Abstract
A polyphasic taxonomic approach was used to characterize a novel bacterium, designated strain CC-YST705T, isolated from poultry manure sampled in Taiwan. Cells of strain CC-YST705T were aerobic, Gram-stain-negative, non-motile, non-spore-forming rods, displaying positive reactions for catalase, oxidase and β-glucosidase. Optimal growth occurred at 30 °C and pH 8. Strain CC-YST705T shared the highest (> 96.0%) pair-wise 16S rRNA gene sequence similarity with Pusillimonas noertemannii (96.7%), followed by Pusillimonas caeni (96.6%), Eoetvoesia caeni (96.1%) and Paracandidimonas soli (96.0%), and formed a distinct phyletic lineage associate with the clade that accommodated Pusillimonas species. The draft genome (3.1 Mb) having 57.4 mol % G + C content contained genes involved in the catabolism of aromatic hydrocarbons. The orthologous average nucleotide identity (OrthoANI) values were 62.8–73.1% (n = 8), 72.6 (n = 1), 71.5% (n = 1) compared within the type strains of the genera Pusillimonas, Eoetvoesia and Paracandidimonas, respectively. The polar lipid profile consisted of phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, one unidentified aminolipid, two unidentified phospholipids and five unidentified lipids. The major polyamine was spermidine. The dominating cellular fatty acids (> 5%) included C12:0, C16:0, C17:0 cyclo, C19:0 cyclo ω8c and 2 C14:0 3OH/iso-C16:1 I. Based on its distinct phylogenetic, phenotypic and chemotaxonomic traits together with results of comparative 16S rRNA gene sequence, OrthoANI, digital DDH, and the phylogenomic placement, strain CC-YST705T is considered to represent a novel species of the genus Pusillimonas, for which the name Pusillimonas faecipullorum sp. nov. is proposed. The type strain is CC-YST705T (= BCRC 81285 T = JCM 34168 T).
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Abbreviations
- AL:
-
Aminolipid
- AAI:
-
Average amino acid identity
- BCRC:
-
Bioresource Collection and Research Center
- DPG:
-
Diphosphatidylglycerol
- DSMZ:
-
Deutsche Sammlung von Mikroorganismen und Zellkulturen
- dDDH:
-
Digital DNA–DNA hybridization
- FAME:
-
Fatty acid methyl esters
- JCM:
-
Japan collection of microorganisms
- MA:
-
Marine agar
- MIDI:
-
Microbial identification system
- ML:
-
Maximum-likelihood
- rMLST:
-
Ribosomal multilocus sequence typing
- MP:
-
Maximum-parsimony
- NA:
-
Nutrient agar
- NB:
-
Nutrient broth
- ND:
-
No data available
- NJ:
-
Neighbor-joining
- OrthoANI:
-
Orthologous average nucleotide identity
- PE:
-
Phosphatidylethanolamine
- PG:
-
Phosphatidylglycerol
- PGAP:
-
Genome annotation pipeline
- PL:
-
Phospholipid
- R2A:
-
Reasoner’s 2A
- tr:
-
Trace (< 1.0%)
- TSA:
-
Tryptic soy agar
- UBCG:
-
Up-to-date bacterial core gene
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Funding
This work was financially supported by the Ministry of Science and Technology (Taiwan) under Grant No. MOST 110-2811-B-005-018 by the “Innovation and Development Center of Sustainable Agriculture” from The Featured Areas Research Center Program within the framework of the Higher Education Sprout Project by the Ministry of Education (MOE) in Taiwan.
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SL analyzed most of the data and wrote the manuscript. AH contributed to describe the gene annotation and analyze the polar lipid profiles. CT was contributed to re-construct the UBCG analysis and analyze the polar lipid profiles. YT was contributed to isolate the novel micro-organism. All authors discussed the results and revised the manuscript.
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Communicated by Erko Stackebrandt.
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The GenBank/EMBL/DDBJ accession numbers for the 16S rRNA gene sequence and the draft genome of strain CC-YST705T are MT150714 and JACDXW010000000, respectively.
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203_2022_2859_MOESM1_ESM.docx
Figure S1. Transmission electron micrograph of negatively stained cells of strain CC-YST705T after growth in nutrient broth at 30 °C for 48 h Figure S2. Two-dimensional thin layer chromatographs showing the polar lipids of strain CC-YST705T (a), Pusillimonas caeni JCM 30463T (b) and Paracandidimonas soli DSM 100048T (c). Total polar lipids were stained with 10% ethanolic molybdatophosphoric acid; aminolipids were detected with a 0.2% (w/v) solution of ninhydrin in butanol; phospholipids were detected with Dittmer and Lester’s Zinzadze reagent; glycolipids were detected with α-naphthol spray reagent and quaternary nitrogen compounds were detected with Dragendorff reagent. Abbreviation: AL, unknown aminolipid; GL, glycolipid; PE, phosphatidylethanolamine; PG, phosphatidylglycerol; PL, unknown phospholipid (DOCX 1922 KB)
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Lin, SY., Hameed, A., Tsai, CF. et al. Pusillimonas faecipullorum sp. nov., isolated from the poultry manure. Arch Microbiol 204, 256 (2022). https://doi.org/10.1007/s00203-022-02859-0
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DOI: https://doi.org/10.1007/s00203-022-02859-0