Transcriptome wide identification and characterization of regulatory genes involved in EAA metabolism and validation through expression analysis in different developmental stages of finger millet spikes

Gururani, Kavita; Kumar, Anil; Tiwari, Apoorv; Agarwal, Aparna; Gupta, S. C.; Pandey, Dinesh

doi:10.1007/s13205-020-02337-8

Cited by 8 publications

(2 citation statements)

References 66 publications

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“…One of the signi cant drawbacks in this direction is the need for nger millet genomic resources. Transcriptome analysis of nger millet under salinity, drought stress, and developing spikes has been carried out in the past [2,[16][17][18][19][20].…”

Section: Introductionmentioning

confidence: 99%

Comparative transcriptome profiling of contrasting finger millet (Eleusine coracana (L.) Gaertn) genotypes under heat stress

Goyal,

Singh,

Mahajan

et al. 2024

Mol Biol Rep

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BackgroundEleusine coracana (L.) Gaertn is a crucial C 4 species renowned for its stress robustness and nutritional signi cance. Because of its adaptability traits, nger millet (ragi) is a storehouse of critical genomic resources for crop improvement. However, more knowledge about this crop's molecular responses to heat stress must be gained. Methods and ResultsIn the present study, a comparative RNA sequencing analysis was done in the leaf tissue of the nger millet between the heat-sensitive (KJNS-46) and heat-tolerant (PES-110) cultivars of Ragi in response to high temperatures. On average, each sample generated about 24 million reads. Interestingly, a comparison of transcriptomic pro ling identi ed 684 transcripts which were signi cantly differentially expressed genes (DEGs) examined between the heat-stressed samples of both genotypes. The heatinduced change in the transcriptome was con rmed by qRT-PCR using a set of randomly selected genes. Pathway analysis and functional annotation analysis revealed the activation of various genes involved in response to stress, precisely heat, oxidation-reduction process, water deprivation, heat shock protein (HSP) and transcription factors, calcium, and kinase signaling. The basal regulatory genes, such as bZIP, were involved in response to heat stress, indicating that heat stress activates genes related to basal regulatory processes or housekeeping. A substantial percentage of the DEGs belonged to proteins of unknown functions (PUFs), i.e., uncharacterized. ConclusionThe nding highlights the importance of HSPs, candidate genes, and pathways that can confer tolerance towards heat stress in ragi. These results will provide valuable information to improve heat tolerance in heat-susceptible agronomically important varieties of ragi and other crop plants.

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Section: Introductionmentioning

confidence: 99%

Comparative transcriptome profiling of contrasting finger millet (Eleusine coracana (L.) Gaertn) genotypes under heat stress

Goyal,

Singh,

Mahajan

et al. 2024

Mol Biol Rep

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“…One of the significant drawbacks in this direction is the need for finger millet genomic resources. Transcriptome analysis of finger millet under salinity, drought stress, and developing spikes has been carried out in the past (Kumar et al 2015; Gururani et al 2020; Rahman et al 2014; Hittalmani et al 2017; Li et al 2021; Parvathi et al 2019).…”

Section: Introductionmentioning

confidence: 99%

Comparative transcriptome analysis in contrasting finger millet (Eleusine coracana(L.) Gaertn) genotypes for heat stress

Goyal

Singh

Mahajan

et al. 2023

Preprint

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Eleusine coracana (L.) Gaertn is a crucial C4 species renowned for its stress robustness and nutritional significance. Because of its adaptability traits, finger millet (ragi) is a storehouse of critical genomic resources for crop improvement. However, more knowledge about this crop's molecular responses to heat stress must be gained. Hence, in the present study, we generated RNA seq data from the leaf tissue of the finger millet to observe the physiological changes and gene expression study in heat-sensitive (KJNS-46) and heat-tolerant (PES-110) genotypes of Ragi in response to high temperatures. On average, each sample generated about 24 million reads. Nearly 684 transcripts were differentially expressed (DEGs) between the heat-stressed samples of both genotypes. Pathway analysis and functional annotation analysis revealed the activation of various genes involved in response to stress, precisely heat, oxidation-reduction process, water deprivation, heat shock protein and transcription factors, calcium, and kinase signaling. The basal regulatory genes, such as bZIP, were involved in response to heat stress, indicating that heat stress activates genes related to basal regulatory processes or housekeeping. A substantial percentage of the DEGs belonged to proteins of unknown functions (PUFs), i.e., uncharacterized. The expression pattern of a few selected DEGs genes was analyzed in both genotypes by quantitative RT-PCR. The present study found some candidate genes and pathways that may confer tolerance to heat stress in ragi. These results will provide valuable information to improve heat tolerance in heat-susceptible agronomically important varieties of ragi and other crop plants.

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Finger Millet as Input Use Efficient and Organic by Default Crop

Gupta,

Gururani

et al. 2022

Compendium of Plant Genomes

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Transcriptome wide identification and characterization of regulatory genes involved in EAA metabolism and validation through expression analysis in different developmental stages of finger millet spikes

Cited by 8 publications

References 66 publications

Comparative transcriptome profiling of contrasting finger millet (Eleusine coracana (L.) Gaertn) genotypes under heat stress

Comparative transcriptome profiling of contrasting finger millet (Eleusine coracana (L.) Gaertn) genotypes under heat stress

Comparative transcriptome analysis in contrasting finger millet (Eleusine coracana(L.) Gaertn) genotypes for heat stress

Finger Millet as Input Use Efficient and Organic by Default Crop

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