting in an improved WUE. In crux, significant potential for further improving the efficiency of agricultural water usage in the region relies on effective soil moisture management and efficient use of water. (C) 2021 The Authors. Published by Elsevier B.V. on behalf of King Saud University.
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| 3. |
- Ahmed, Mukhtar
(författare)
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Identification of drought tolerant Chickpea genotypes through multi trait stability index
- 2021
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Ingår i: Saudi Journal of Biological Sciences. - : Elsevier BV. - 1319-562X. ; 28, s. 6818-6828
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Tidskriftsartikel (refereegranskat)abstract
- Drought is a major and constantly increasing abiotic stress factor, thus limiting chickpea production. Like other crops, Kabuli Chickpea genotypes are screened for drought stress through Multi-environment trials (METs). Although, METs analysis is generally executed taking into account only one trait, which provides less significant reliability for the recommendation of genotypes as compared to multi trait-based analysis. Multi trait-based analysis could be used to recommend genotypes across diverse environments. Hence, current research was conducted for selection of superior genotypes through multi-trait stability index (MTSI) by using mixed and fixed effect models under six diverse environments. The genotypic stability was computed for all traits individually using the weighted average of absolute scores from the singular value decomposition of the matrix of best linear unbiased predictions for the genotype vs environment interaction (GEI) effects produced by a linear mixed-effect model index. A superiority index, WAASBY was measured to reflect the MPS (Mean performance and stability). The selection differential for the WAASBY index was 11.2%, 18.49% and 23.30% for grain yield (GY), primary branches per plant (PBP) and Stomatal Conductance (STOMA) respectively. Positive selection differential (0.80% < selection differential < 13.00%) were examined for traits averaged desired to be increased and negative (-0.57% < selection differential <-0.23%) for those traits desired to be reduced. The MTSI may be valuable to the plant breeders for the selection of genotypes based on many characters as being strong and simple selection process. Analysis of MTSI for multiple environments revealed that, the genotypes G20, G86, G31, G28, G116, G12, G105, G45, G50, G10, G30, G117, G81, G48, G85, G17, G32, G4, and G37 were the most stable and high yielding out of 120 chickpea genotypes, probably due to high MPS of selected traits under various environments. It is concluded that identified traits can be utilized as genitors in hybridization programs for the development of drought tolerant Kabuli Chickpea breeding material. (c) 2021 The Author(s). Published by Elsevier B.V. on behalf of King Saud University. This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/).
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| 4. |
- Ali El Hadi Mohamed, Rania, et al.
(författare)
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First record of West Nile Virus detection inside wild mosquitoes in Khartoum capital of Sudan using PCR
- 2020
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Ingår i: Saudi Journal of Biological Sciences. - : Elsevier BV. - 1319-562X .- 2213-7106. ; 27:12, s. 3359-3364
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Tidskriftsartikel (refereegranskat)abstract
- This study aimed to explore the presence of West Nile Virus (WNV) inside four species of mosquitoes: Culex univittatus (Theobald), Culex quinquefasciatus (Say) Aedes vittatus (Bigot) and Aedes vexans (Meigen). Adult wild mosquitoes were collected from different sites: Soba West, Hellat Kuku, Shambat, and Khartoum North Central Live Stock Market (KCLM). Surveys were carried out at Khartoum State during two phases: pre to the rainy season and post to the rainy season. Mosquito specimens were identified using classical keys then preserved at −80 °C freezer for two weeks till the virus examination using polymerase chain reaction (PCR) were carried out. WNV has been detected inside the three species of mosquitoes: A. vexans, C. univittatus, and C. quinquefasciatus. The species were collected from Hellat Kuku, (Shambat and Hellat Kuku), and (Shambat and KCLM) respectively. Two species of mosquitoes were positive for the virus: C. quinquefasciatus and C. univittatus. Positive results for the virus during the first phase of the study; males of C. quinquefasciatus and C. univittatus collected during the second phase of the study were also tested for the existence of the virus and they were positive. For our knowledge this study represents first record of WNV inside wild mosquitoes in Sudan. PCR technique provided reliable information because specific primer-probe sets were used for the detection of the virus. Extra studies are required to incriminate these species of mosquitoes as potential vectors of WNV.
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| 5. |
- AlRashidi, Monif, et al.
