Fulvimarina
            manganoxydans sp. nov., isolated from a deep-sea hydrothermal plume in the south-west Indian Ocean

Ren, Fei; Zhang, Limin; Song, Lei; Xu, Shiyao; Xi, Lijun; Huang, Li; Huang, Ying; Dai, Xin

doi:10.1099/ijs.0.060558-0

Cited by 13 publications

(4 citation statements)

References 20 publications

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“…The depth of sequencing coverage was 256× after assembly combined the sequence obtained on PacBio Sequel System and the Illumina platform. The G + C content of the genome was 69.1%, which aligns with the G + C content reported for other genera within the family Aurantimonadaceae (Denner et al, 2003;Ren et al, 2014;Liang et al, 2015;Zhang K. et al, 2020). Gene annotation using the Prokaryotic Genome Annotation Pipeline (PGAP) from the NCBI database identified a total of 5,558 proteincoding genes and 69 RNA genes, including four 5S rRNA genes, four Cell size (μm) 0.9-1.1 × 0.9-2.2 0.7-1 × 1.1-1.…”

Section: Genome Annotationsupporting

confidence: 85%

“…Ubiquinone is the major quinone, the main constituent fatty acids are C 18:1 ω7c and C 19:0 cyclo ω8c, and the most abundant polar lipids are phosphatidylglycerol, diphosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine, and phosphatidylmonomethylethanolamine ( Hördt et al, 2020 ). Members of this family have been found in a wide range of environments, including seawater ( Liang et al, 2015 ), plant philosopher and endophytes ( Li et al, 2018 ; Chen et al, 2022 ), hydrothermal plumes ( Ren et al, 2014 ), soil ( Lin et al, 2013 ), lichens ( Zhang K. et al, 2020 ), ice cores ( Guo et al, 2017 ), and coral ( Denner et al, 2003 ). Carotenoids are often present in members of this family, which produce pigments of varying brownish-yellow shades ( Cho and Giovannoni, 2003 ), yellow ( Li et al, 2017 ), pale yellow ( Denner et al, 2003 ), and golden orange ( Denner et al, 2003 ).…”

Section: Introductionmentioning

confidence: 99%

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

Jiang,

Peng,

Kim

et al. 2023

Front. Microbiol.

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A novel endophytic bacterium, designated DY-R2A-6T, was isolated from oat (Avena sativa L.) seeds and found to produces β-carotene. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain DY-R2A-6T had 96.3% similarity with Jiella aquimaris LZB041T, 96.0% similarity with Aurantimonas aggregate R14M6T and Aureimonas frigidaquae JCM 14755T, and less than 95.8% similarity with other genera in the family Aurantimonadaceae. The complete genome of strain DY-R2A-6T comprised 5,929,370 base pairs, consisting of one full chromosome (5,909,198 bp) and one plasmid (20,172 bp), with a G + C content was 69.1%. The overall genome-related index (OGRI), including digital DNA–DNA hybridization (<20.5%), ANI (<79.2%), and AAI (<64.2%) values, all fell below the thresholds set for novel genera. The major cellular fatty acids (>10%) of strain DY-R2A-6T were C16:0, C19:0 cyclo ω8c, and summed feature 8 (C18:1ω7c and/or C18:1ω6c). Ubiquinone-10 was the main respiratory quinone. We identified the gene cluster responsible for carotenoid biosynthesis in the genome and found that the pink-pigment produced by strain DY-R2A-6T is β-carotene. In experiment with Arabidopsis seedlings, co-cultivation with strain DY-R2A-6T led to a 1.4-fold increase in plant biomass and chlorophyll content under salt stress conditions, demonstrating its capacity to enhance salt stress tolerance in plants. Moreover, external application of β-carotene to Arabidopsis seedlings under salt stress conditions also mitigated the stress significantly. Based on these findings, strain DY-R2A-6T is proposed to represent a novel genus and species in the family Aurantimonadaceae, named Jeongeuplla avenae gen. nov., sp. nov. The type strain is DY-R2A-6T (= KCTC 82985T = GDMCC 1.3014T). This study not only identified a new taxon but also utilized genome analysis to predict and confirm the production of β-carotene by strain DY-R2A-6T. It also demonstrated the ability of this strain to enhance salt stress tolerance in plants, suggesting potential application in agriculture to mitigate environmental stress in crops.

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Section: Genome Annotationsupporting

confidence: 85%

Section: Introductionmentioning

confidence: 99%

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

Jiang,

Peng,

Kim

et al. 2023

Front. Microbiol.

