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Virome Analysis of Paddy Floodwater in Two Cropping Seasons

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Abstract

Paddy fields include two interconnected ecosystems—soil and floodwater. Microbes and viruses are an integral component of these ecosystems, yet the viral communities have not been extensively studied. We present an analysis of the viromes of paddy floodwater collected during the two cropping seasons in India, the kharif and rabi seasons respectively. The overall taxonomic and functional characteristics appeared to be similar in both seasons, suggesting stability of the viral community. Taxonomically, the families of tailed bacteriophages dominated. The predominance of functional roles related to lytic phages further confirmed this. We reconstructed two complete and several partial viral genomes from the assembled data. The genomes did not align with any known sequences, thus representing novel viruses of the floodwater ecosystem.

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Fig. 1
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Data Availability

The raw sequencing reads of RW1 and RW2 were submitted to the NCBI sequence read archive under the BioProject Accession Number PRJNA958449.

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Acknowledgements

We thank Mr. Venkatesh Prabhu for his help with running the bioinformatics software.

Funding

This research was partly supported by the Seed Money Grant No. GU/D-RDRM/Seed money/JN/Microbiology/2021/12 from Goa University.

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Authors and Affiliations

  1. Microbiology Programme, School of Biological Sciences and Biotechnology, Goa University, Taleigao Plateau, Goa, 403206, India

    Sarvesh R. Halankar & Judith M. Noronha

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  1. Sarvesh R. Halankar
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  2. Judith M. Noronha
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Contributions

Sarvesh R. Halankar: Investigation, Formal Analysis, Writing—original draft; Judith M. Noronha: Conceptualization, Investigation, Formal Analysis, Supervision, Writing—original draft, Writing—review and editing.

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Correspondence to Judith M. Noronha.

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Halankar, S.R., Noronha, J.M. Virome Analysis of Paddy Floodwater in Two Cropping Seasons. Indian J Microbiol (2024). https://doi.org/10.1007/s12088-024-01292-9

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