ORCID Profile
0000-0002-8654-9840
Current Organisation
University of Essex
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Publisher: MDPI
Date: 02-12-2021
Publisher: Springer Science and Business Media LLC
Date: 13-02-2019
DOI: 10.1007/S00122-019-03301-8
Abstract: This review presents a comprehensive overview of the recent research on rice salt tolerance in the areas of genomics, proteomics, metabolomics and chemical genomics. Salinity is one of the major constraints in rice cultivation globally. Traditionally, rice is a glycophyte except for a few genotypes that have been widely used in salinity tolerance breeding of rice. Both seedling and reproductive stages of rice are considered to be the salt-susceptible stages however, research efforts have been biased towards improving the understanding of seedling-stage salt tolerance. An extensive literature survey indicated that there have been very few attempts to develop reproductive stage-specific salt tolerance in rice probably due to the lack of salt-tolerant phenotypes at the reproductive stage. Recently, the role of DNA methylation, genome duplication and codon usage bias in salinity tolerance of rice have been studied. Furthermore, the study of exogenous salt stress alleviants in rice has opened up another potential avenue for understanding and improving its salt tolerance. There is a need to not only generate additional genomic resources in the form of salt-responsive QTLs and molecular markers and to characterize the genes and their upstream regulatory regions, but also to use them to gain deep insights into the mechanisms useful for developing tolerant varieties. We analysed the genomic locations of erse salt-responsive genomic resources and found that rice chromosomes 1-6 possess the majority of these salinity-responsive genomic resources. The review presents a comprehensive overview of the recent research on rice salt tolerance in the areas of genomics, proteomics, metabolomics and chemical genomics, which should help in understanding the molecular basis of salinity tolerance and its more effective improvement in rice.
Publisher: Springer Science and Business Media LLC
Date: 31-05-2022
DOI: 10.1007/S00122-022-04120-0
Abstract: Plant height of soybean is associated with a haplotype block on chromosome 19, which classified 211 soybean accessions into five distinct groups showing significant differences for the target trait. Genetic variation is pivotal for crop improvement. Natural populations are precious genetic resources. However, efficient strategies for the targeted utilization of these resources for quantitative traits, such as plant height (PH), are scarce. Being an important agronomic trait associated with soybean yield and quality, it is imperative to unravel the genetic mechanisms underlying PH in soybean. Here, a genome-wide association study (GWAS) was performed to identify single nucleotide polymorphisms (SNPs) significantly associated with PH in a natural population of 211 cultivated soybeans, which was genotyped with NJAU 355 K Soy SNP Array and evaluated across six environments. A total of 128 SNPs distributed across 17 chromosomes were found to be significantly associated with PH across six environments and a combined environment. Three significant SNPs were consistently identified in at least three environments on Chr.02 (AX-93958260), Chr.17 (AX-94154834), and Chr.19 (AX-93897200). Genomic regions of ~ 130 kb flanking these three consistent SNPs were considered as stable QTLs, which included 169 genes. Of these, 22 genes (including Dt1) were prioritized and defined as putative candidates controlling PH. The genomic region flanking 12 most significant SNPs was in strong linkage disequilibrium (LD). These SNPs formed a single haplotype block containing five haplotypes for PH, namely Hap-A, Hap-B, Hap-C, Hap-D, and Hap-E. Deployment of such superior haplotypes in breeding programs will enable development of improved soybean varieties with desirable plant height.
Publisher: Springer International Publishing
Date: 18-12-2020
Publisher: Springer Science and Business Media LLC
Date: 04-11-2021
DOI: 10.1038/S42003-021-02782-Y
Abstract: Climate change with altered pest-disease dynamics and rising abiotic stresses threatens resource-constrained agricultural production systems worldwide. Genomics-assisted breeding (GAB) approaches have greatly contributed to enhancing crop breeding efficiency and delivering better varieties. Fast-growing capacity and affordability of DNA sequencing has motivated large-scale germplasm sequencing projects, thus opening exciting avenues for mining haplotypes for breeding applications. This review article highlights ways to mine haplotypes and apply them for complex trait dissection and in GAB approaches including haplotype-GWAS, haplotype-based breeding, haplotype-assisted genomic selection. Improvement strategies that efficiently deploy superior haplotypes to hasten breeding progress will be key to safeguarding global food security.
Publisher: Oxford University Press (OUP)
Date: 17-06-2022
DOI: 10.1093/PCP/PCAC086
Abstract: Crop domestication is a co-evolutionary process that has rendered plants and animals significantly dependent on human interventions for survival and propagation. Grain legumes have played an important role in the development of Neolithic agriculture some 12,000 years ago. Despite being early companions of cereals in the origin and evolution of agriculture, the understanding of grain legume domestication has lagged behind that of cereals. Adapting plants for human use has resulted in distinct morpho-physiological changes between the wild ancestors and domesticates, and this distinction has been the focus of several studies aimed at understanding the domestication process and the genetic ersity bottlenecks created. Growing evidence from research on archeological remains, combined with genetic analysis and the geographical distribution of wild forms, has improved the resolution of the process of domestication, ersification and crop improvement. In this review, we summarize the significance of legume wild relatives as reservoirs of novel genetic variation for crop breeding programs. We describe key legume features, which evolved in response to anthropogenic activities. Here, we highlight how whole genome sequencing and incorporation of omics-level data have expanded our capacity to monitor the genetic changes accompanying these processes. Finally, we present our perspective on alternative routes centered on de novo domestication and re-domestication to impart significant agronomic advances of novel crops over existing commodities. A finely resolved domestication history of grain legumes will uncover future breeding targets to develop modern cultivars enriched with alleles that improve yield, quality and stress tolerance.
Publisher: Springer Science and Business Media LLC
Date: 26-07-2023
DOI: 10.1007/S00344-023-11069-X
Abstract: Adaptive mechanisms for unfavorable environments have evolved in plants for thousands of generations, primarily in the form of endogenous chemical signals and the coordination of physiological processes. Signaling peptides (SPs) are erse molecular messengers in various stress responses which have been identified in different plant families. SPs are recognized by the membrane-localized receptors and co-receptors, leading to downstream signaling for various plant responses. Progress in in silico analysis, along with other factors, has increased our understanding of the signaling peptide-mediated regulatory mechanisms underlying the entire plant life cycle. SPs mediate both long-distance (root-to-shoot-to-root) and local cell–cell communication via vascular system to communicate and coordinate with plant organs at distant locations. During abiotic stress, SPs inside plant cells perceive stress signals and transfer information at short and long physiological ranges through the signal transduction pathway, causing stress-responsive gene expression. SPs interact with pathogens and mediate cell-to-cell communication via signaling pathways. There are intriguing relationships between phytohormones and the secondary signaling cascades which are mediated by SPs. During biotic or abiotic stress, different peptides trigger jasmonic acid, ethylene, and ABA signaling, involving several secondary messengers. These messengers mediate the stress response via shared signaling components of ROS, Ca 2+ , and MAPKs, and they modify the gene expression for different phytohormones. In this review, we highlight current knowledge on the role of signaling peptides in plant adaptation, growth, and development. We aim to analyze the SP-receptor interactions and the significance of crosstalk between a few s le SPs and phytohormones. Potential directions on how scientists can use this information for crop improvement are also suggested.
Publisher: Elsevier BV
Date: 04-2021
Location: United Kingdom of Great Britain and Northern Ireland
Location: United Kingdom of Great Britain and Northern Ireland
No related grants have been discovered for Showkat Ganie.