Abstract
A Gram-stain-negative and short rod-shaped strain CBK1P-4T, isolated from surface-sterilized bark of Avicennia marina was investigated by a polyphasic taxonomic approach to resolve its taxonomic position. Strain CBK1P-4T grew at 10–30 °C (optimum, 25 °C), pH 5.0–9.0 (optimum, pH 5.5) and in the presence of 0–9% (w/v) NaCl (optimum, 1–2%). Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain CBK1P-4T belonged to the genus Jiella and was most closely related to species of the genus Jiella (97.4–98.3%). The genome comparisons between strain CBK1P-4T and the closely related species indicated that average nucleotide identity and digital DNA-DNA hybridization values were below the recommended thresholds for assigning strains to the same species (95–96% and 70%, respectively). The cell wall peptidoglycan contained meso-diaminopimelic acid as diagnostic diamino acid. The principal fatty acids were C18:1ω7c and C19:0cycloω8c. The polar lipids were mainly comprised of phosphatidylcholine, diphosphatidylglycerol, phosphatidylglycerol, phosphatidylmonomethylethanolamine, phosphatidylethanolamine, two unidentified aminolipids, one unidentified phospholipid and one unidentified glycolipid. The dominant respiratory quinone was ubiquinone-10. The DNA G + C content of strain CBK1P-4T was 66.7%. Based on the phenotypic features, phylogenetic analysis as well as genome analysis, we conclude that strain CBK1P-4T represents a novel Jiella species, for which the name Jiella avicenniae sp. nov. is proposed. The type strain is CBK1P-4T (= CGMCC 1.18742T = JCM 34330T).
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Data availability
All data generated or analysed during this study are included in this published article, its supplementary information files and GenBank/EMBL/DDBJ. Depositories: Strain CBK1P-4T has been deposited in China General Microbiological Culture Collection Center (CGMCC 1.18742T) and Japan Collection of Microorganisms (JCM 34330T).
Abbreviations
- ANI:
-
Average nucleotide identity
- dDDH:
-
Digital DNA-DNA hybridization
- AutoMLST:
-
Automated multi-locus species tree
- PGAP:
-
Prokaryotic genome annotation pipeline
- COG:
-
Cluster of orthologous groups of proteins
- RAST:
-
Rapid annotation subsystem technology
- GGDC:
-
Genome-to-genome distance calculator
- R2A:
-
Reasoner’s 2A agar
- NA:
-
Nutrient agar
- TSA:
-
Tryptic soy agar
- TSB:
-
Tryptic soy broth
- MA:
-
Marine agar 2216E
- LB:
-
Luria–Bertani agar
- PC:
-
Phosphatidylcholine
- PG:
-
Phosphatidylglycerol
- DPG:
-
Diphosphatidylglycerol
- PE:
-
Phosphatidylethanolamine
- PME:
-
Phosphatidylmonomethylethanolamine
- PL:
-
Phospholipid
- AL:
-
Aminolipid
- GL:
-
Glycolipid
- Q-10:
-
Ubiquinone-10
- WGS:
-
Whole genome sequences
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Funding
This research was supported by the National Natural Science Foundation of China (NSFC, Grant numbers 81960642 and 32200001) and Beijing Natural Science Foundation (Grant number 5224038).
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YZ, FL, M-SC and LT collected plant samples, isolated and initially identified strain CBK1P-4T. YZ wrote initial draft of the manuscript and performed chemotaxonomic analyses. M-SC carried out genome analyses. YZ, M-SC, XM and Z-QZ performed physiological and morphological analyses of the strain. LT conceived and designed the study and revised the manuscript.
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Zhang, Y., Liu, F., Li, FN. et al. Jiella avicenniae sp. nov., a novel endophytic bacterium isolated from bark of Avicennia marina. Arch Microbiol 204, 700 (2022). https://doi.org/10.1007/s00203-022-03320-y
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DOI: https://doi.org/10.1007/s00203-022-03320-y