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“…Cao et al (2017) reported a novel thermophilic sulfur-reducing bacterium, Desulfurobacteium indicum from sulfide sample collected from a depth at 2771 m from a high temperature hydrothermal vent in the Indian Ocean. Ren et al (2014) reported a Mn-oxidizing bacterial strain, Fulvimarina manganooxydans from a Fe and Mn-rich hydrothermal plume in the south-west Indian Ocean. Wang J. et al (2020) reported a novel planctomycete, Gimesia benthica, from the bottom water samples collected with a multi-corer from a depth of 4213 m in Northwest Indian Ocean.…”

Section: Bacterial Diversity Of the Abyssal Regions Of The Indian Ocean Inferred Using Culturing Methodsmentioning

confidence: 99%

Bacterial and Fungal Diversity in Sediment and Water Column From the Abyssal Regions of the Indian Ocean

2021

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The deep sea is the largest environment on Earth, comprising important resources of commercial interest. It is composed of a wide variety of ecosystems, which is home to often unique organisms that are yet to be described. The deep-sea is one of the least studied environments, where research is strongly linked to technological access and advances. With the recent advances in the next-generation sequencing and bioinformatics tools, there is an enhanced understanding of microbial diversity and ecological functions in deep sea. Multidisciplinary programs are being undertaken to investigate into microbial communities in diverse marine environments. As compared to other Oceans, the deeper parts of Indian Ocean are still poorly sampled and studied for bacterial, and more so fungal diversity. The studies reporting usage of modern sequencing tools to describe uncultured microbial diversity have seen a rise in numbers in the last decade. In this review, we summarize the important findings of research works carried on bacterial and fungal diversity from the abyssal regions of the Indian Ocean and provide our views on possible future paths.

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“…The major named fatty acids are usually C 18 : 1 ω7 c and C 19 : 0 cyclo ω 8 c [2]. Members of the family Aurantimonadaceae have been isolated from various environments such as offshore surface seawater [3], deep-sea sediment [4], water-cooling system [5], surface-sterilized root of a halophyte [6], terrestrial saline spring [7], deep-sea hydrothermal vent plume [8] and poplar tree bark [9]. This study focuses on the description of a novel genus and species with the type strain R10 T was isolated from Antarctic gravel soil.…”

Section: Full-textmentioning

confidence: 99%

Antarcticirhabdus aurantiaca gen. nov., sp. nov., isolated from Antarctic gravel soil

Zhang

et al. 2023

International Journal of Systematic and Evolutionary Microbiology

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Strain R10T was isolated from a gravel soil sample obtained from Deception Island, Antarctica. The isolate was a Gram-stain-negative, strictly aerobic, motile, short-rod-shaped bacterium, and its colonies were orange yellow in colour. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain R10T belonged to the family Aurantimonadaceae and shared highest sequence similarity with Jiella aquimaris LZB041T (96.3 % sequence similarity), Aurantimonas aggregata R14M6T (96.0 %) and Aureimonas frigidaquae JCM 14755T (96.0 %). Phylogenetic analysis showed that strain R10T affiliated with members of the family Aurantimonadaceae and represented an independent lineage. Growth occurred at 10–37 °C (optimum, 28–32 °C), up to 1.0 % (w/v) NaCl (optimum, 0 %) and pH 5.5–9.0 (optimum, pH 7.0). The major respiratory quinone of strain R10T was Q-10. Its major fatty acids were C18 : 1 ω7c and C16 : 0. The polar lipid profile of strain R10T comprised diphosphatidylglycerol, phosphatidylmonomethylethanolamine, phosphatidylethanolamine, phosphatidylglycerol, two unknown phospholipids and two unknown aminophospholipids. The genome of strain R10T was 5.92 Mbp with a G+C content of 69.1 % based on total genome calculations. Average nucleotide identity (ANI) values between R10T and other related species of the family Aurantimonadaceae were found to be low (ANIm <87.0 %, ANIb <75.0 % and OrthoANIu <77.0 %). Furthermore, digital DNA–DNA hybridization (dDDH) and average amino acid identity (AAI) values between strain R10T and the closely related species ranged from 19.5–20.6% and from 60.6–64.0 %, respectively. Based on the results of our phylogenetic, phenotypic, genotypic and chemotaxonomic analyses, it is concluded that strain R10T represents a novel genus and species of the family Aurantimonadaceae , for which the name Antarcticirhabdus aurantiaca gen. nov., sp. nov. is proposed. The type strain is R10T (=KCTC 72466T=CGMCC 1.17155T).

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Fulvimarina manganoxydans sp. nov., isolated from a deep-sea hydrothermal plume in the south-west Indian Ocean

Cited by 13 publications

References 20 publications

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

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

Bacterial and Fungal Diversity in Sediment and Water Column From the Abyssal Regions of the Indian Ocean

Antarcticirhabdus aurantiaca gen. nov., sp. nov., isolated from Antarctic gravel soil

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