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Pectobacterium jejuense sp. nov. Isolated from Cucumber Stem Tissue

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Abstract

A single Pectobacterium-like strain named 13-115T was isolated from a specimen of diseased cucumber stem tissue collected on Jeju Island, South Korea. The strain presented a rod-like shape and was negative for Gram staining. When grown on R2A medium at 25 °C, strain 13-115T formed round, convex and white colonies. This strain showed growth at temperatures ranging from 10 to 30 °C and tolerated a pH range of 6–9. The strain could also tolerate NaCl concentrations up to 5%. Analysis of the 16S rRNA gene sequence revealed that strain 13-115T exhibited similarity of over 99% with Pectobacterium brasiliense, P. carotovorum, P. polaris, and P. parvum. By conducting multilocus sequence analyses using dnaX, leuS, and recA genes, a separate phylogenetic lineage was discovered between strain 13-115T and other members of the genus Pectobacterium. Moreover, the strain showed relatively low in silico DNA–DNA hybridization (<60.6%) and average nucleotide identity (ANI) (<94.9%) values with recognized Pectobacterium species. The isolate has a genome size of 5,069,478 bp and a genomic G + C content of 52.04 mol%. Major fatty acids identified in the strain included C16:0 (28.99%), summed feature 3 (C16:1 ω7c and/or C16:1 ω6c; 28.85%), and C18:1 ω7c (19.01%). Pathogenicity assay confirmed that the novel strain induced soft rot symptoms in cucumber plants and Koch’s postulates were fulfilled. Molecular analysis and phenotypic data indicated that strain 13-115T could be classified as a new species within the Pectobacterium genus, which has been named Pectobacterium jejuense. The type strain is 13-115T (= KCTC 92800T = JCM 35940T).

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Data Availability

The 16S rRNA gene sequence of strain 13-115T has been deposited in NCBI GenBank and assigned accession number LC742805. In addition, the whole-genome sequence of strain 13-115T has been deposited in GenBank under accession number JAPQKX000000000. Access to the datasets utilized or examined during the present study can be obtained from the corresponding author upon a reasonable request.

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Not applicable.

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Funding

This project was supported by the Animal and Plant Quarantine Agency (PQ20211B003), the Republic of Korea.

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Authors and Affiliations

  1. College of Agriculture and Life Sciences, Kyungpook National University, Daegu, 41566, Republic of Korea

    Soo-Min Hong, Kyoung-Taek Park, In-Kyu Kang, Seung-Yeol Lee & Hee-Young Jung

  2. Institute of Plant Medicine, Kyungpook National University, Daegu, 41566, Republic of Korea

    Leonid N. Ten, Seung-Yeol Lee & Hee-Young Jung

  3. National Institute of Horticultural and Herbal Science, Rural Development Administration, Wanju, 55365, Republic of Korea

    Chang-Gi Back

  4. Intercollegiate Faculty of Biotechnology UG and MUG, 58 Abrahama Street, 80-307, Gdansk, Poland

    Malgorzata Waleron

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  1. Soo-Min Hong
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Contributions

All authors contributed to the conception and design of the study. SMH conducted the experiments and wrote the manuscript, LNT analyzed the data, wrote and modified the manuscript, KTP organized data curation and conducted methodology, CGB provided resources, MW carried out Biolog GEN III experiment, IKK provided resources, SYL analyzed sequence data and reviewed the manuscript, HYJ designed, planned the study and reviewed the manuscript. All authors read and approved the final version of the manuscript.

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Correspondence to Hee-Young Jung.

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Hong, SM., Ten, L.N., Park, KT. et al. Pectobacterium jejuense sp. nov. Isolated from Cucumber Stem Tissue. Curr Microbiol 80, 308 (2023). https://doi.org/10.1007/s00284-023-03419-5

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