Unraveling interspecies cross-feeding during anaerobic lignin degradation for bioenergy applications.

Lignin, a major component of plant biomass, remains underutilized for renewable biofuels due to its complex and heterogeneous structure. Although investigations into depolymerizing lignin using fungi are well-established, studies of microbial pathways that enable anaerobic lignin breakdown linked with methanogenesis are limited. Through an enrichment cultivation approach with inoculation of freshwater sediment, we enriched a microbial community capable of producing methane during anaerobic lignin degradation.

Chryseobacterium gotjawalense sp. nov. Isolated from Soil in the Volcanic Forest Gotjawal, Jeju Island.

Strain wdc7, a rod-shaped bacterium, was isolated from soil in the Gotjawal Forest on Jeju Island, South Korea. Strain wdc7 was Gram stain-negative, facultatively anaerobic, catalase- and oxidase positive, yellow pigmented, and non-flagellated. It grew at 4-37 °C and pH 5.

Pangenome analysis provides insights into the genetic diversity, metabolic versatility, and evolution of the genus .

Members of the genus are widely distributed and produce various polysaccharide-degrading enzymes. Many species in the genus have been isolated and characterized. However, few studies have focused on marine isolates or fish pathogens, and in-depth genomic analyses, particularly comparative analyses of isolates from different habitat types, are lacking.

Complete genome sequence of Halomonas alkaliantarctica MSP3 isolated from marine sediment, Jeju Island.

As a moderate halophilic-heterotrophic bacterium, Halomonas alkaliantarctica MSP3 was isolated from marine sediment located in Jeju island, South Korea. The complete genome of strain MSP3 was sequenced and analyzed to reveal its genetic features and metabolic potential. The genome size of MSP3 was about 4.

Sulfitobacter albidus sp. nov., isolated from marine sediment of Jeju Island.

Strain JK7-1 isolated from marine sediment collected from Jeju Island of South Korea was strictly aerobic, Gram-stain-negative, catalase-positive, oxidase-positive, motile, and rod-shaped bacterium that is circular and convex with white pigment. Strain JK7-1 could grow at 10-30 °C and pH 6-9 with 1-6% (w/v) NaCl. Phylogenetic analysis based on its 16S rRNA gene sequence indicated that strain JK7-1 belonged to genus Sulfitobacter, sharing high sequence similarities with Sulfitobacter undariae W-BA2 (97.

Genomic sequence of the non-pathogen Neisseria sp. strain MA1-1 with antibiotic resistance and virulence factors isolated from a head and neck cancer patient.

Recent research has claimed virulence factors or antimicrobial resistance in commensal or non-pathogenic Neisseria spp. This study aimed to isolate and analyze commensal microorganisms related to the genus Neisseria from the oral cavity of a patient with head and neck cancer. We successfully isolated strain MA1-1 and identified its functional gene contents.

Complete genome sequence of marine photoheterotophic bacterium Erythrobacter sp. JK5.

Erythrobacter sp. JK5, a marine heterotrophic bacterium, was isolated from marine sediment in Jeju island, the Republic of Korea. Here, we report information on the complete genome of strain JK5, including a putative capability for photosynthesis.

Salinimonas marina sp. nov. Isolated from Jeju Island Marine Sediment.

A Gram-stain-negative, rod-shaped, and strictly aerobic bacterium designated strain G2-b was isolated from the marine sediment around Jeju Island, South Korea. Strain G2-b was found to be catalase- and oxidase-positive, white-pigmented, motile with polar flagellum, and to grow optimally at 25 °C, pH 7.0 in the presence of 4% (w/v) NaCl.

Parasphingorhabdus halotolerans sp. nov. isolated from marine sediment in Jeju Island.

A Gram-stain-negative, catalase- and oxidase-positive, rod-shaped bacterium, designated as JK6 was isolated from a coastal marine sediment in Jeju Island. Strain JK6 was characterized by polyphasic investigation including genome features. It grew at pH 5.

Draconibacterium halophilum sp. nov., A Halophilic Bacterium Isolated from Marine Sediment.

A Gram-stain-negative, long-rod shaped, and facultatively anaerobic bacterium, designated as strain M1, was isolated from the marine sediment of Jeju Island, South Korea. Strain M1 was found to be catalase- and oxidase-positive, light yellow-pigmented, non-motile, and non-flagellated, growing optimally at 30 °C, pH 7.0, and in the presence of 3% (w/v) NaCl.

sp. nov., isolated from marine sediment.

Strain M2, isolated from marine sediment collected at Jeju Island, was an aerobic, Gram-stain-negative, oxidase- and catalase-positive, motile, rod-shaped bacterium that formed circular, raised, yellow colonies. Strain M2 grew at 15-42 °C, pH 5.5-9.

Genomics Reveals the Metabolic Potential and Functions in the Redistribution of Dissolved Organic Matter in Marine Environments of the Genus .

Members of the bacterial genus have been isolated recently from various marine environments, including marine invertebrates. A metagenomic study of the Deepwater Horizon oil plume has identified genes involved in aromatic hydrocarbon degradation in the genome, shedding light on its potential role in the degradation of crude oils. However, the genomic traits of the genus are not well-characterized, despite the ability of the species to degrade complex natural compounds, such as agar, gelatin, chitin, or starch.