(författare)
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Habitat selection by the Spiny-tailed lizard (Uromastyx aegyptia) : A view from spatial analysis
- 2021
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Ingår i: Saudi Journal of Biological Sciences. - : Elsevier. - 1319-562X. ; 28:9, s. 5034-5041
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Tidskriftsartikel (refereegranskat)abstract
- Many factors affect the habitat selection for animal species, which in turn may greatly affect their distribution in different ecosystems. Understanding the processes that affect habitat selection is also critical for guiding and managing conservation initiatives. Our study aimed to assess the habitat selection by free-ranging Spiny-tailed lizard (Uromastyx aegyptia) by analyzing a geospatial data connecting its burrow parameters to different habitat characteristics within selected sites in Hail region, Saudi Arabia. We examined evidence and patterns of significant spatial clustering for (366) active burrows by linking their parameters (burrow entrance size, burrow entrance width and burrow entrance height), their reference geographical locations and, two habitat characteristics defined by soil type and vegetation cover. The objective of the analysis was to increase the understanding on the burrows aggregation process in the space and, to describe its possible relation to other spatial habitat configurations. Analysis of distances based on the Nearest Neighbor Index (NNI) and hotspots detection in Nearest neighbor hierarchical clustering (Nnh) suggested twelve (12) spatial clusters located within the study area. In addition, a spatial ordinary least square (OLS) and Poisson regression models revealed significant effects of soil type and vegetation cover on burrow parameters (OLS, p < 0.05; Poisson, p < 0.001), which indicate a strong association between burrows parameters and habitats characteristics. Findings from the study also suggest that other factors such as elevations, highways, and human settlement concentration spots could possibly play a major role in defining burrow spatial aggregation and furthermore have a significant impact on habitat selection.
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| 6. |
- Elsafy, Mohammed
(författare)
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Effect of flowering stage and storage conditions on pollen quality of six male date palm genotypes
- 2022
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Ingår i: Saudi Journal of Biological Sciences. - : Elsevier BV. - 1319-562X. ; 29, s. 2564-2572
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Tidskriftsartikel (refereegranskat)abstract
- Availability of efficient male genotypes is critical for successful artificial pollination and regular bearing of female date palms. The effect of flowering stage and storage conditions on pollen quality of six male date palm genotypes encoded 'ABD1', 'P4', 'P3', 'P8', 'P7' and 'P13'were evaluated. Pollen collected from spathes developed at the middle of flowering stage exhibited the best viability (90%) and germinability (85%) compared to other stages. Pollen viability was greater than 90%, except for 'P8' that exhibited 80%, while, germinability greatly varied among the genotypes. Pollen quality decreased during 4 months of storage upon genotype and temperature, with a minimum reduction at -30 degrees C followed by 4 degrees C. Heat shock exposure (33 +/- 2 degrees C) following storage revealed that pollen stored at -30 degrees C or 4 degrees C should be used for pollination on the same day of take out to avoid dramatic quality loss. The 'ABD1', an early flowering genotype, proved highest pollen quality both at fresh stage and after storage. While, the 'P3', a late flowering genotype, retained its pollen quality during storage. However, the 'P13' genotype exhibited excellent pollen quality when fresh, but greatly loses germinability during storage. (C) 2021 The Author(s). Published by Elsevier B.V. on behalf of King Saud University.
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| 7. |
- Elsafy, Mohammed
(författare)
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Effect of pollination time, the hour of daytime, pollen storage temperature and duration on pollen viability, germinability, and fruit set of date palm (Phoenix dactylifera L.) cv "Deglet Nour"
- 2022
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Ingår i: Saudi Journal of Biological Sciences. - : Elsevier BV. - 1319-562X. ; 29, s. 1085-1091
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Tidskriftsartikel (refereegranskat)abstract
- Success artificial pollination with viable pollen is crucial process in the production chain of date palms. This study evaluated the impact of pollen storage temperature and duration, pollination time following spathe cracking, and the hour of daytime on pollen viability, germinability, fruit set and yield of 'Deglet Nour' date palm cultivar. In in vitro tests, fresh pollen showed the maximum viability (96.3%) and germination (85%) but it decreased thereafter upon the storage temperature (28, 4 and-30 degrees C) and duration (3, 6, 9 and 12 months). In this respect, pollen stored at-30 degrees C retained highest viability and germinability followed by those stored at 4 and then at 28 degrees C. In filed experiments, fruit set was 85, 75, 65, and 45% with pollination using fresh pollen, or pollen stored at-30, 4 and 28 degrees C, respectively. Fruit set was 95%, 75%, and less than 50%, for pollination performed on the same day of spathe cracking, 6 and 12 days later, respectively. The highest fruit set percentage and yield/bunch were obtained with pollination performed between 12.0 pm and 15.0 pm in contrast to 8.0-11.0 am or 16.0-17.0. (c) 2021 The Author(s). Published by Elsevier B.V. on behalf of King Saud University. This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/).
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| 8. |
- Hassanin, Abdallah A., et al.
