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Draft genome sequence of ‘Candidatus Phytoplasma australasia’, strain SS02 associated with sesame phyllody disease

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Abstract

‘Candidatus Phytoplasma’ is an uncultivated, intracellular bacterial plant pathogen transmitted by phloem-feeding insect vectors. Among the group of phytoplasmas, the Peanut Witches' Broom or 16SrII group of phytoplasmas associated with various diseases cause severe crop losses every year in India. The ‘Ca. Phytoplasma sp.’ strain SS02 was associated with phyllody disease of sesame plants collected from New Delhi. The genome sequence of strain SS02 was obtained using its genomic DNA enrichment and hybrid assembly of sequences generated on Illumina and Oxford Nanopore Technologies MinION platforms. The hybrid assembly strategy generated a draft genome with 60 contigs totaling 553,228 bp of length with more than 400 × depth coverage and 95.21% of the estimated completeness. The SS02 genome draft sequence contains 465 protein-coding genes, 17 tRNA genes, and 3 rRNA genes. The availability of this draft genome also provided a foundation for genome-scale genotypic analyses.

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Data availability

The Whole Genome Shotgun sequence for strain SS02 have been deposited in the DDBJ/ENA/GenBank database under accession numbers JAHBAJ000000000. The version described in this paper is JAHBAJ020000000 under the BioSample ID SAMN19066185 and BioProject ID PRJNA727971.

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Acknowledgements

The authors are thankful to the Director, ICAR-Indian Agricultural Research Institute (IARI) and Director, ICAR-National Bureau of Plant Genetic Resources (NBPGR), New Delhi, for providing facilities.

Funding

The authors acknowledge the funding support by the Department of Biotechnology (DBT), Govt. of India, New Delhi, under the project BT/Ag/Network/Sesame/2019-20.

Author information

Author notes

  1. The first three authors Hemavati Ranebennur, Kiran Kirdat and Bhavesh Tiwarekar have contributed equally.

Authors and Affiliations

  1. Division of Plant Pathology, ICAR-Indian Agricultural Research Institute, Pusa Campus, New Delhi, 110 012, India

    Hemavati Ranebennur, Kirti Rawat & G. P. Rao

  2. National Centre for Cell Science, NCCS Complex, SSPU Campus, Ganeshkhind, Pune, 411 021, India

    Kiran Kirdat, Bhavesh Tiwarekar & Amit Yadav

  3. ICAR-National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi-110 012, India

    V. Celia Chalam, Rashmi Yadav & Kuldeep Singh

  4. ICAR-National Institute for Plant Biotechnology, Pusa Campus, New Delhi, 110 012, India

    Amolkumar U. Solanke

  5. Tuljaram Chaturchand College, Baramati, Maharashtra, 413 102, India

    Shivaji Sathe

Authors
  1. Hemavati Ranebennur
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  2. Kiran Kirdat
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  10. Amit Yadav
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  11. G. P. Rao
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Contributions

HR and KR collected the samples and did the primitive identification of phytoplasma in sesame samples. KK prepared the DNA samples for Illumina sequencing and performed ONT sequencing. BT assembled and analyzed the SS02 genome. HR, GR, BT, and KK wrote the first manuscript draft. AY and AS edited the manuscript; CC, KS, GR, and AY provided the funding. AY supervised the sequencing bioinformatics analysis and finalized the manuscript draft. All authors read the final draft and approved it.

Corresponding authors

Correspondence to Amit Yadav or G. P. Rao.

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The authors declare no conflict of interest.

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Ranebennur, H., Kirdat, K., Tiwarekar, B. et al. Draft genome sequence of ‘Candidatus Phytoplasma australasia’, strain SS02 associated with sesame phyllody disease. 3 Biotech 12, 107 (2022). https://doi.org/10.1007/s13205-022-03163-w

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