Unraveling the genomic regions controlling the seed vigour index, root growth parameters and germination per cent in rice

Barik, Saumya Ranjan; Pandit, Elssa; Sanghamitra, Priyadarsini; Mohanty, S.; Behera, Abhisarika; Mishra, Jyotirmayee; Nayak, D. K.; Bastia, Ramakrushna; Moharana, Arpita; Sahoo, Auromira; Pradhan, Sharat Kumar

doi:10.1371/journal.pone.0267303

Cited by 19 publications

(10 citation statements)

References 66 publications

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“…Barik and his team mapped 5 QTLs associated with morpho-physiological attributes of rice under drought stress. It includes LR9.1 (mapped on chromosome 9), which regulates the leaf rolling, LD9.1 (mapped on chromosome 9) for leaf drying, SF9.1 (mapped on chromosome 9) for spikelet fertility, RWC9.1 (mapped on chromosome 9) for relative water content, and HI9.1 (mapped on chromosome 9) for harvest index, respectively, under water-deficit drought stress at the reproductive stage ( Barik et al., 2022 ). Bernier et al.…”

Section: Modern Breeding With Marker-assisted Selection For Drought M...mentioning

confidence: 99%

Drought stress in rice: morpho-physiological and molecular responses and marker-assisted breeding

Hassan,

Dahu,

Hongning

et al. 2023

Front. Plant Sci.

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Rice (Oryza Sativa L.) is an essential constituent of the global food chain. Drought stress significantly diminished its productivity and threatened global food security. This review concisely discussed how drought stress negatively influenced the rice’s optimal growth cycle and altered its morpho-physiological, biochemical, and molecular responses. To withstand adverse drought conditions, plants activate their inherent drought resistance mechanism (escape, avoidance, tolerance, and recovery). Drought acclimation response is characterized by many notable responses, including redox homeostasis, osmotic modifications, balanced water relations, and restored metabolic activity. Drought tolerance is a complicated phenomenon, and conventional breeding strategies have only shown limited success. The application of molecular markers is a pragmatic technique to accelerate the ongoing breeding process, known as marker-assisted breeding. This review study compiled information about quantitative trait loci (QTLs) and genes associated with agronomic yield-related traits (grain size, grain yield, harvest index, etc.) under drought stress. It emphasized the significance of modern breeding techniques and marker-assisted selection (MAS) tools for introgressing the known QTLs/genes into elite rice lines to develop drought-tolerant rice varieties. Hence, this study will provide a solid foundation for understanding the complex phenomenon of drought stress and its utilization in future crop development programs. Though modern genetic markers are expensive, future crop development programs combined with conventional and MAS tools will help the breeders produce high-yielding and drought-tolerant rice varieties.

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Section: Modern Breeding With Marker-assisted Selection For Drought M...mentioning

confidence: 99%

Drought stress in rice: morpho-physiological and molecular responses and marker-assisted breeding

Hassan,

Dahu,

Hongning

et al. 2023

Front. Plant Sci.

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“…The shoot length, root length, and germination percentage are all included in the vigor index. Barik et al [ 30 ] formula is used to calculate the vigor index. The vigor index at alpha p < 0.05 was significantly better of biocontrol treated plots compared to control.…”

Section: Field Trial Of Biocontrol Bacteria Against Pathogenic Fungi ...mentioning

confidence: 99%

Biocontrol rhizobacteria enhances growth and yield of wheat ( Triticum aestivum ) under field conditions against Fusarium oxysporum