(författare)
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Emergence, evolution, and vaccine production approaches of SARS-CoV-2 virus : benefits of getting vaccinated and common questions
- 2022
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Ingår i: Saudi Journal of Biological Sciences. - : Elsevier. - 1319-562X. ; 29:4, s. 1981-1997
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Forskningsöversikt (refereegranskat)abstract
- The emergence of coronavirus disease 2019 (COVID-19) pandemic in Wuhan city, China at the end of 2019 made it urgent to identify the origin of the causal pathogen and its molecular evolution, to appropriately design an effective vaccine. This study analyzes the evolutionary background of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2 or SARS-2) in accordance with its close relative SARS-CoV (SARS-1), which was emerged in 2002. A comparative genomic and proteomic study was conducted on SARS-2, SARS-1, and Middle East respiratory syndrome coronavirus (MERS), which was emerged in 2012. In silico analysis inferred the genetic variability among the tested viruses. The SARS-1 genome harbored 11 genes encoding 12 proteins, while SARS-2 genome contained only 10 genes encoding for 10 proteins. MERS genome contained 11 genes encoding 11 proteins. The analysis also revealed a slight variation in the whole genome size of SARS-2 comparing to its siblings resulting from sequential insertions and deletions (indels) throughout the viral genome particularly ORF1AB, spike, ORF10 and ORF8. The effective indels were observed in the gene encoding the spike protein that is responsible for viral attachment to the angiotensin-converting enzyme 2 (ACE2) cell receptor and initiating infection. These indels are responsible for the newly emerging COVID-19 variants αCoV, βCoV, γCoV and δCoV. Nowadays, few effective COVID-19 vaccines developed based on spike (S) glycoprotein were approved and become available worldwide. Currently available vaccines can relatively prevent the spread of COVID-19 and suppress the disease. The traditional (killed or attenuated virus vaccine and antibody-based vaccine) and innovated vaccine production technologies (RNA- and DNA-based vaccines and viral vectors) are summarized in this review. We finally highlight the most common questions related to COVID-19 disease and the benefits of getting vaccinated.
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| 9. |
- Khan, Amir Ali, et al.
(författare)
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Significant transcriptomic changes are associated with the inhibitory effects of 5-aza-2-deoxycytidine during adipogenic differentiation of MG-63 cells
- 2021
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Ingår i: SAUDI JOURNAL OF BIOLOGICAL SCIENCES. - : ELSEVIER. - 1319-562X. ; 28:12, s. 7336-7348
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Tidskriftsartikel (refereegranskat)abstract
- Our previous study revealed that the treatment of 5-aza-2-deoxycytidine (5-aza) inhibited while treatment of suberoylanilide hydroxamic acid (SAHA) enhanced the adipogenic differentiation of MG-63 cells. In this study, we examined the transcriptomic profiles of the derived adipocyte-like cells from MG-63 cells in the presence of 5-aza (Treatment 1) and SAHA (Treatment 2). Genome wide expression analysis showed high within sample variability for the adipocytes derived with 5-aza versus vehicle. Additionally, the expression profile of 5-aza derived cells was separated from the other sample groups. Differential analysis on the pairwise comparison of 5-aza versus control and SAHA versus 5-aza identified 1290 and 1086 differentially expressed (DE) genes, respectively. Furthermore, some overlap was observed between the up and down-regulated DE genes of 5-aza versus control and SAHA versus control (jaccard score 0.3) as well as between the differentially regulated genes of 5-aza versus control and 5-aza versus SAHA (jaccard score 0.29). A total of 73 transcription factors (TFs) were differentially expressed across all the pair wise comparisons with some overlap between the under and over expressed TFs of 5-aza versus control and 5-aza versus SAHA (jaccard score 0.29). Unsupervised clustering of TFs showed that the samples within the group are consistent in expression and the samples cluster in accordance with the group. Several GO terms related to enhanced adipogenesis such as neutral lipid biosynthetic process, lipid metabolic processes, cellular amide metabolic processes and cellular carbohydrate metabolic processes were enriched in the down regulated genes of 5-aza derived adipocytes versus control, indicating 5aza inhibit the adipogenic differentiation of MG-63 cells. GSEA analysis on selected gene sets of MAPK and PI3K signaling pathway in MSigDB identified the pathways were up-regulated in 5-aza versus control. This study revealed that inhibition of MG-63 adipogenesis due to 5-aza treatment is associated with large transcriptomics changes and further research is needed to unravel the roles of these genes in the adipogenesis. (c) 2021 The Authors. Published by Elsevier B.V. on behalf of King Saud University. This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
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| 10. |
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