Subtercola endophyticus sp. nov., a cold-adapted bacterium isolated from Abies koreana

Abstract

A novel Gram-stain-positive, aerobic bacterial strain, designated AK-R2A1-2 T, was isolated from the surface-sterilized needle leaves of an Abies koreana tree. Strain AK-R2A1-2 T had 97.3% and 96.7% 16S rRNA gene sequence similarities with Subtercola boreus K300T and Subtercola lobariae 9583bT, respectively, but formed a distinct phyletic lineage from these two strains. Growth of strain AK-R2A1-2 T was observed at 4–25 °C at pH 5.0–8.0. Strain AK-R2A1-2 T contained menaquinone 9 (MK-9) and menaquinone 10 (MK-10) as the predominant respiratory quinones. The major cellular fatty acids were anteiso-C15:0 and summed feature 8 (C18:1ω7c or/and C18:1ω6c), and the polar lipids included diphosphatidylglycerol (DPG) and three unknown aminolipids, AKL2, AKL3, and AKL4. The complete genome of strain AK-R2A1-2 T was sequenced to understand the genetic basis of its survival at low temperatures. Multiple copies of cold-associated genes involved in cold-active chaperon, stress response, and DNA repair supported survival of the strain at low temperatures. Strain AK-R2A1-2 T was also able to significantly improve rice seedling growth under low temperatures. Thus, this strain represents a novel species of the genus Subtercola, and the proposed name is Subtercola endophyticus sp. nov. The type strain is AK-R2A1-2 T (= KCTC 49721 T = GDMCC 1.2921 T).

Jeongeuplla avenae gen. nov., sp. nov., a novel β-carotene-producing bacterium that alleviates salinity stress in Arabidopsis

“…Genomic DNA was extracted as previously described ( Jiang et al, 2022 ). After purification, the DNA was sequenced using the PacBio sequel system and the Illumina sequencing platform at the Macrogen facility (Macrogen, Korea), and assembled de novo using the Microbial Assembly application (v8.0).…”

Sphingomonas abietis sp. nov., an Endophytic Bacterium Isolated from Korean Fir

“…For cellular fatty acid analysis, approximately 40 mg of fresh cells from the third quadrant of the streaked plates were collected. The cellular fatty acids were extracted as previously described [ 22 ] using a MIDI Sherlock Microbial Identification System (6.0). The samples were subjected to gas chromatography using a 6890N gas chromatography system (Agilent Technologies, USA), and the data were identified using the TSBA6 database of the Microbial Identification software package [ 31 ].…”

“…In 2011, the International Union for Conservation of Nature (IUCN) identified a Korean fir ( Abies koreana ) as an endangered species in Korea. In recent years, to investigate the bacterial community associated with Korean fir and identify potential bioactive secondary metabolites of the host, we collected leaves from both healthy and diseased firs and analyzed the endophytic bacterial community [ 10 , 22 , 23 ]. In this study, through a polyphasic taxonomic analysis of leaves from a healthy fir, we characterized strain PAMB 00755 T as a novel species in the genus Sphingomonas .…”

Complete Genome Analysis of Subtercola sp. PAMC28395: Genomic Insights into Its Potential Role for Cold Adaptation and Biotechnological Applications

“…The use of Subtercola boreus strain DSM13056 T as a new psychrophilic actinobacterium isolated from groundwater was first mentioned in 2000 [ 10 ]. Subtercola species isolated from cold environments such as high-altitude extreme cold environmental niches, including snowy mountains [ 11 ], cold volcano lakes [ 12 ], glacier cryoconite [ 13 ], and plants from cold environments [ 14 ], have been reported. In addition, through sequence similarity analysis of the 16S rRNA gene and metagenomics analysis (more than 96%), it is possible to identify species related to the Subtercola genus in cold environments, such as the cold habitats of Antarctic and Arctic Oceans.…”

“…Genome sequences of 16 strains belonging to the Subtercola species have been registered in the National Center for Biotechnology Information (NCBI) database. Moreover, Jiang et al [ 14 ] recently discovered a new species within the Subtercola genus. Strain PAMC28395 was obtained from a glacier located in the Rwenzori Mountains, and this study presents the complete genome sequence of this strain.…”