Agha,

Ullah,

Khan

et al. 2023

Bioengineered

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The current study aimed to identify the survival of bio-control bacteria with antifungal activity against Fusarium oxysporum and assess their growth promoting activity in wheat crop field conditions. To evaluate the fungicidal activities of isolated bacteria using the dual culture method, both qualitative and quantitative bioassays were performed. Plant Growth Promoting activities such as Indole 3-Acetic Acid (IAA), phosphate solubilization, Hydrogen cyanide (HCN), and Siderophore production were assessed for three biocontrol bacterial isolates (BCB 07, BCB16, and BCB 83) out of 180 with 70% antagonistic activity against Fusarium oxysporum . Chitinase, protease, and cellulase interaction in isolates was also tested. BCB16 was selected as it had 70% antagonist activity against F. oxysporum but also had the highest PGPR (Plant Growth Promoting Rhizobacteria) traits when compared to the other two isolates. BCB16 was also tested for survival in talc powder and in wheat crop field conditions. Even after 4 months in talc powder, the survival rate remained stable. In a wheat crop field, BCB16 reduced the disease incidence of Fusarium oxysporum by 54.38%. When compared to fungus alone treatment, BCB16 increased average yield by 57% alone and 32% in challenged conditions. BCB16 was identified molecularly using the 16s rRNA gene. Bacillus amyloliquefaciens shared 97% of the deduced sequence. The sequence was submitted to genbank and assigned the accession number OM333889. Bacillus amyloliquefaciens has the potential to be used in the field as an alternative to synthetic fungicides against Fusarium oxysporum .

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“…Additionally, seed vigor is very important for direct-seeded rice since it enhances crop establishment [ 6 , 7 ] and increases weed competitiveness [ 8 , 9 ]. Seed vigor improvement is a breeding challenge in rice research [ 7 , 10 ]. Therefore, transfer of seedling vigor and its related parameters into high-yielding varieties of rainfed rice is very important.…”

Section: Introductionmentioning

confidence: 99%

“…Seed vigor in rice is a complex trait and controlled by many genes and QTLs associated with various morphological, physiological and biochemical traits [ 6 , 9 , 10 ]. Genetics of the seedling growth parameters are controlled by many quantitative trait loci (QTLs) and hence complex in nature.…”

Section: Introductionmentioning

confidence: 99%

“…The existence of genetic diversity in a panel for a trait is useful for detecting the marker–trait association, and the structure of the population provides an opportunity to develop a panel population in which unequal relatedness within the population or spurious association is rectified [ 2 , 29 ]. The population genetic structure (Q) and relative kinship (K) value are helpful to reconstitute the genotypes present in the panel population for mapping analyses [ 10 , 30 , 31 ]. Detection of QTLs and genes analyzed by GLM and MLM approaches provides high-quality mapping results for complex traits.…”

Section: Introductionmentioning

confidence: 99%

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Mapping the Genomic Regions Controlling Germination Rate and Early Seedling Growth Parameters in Rice

Mohanty

Nayak

Sanghamitra

et al. 2023

Genes

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Seed vigor is the key performance parameter of good quality seed. A panel was prepared by shortlisting genotypes from all the phenotypic groups representing seedling growth parameters from a total of 278 germplasm lines. A wide variation was observed for the traits in the population. The panel was classified into four genetic structure groups. Fixation indices indicated the existence of linkage disequilibrium in the population. A moderate to high level of diversity parameters was assessed using 143 SSR markers. Principal component, coordinate, neighbor-joining tree and cluster analyses showed subpopulations with a fair degree of correspondence with the growth parameters. Marker–trait association analysis detected eight novel QTLs, namely qAGR4.1, qAGR6.1, qAGR6.2 and qAGR8.1 for absolute growth rate (AGR); qRSG6.1, qRSG7.1 and qRSG8.1 for relative shoot growth (RSG); and qRGR11.1 for relative growth rate (RGR), as analyzed by GLM and MLM. The reported QTL for germination rate (GR), qGR4-1, was validated in this population. Additionally, QTLs present on chromosome 6 controlling RSG and AGR at 221 cM and RSG and AGR on chromosome 8 at 27 cM were detected as genetic hotspots for the parameters. The QTLs identified in the study will be useful for improvement of the seed vigor trait in rice.

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Unraveling the genomic regions controlling the seed vigour index, root growth parameters and germination per cent in rice

Cited by 19 publications

References 66 publications

Drought stress in rice: morpho-physiological and molecular responses and marker-assisted breeding

Drought stress in rice: morpho-physiological and molecular responses and marker-assisted breeding

Biocontrol rhizobacteria enhances growth and yield of wheat ( Triticum aestivum ) under field conditions against Fusarium oxysporum

Mapping the Genomic Regions Controlling Germination Rate and Early Seedling Growth Parameters in Rice

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