Expanded Diversity and Metabolic Versatility of Marine Nitrite-Oxidizing Bacteria Revealed by Cultivation- and Genomics-Based Approaches.

Nitrite-oxidizing bacteria (NOB) are ubiquitous and abundant microorganisms that play key roles in global nitrogen and carbon biogeochemical cycling. Despite recent advances in understanding NOB physiology and taxonomy, currently very few cultured NOB or representative NOB genome sequences from marine environments exist. In this study, we employed enrichment culturing and genomic approaches to shed light on the phylogeny and metabolic capacity of marine NOB.

sp. nov., a starch-degrading bacterium isolated from marine sediment.

A novel bacterium, designated strain PS13, was isolated from marine sediment collected from the coast of Jeju Island. Strain PS13 was a Gram stain-negative, catalase- and oxidase-positive, aerobic, yellow-pigmented, motile by gliding, and rod-shaped bacterium. Strain PS13 grew optimally at 25 °C and pH 8.

sp. nov., isolated from soil.

Designated strain K5 was isolated from soil on Jeju Island. The bacterium was aerobic, Gram-stain-negative, oxidase-positive, catalase-low activity, motile, short-rod shaped, opaque and formed white colonies that were circular, raised and had entire margins. Strain K5 was able to grow at 15-40 °C, pH 4-9 and at 0-2 % (w/v) NaCl concentration.

Identification of Microbial Profiles in Heavy-Metal-Contaminated Soil from Full-Length 16S rRNA Reads Sequenced by a PacBio System.

Heavy metal pollution is a serious environmental problem as it adversely affects crop production and human activity. In addition, the microbial community structure and composition are altered in heavy-metal-contaminated soils. In this study, using full-length 16S rRNA gene sequences obtained by a PacBio RS II system, we determined the microbial diversity and community structure in heavy-metal-contaminated soil.

Arthrobacter dokdonellae sp. nov., isolated from a plant of the genus Campanula.

A Gram-stain-positive, oxidase- and catalase-positive motile, aerobic, and rod-shaped bacterial strain, designated as DCT-5, was isolated from a native plant belonging to the genus Campanula at Dokdo island, Republic of Korea. Growth of the strain DCT-5 was observed at 15-37°C (optimum 30°C) on R2A broth, pH 6.0-8.

Rhizocompartments and environmental factors affect microbial composition and variation in native plants.

Molecular analysis based on large-scale sequencing of the plant microbiota has revealed complex relationships between plants and microbial communities, and environmental factors such as soil type can influence these relationships. However, most studies on root-associated microbial communities have focused on model plants such as Arabidopsis, rice or crops. Herein, we examined the microbiota of rhizocompartments of two native plants, Sedum takesimense Nakai and Campanula takesimana Nakai, using archaeal and bacterial 16S rRNA gene amplicon profiling, and assessed relationships between environmental factors and microbial community composition.

Correction to: Genomic and metatranscriptomic analyses of carbon remineralization in an Antarctic polynya.

Following publication of the original article [1], the authors identified wrong citations in the maintext.

Pusillimonas thiosulfatoxidans sp. nov., a thiosulfate oxidizer isolated from activated sludge.

A Gram-stain-negative, motile bacterium, designated strain YE3, was isolated from activated sludge obtained from a municipal wastewater treatment plant in Daejeon Metropolitan City, Republic of Korea. The cells were oxidase- and catalase-positive, and grew under aerobic conditions at 10-40 °C (optimum, 30 °C), with 1.0-8.

Genomic and metatranscriptomic analyses of carbon remineralization in an Antarctic polynya.

Background: Polynyas in the Southern Ocean are regions of intense primary production, mainly by Phaeocystis antarctica. Carbon fixed by phytoplankton in the water column is transferred to higher trophic levels, and finally, to the deep ocean. However, in the Amundsen Sea, most of this organic carbon does not reach the sediment but is degraded in the water column due to high bacterial heterotrophic activity.

Draft Genome Sequence of "Candidatus Izimaplasma sp." Strain ZiA1, Obtained from a Toluene-Degrading and Iron-Reducing Enrichment Culture.

Here, we report the draft genome sequence of "Candidatus Izimaplasma sp." strain ZiA1 (1.88 Mb and 29.

Paraburkholderia dokdonella sp. nov., isolated from a plant from the genus Campanula.

The novel Gram-stain-negative, rod-shaped, aerobic bacterial strain DCR-13 was isolated from a native plant belonging to the genus Campanula on Dokdo, an island in the Republic of Korea. Comparative analysis of the 16S rRNA gene sequence indicated that this strain is closely related to Paraburkholderia peleae PP52-1 (98.43% 16S rRNA gene sequence similarity), Paraburkholderia oxyphila NBRC 105797 (98.

Paenibacillus seodonensis sp. nov., isolated from a plant of the genus Campanula.

Strain DCT-19, representing a Gram-stain-positive, rodshaped, aerobic bacterium, was isolated from a native plant belonging to the genus Campanula on Dokdo, the Republic of Korea. Comparative analysis of the 16S rRNA gene sequence showed that this strain was closely related to Paenibacillus amylolyticus NRRL NRS-290 (98.6%, 16S rRNA gene sequence similarity), Paenibacillus tundrae A10b (98.