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Association of molecular markers with physio-biochemical traits related to seed vigour in rice

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Abstract

Eighteen physio-biochemical traits influencing seed vigour were studied for their association with molecular markers using a mini core set constituted from 120 germplasm lines. High genetic variation was detected in the parameters namely chlrophyll a, Chlrophyll b, total chlorophyll, carotenoids, total anthocyanin content, gamma-oryzanols, total phenolics content, superoxide dismutase, catalase, guaicol peroxidase, total soluble sugar, total protein, seed vigour index -I and seed vigour index -II. Strong positive correlation of seed vigour index II was observed with amylose content, total anthocyanin content, catalase, total phenolic content and total flavonoid content while a negative association was observed for gamma-oryzanol content. High gene diversity (0.7169) and informative markers value (0.6789) were estimated from the investigation. Three genetic structure groups were observed in the panel population and genotypes were grouped in the subpopulations based on the seed vigour trait. Differences in the fixation indices of the three sub populations indicated existence of linkage disequilibrium in the studied panel population. Association of the traits namely total flavonoids, superoxide dismutase, catalase, chlorophyll a, Chlorophyll b, total chlorophyll, carotenoids, starch, amylose, total anthocyanin, gamma-oryzanol, total phenolics with the molecular markers were detected by Generalized Linear Model and Mixed Linear Model showing > 0.10 R2 value. Association of the trait, total flavonoids with marker RM7364 located on chromosome 8 reported in earlier study was validated in this investigation. The validated markers and the novel markers detected showing higher R2 value will be useful for improvement of seed vigour in rice.

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Acknowledgements

The authors are highly grateful to the Director, ICAR-National Rice Research Institute, Cuttack and Head, Crop Improvement Division of the Institute for providing all the necessary facilities including the funding for conducting the experiment.

Funding

This work was internal project of the Institute under program1; Project No.1.6 of ICAR- National Rice Research Institute Cuttack, Odisha, India. Institute fund was utilized for completion of the Project work. No externally aided fund was received for this study.

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Author notes

  1. Swastideepa Sahoo and Priyadarsini Sanghamitra have contributed equally to this work.

Authors and Affiliations

  1. Crop Improvement Division, ICAR-National Rice Research Institute, Cuttack, Odisha, 753006, India

    Priyadarsini Sanghamitra, Swapnil Pawar, Ramakrushna Bastia & Sharat Kumar Pradhan

  2. Department of Seed Technology, College of Agriculture, OUAT, Bhubaneswar, 751003, Odisha, India

    Swastideepa Sahoo, Nibedita Nanda & Kumuda Chandra Muduli

  3. FM University, Balasore, Odisha, 756020, India

    Elssa Pandit

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  1. Swastideepa Sahoo
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SKP conceived the idea, PS and SKP wrote, and PS, EP and SKP revised the paper. SS, NN, SP, EP and RB generated phenotypic and genotypic data. EP and KCM performed data analyses. SKP interpreted the data. All authors reviewed and approved the final manuscript.

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Correspondence to Elssa Pandit or Sharat Kumar Pradhan.

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Sahoo, S., Sanghamitra, P., Nanda, N. et al. Association of molecular markers with physio-biochemical traits related to seed vigour in rice. Physiol Mol Biol Plants 26, 1989–2003 (2020). https://doi.org/10.1007/s12298-020-00879-y

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