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INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 73, Issue 4

Whole-genome sequencing of species isolated from the healthy human eye and description of sp. nov No Access

Abstract

Currently, the genus comprises 76 recognized species. Members of are mostly isolated from environmental, animal, and plant sources. This report describes and proposes a novel species of isolated from clinical specimens of the human ocular surface. We isolated two aerobic, Gram-stain-negative, non-spore-forming, coccoid or short rod-shaped, and non-motile strains (designated DK398 and DK608) from conjunctival sac swabs of two healthy volunteers. The results showed that the strains grew best under the conditions of 28°C, pH 7.0, and 1.0 % (w/v) NaCl. Sequence analysis based on the 16S rRNA gene showed that strains DK398 and DK608 were members of , most similar to 43P (98.54 and 98.62 %), GHD-05 (98.34 and 98.41 %), and NB88 (98.21 and 98.29 %). Phenotypic analysis showed that DK398 and DK608 were positive for catalase and oxidase, negative for producing N-acetyl-β-glucosaminic acid, arginine dihydrolase, and -glucuronidase but positive for leucine arylamidase. The predominant isoprenoid quinone was Q-10, and the major polar lipids included phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylglycerol, phosphatidylcholine, and an unidentified glycolipid. The major fatty acids (>10%) were summed feature 8 (C ω7c and/or C ω6c) and C. The meso-diaminopimelic acid was found in the cell wall peptidoglycan of DK398. The major cell wall sugars were ribose and galactose. Based on the results of phylogenetic analyses, low (<83.22%) average nucleotide identity, digital DNA–DNA hybridization (<26.0%), chemotaxonomic analysis, and physiological properties, strain DK398 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is DK398 (=CGMCC 1.17227=JCM 33719).

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): healthy human eye , novel species , Paracoccus , phylogenetic analysis , sequence analysis and whole-genome sequencing
Funding
This study was supported by the:
  • Natural Science Research Project of Shanxi Provincial Department of Science and Technology (Award 202104010910013)
    • Principle Award Recipient: BinSun
  • Natural Science Research Project of Shanxi Provincial Department of Science and Technology (Award 201903D311009)
    • Principle Award Recipient: BinSun
  • Natural Science Research Project of Shanxi Provincial Department of Science and Technology (Award 20210302123343)
    • Principle Award Recipient: KuiDong
  • Scientific Research Project of Shanxi Provincial Health Commission (Award 2020XM07)
    • Principle Award Recipient: BinSun
  • Health Commission of Shanxi Province (Award 2021XM46)
    • Principle Award Recipient: KuiDong
  • Institute of Chinese Materia Medica, China Academy of Chinese Medical Sciences and Peking Union Medical College (Award 2019YFC1200505)
    • Principle Award Recipient: JianguoXu
  • Chinese Academy of Medical Sciences, from National Key R&D Program of China (Award 2019YFC1200501)
    • Principle Award Recipient: JianguoXu
  • Instituto Nacional de Ciência e Tecnologia dos Hymenoptera Parasitóides da Região Sudeste Brasileira (Award 2018RU010)
    • Principle Award Recipient: JianguoXu
  • Sanming Project of Medicine in Shenzhen (Award SZSM201811071)
    • Principle Award Recipient: JianguoXu
  • National Key R&D Program of China (Award 2018YFC1200102)
    • Principle Award Recipient: JianguoXu
  • National Science and Technology Major Project of China (Award 2018ZX10712001-018)
    • Principle Award Recipient: JianguoXu
  • National Science and Technology Major Project of China (Award 2018ZX10712001-007)
    • Principle Award Recipient: JianguoXu
© 2023 The Authors
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Whole-genome sequencing of Paracoccus species isolated from the healthy human eye and description of Paracoccus shanxieyensis sp. nov
Int J Syst Evol Microbiol 73, 005838 (2023); https://doi.org/10.1099/ijsem.0.005838
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