Bacterial and fungal microbiome dataset from holobionts of CP4-EPSPS-containing hybrids and wild-type in South Korea.

This dataset provides comprehensive profiles of bacterial and fungal communities associated with the holobionts of CP4-EPSPS-containing hybrids and wild-type in a natural roadside habitat. The hybrids were genetically consistent with × origin and possible backcrossing with , though the site and mechanism of hybridization are unclear. A total of 120 holobiont samples, including flowers, leaves, dead leaves, roots, and surrounding soil, were collected from twelve wild-type and twelve hybrid individuals (60 samples per group), in a natural roadside environment.

Ecological impacts of human thioredoxin expression and interspecific hybridization on the soybean rhizosphere microbiome: insights from ASV-level niche analysis.

Genetically modified (GM) soybean (Glycine max) expressing a human thioredoxin (trx) gene under the control of a seed-specific promoter has been developed for cosmetic applications, but its ecological effects remain poorly understood. We examined the rhizosphere microbiomes of GM soybean, wild soybean (Glycine soja), and F interspecific hybrids segregating for the transgene under low-input field conditions. Rhizosphere soil samples were collected at the vegetative and flowering stages, and microbial communities were analyzed via high-throughput sequencing of 16S rRNA and ITS regions.

Phenotypic and chemical characterization of soybean hybrids between genetically modified and wild lines.

This study investigated the morphological, physical, and chemical characteristics of hybrid soybean seeds derived from genetically modified (GM) soybeans ( max) and wild soybeans (), with a primary focus on their nutritional and functional potential in comparison to GM soybeans. The hybrids exhibited reduced stem diameter, smaller leaf area, and delayed flowering compared to their GM parents, but produced higher seed yields despite smaller seed size, indicating a trade-off between vigor and productivity. While amino acid profiles were largely comparable to those of GM soybeans, the hybrids showed significantly higher levels of -linolenic acid (up to 36.

Exploring the metabolome network and phytoremediation potential of wild plant species thriving in a heavy metal-contaminated abandoned mine in Korea.

Heavy metal contamination poses considerable ecological and health risks, particularly in regions affected by abandoned mining operations. This study addresses the limited understanding of the metabolic responses of different wild plant species to heavy metal stress in natural ecosystems and abandoned mine sites. In this study, we aimed to investigate the resilience and metabolic adaptations of plant species thriving in heavy metal-contaminated soils at abandoned mine sites in South Korea.

Ecological Impacts of Sunflowers on Soil Microbial Communities: Insights from Full-Length 16S rRNA Sequencing.

Sunflower (Helianthus annuus L.), a widely cultivated oilseed crop, is occasionally found growing in non-cultivated areas in South Korea, raising concerns about its unintentional potential ecological impacts. This study investigated the effects of two naturalized sunflower cultivars with varying seed dispersal densities on soil microbial communities in a simulated natural ecosystem.

Generalists and keystone species drive rhizosphere microbial diversity and stability in feral Brassica napus.

Brassica napus (rapeseed) is a globally important crop, primarily valued for its oil production. However, feral B. napus in non-agricultural areas remains under-researched.

Draft genome sequence of sp. strain SE-A11 isolated from the rhizosphere of feral in South Korea.

The draft genome of sp. strain SE-A11 bacterium isolated from the rhizosphere of feral in South Korea, represents the first isolate of the genus obtained from a plant rhizosphere. The strain has a genome size of 4,937,440  bp, a G + C content of 66.

Microbial generalists as keystone species: constructing core network modules in the anthosphere of twelve diverse wild plant species.

Background: The anthosphere, also known as the floral microbiome, is a crucial component of the plant reproductive system. Therefore, understanding the anthospheric microbiome is essential to explore the diversity, interactions, and functions of wildflowers that coexist in natural habitats. We aimed to explore microbial interaction mechanisms and key drivers of microbial community structures using 144 flower samples from 12 different wild plant species inhabiting the same natural environment in South Korea.

Effect of rainfall in shaping microbial community during Microcystis bloom in Nakdong River, Korea.

Various environmental factors play a role in the formation and collapse of Microcystis blooms. This study investigates the impact of heavy rainfall on cyanobacterial abundance, microbial community composition, and functional dynamics in the Nakdong River, South Korea, during typical and exceptionally rainy years. The results reveal distinct responses to rainfall variations, particularly in cyanobacterial dominance and physicochemical characteristics.

Microbiome dataset of bacterial and fungal communities in anthosphere of twelve different wild plants in South Korea.

This dataset provides detailed profiles of bacterial and fungal communities associated with flowers (anthosphere) of 12 different plant species collected from remote and secluded locations characterized by a flourishing and diverse plant ecosystem. In total, 144 flower samples were collected from 12 different wild plants. Bacterial 16S rRNA and fungal ITS genes obtained using the Illumina Miseq approach were used to describe the anthosphere.

Vegetation as a key driver of the distribution of microbial generalists that in turn shapes the overall microbial community structure in the low Arctic tundra.

Understanding the variability of microbial niches and their interaction with abiotic and biotic factors in the Arctic can provide valuable insights into microbial adaptations to extreme environments. This study investigates the structure and diversity of soil bacterial communities obtained from sites with varying vegetation coverage and soil biogeochemical properties in the low Arctic tundra and explores how bacteria interact under different environmental parameters. Our findings reveal differences in bacterial composition and abundance among three bacterial niche breadths (specialists, common taxa, and generalists).

Organic Connection of Holobiont Components and the Essential Roles of Core Microbes in the Holobiont Formation of Feral .

(Rapeseed) is an econfomically important oil-producing crop. The microbial interactions in the plant holobiont are fundamental to the understanding of plant growth and health. To investigate the microbial dynamics in the holobiont of feral , a total of 215 holobiont samples, comprised of bulk soil, primary root, lateral root, dead leaf, caulosphere, basal leaf, apical leaf, carposphere, and anthosphere, were collected from five different grassland sites in South Korea.

Microbiome dataset of eukaryotic and fungal communities in the bulk soil and root of wild in South Korea.

This article describes the dataset of the eukaryotic and fungal microbiome in bulk soil and root of wild at five different grassland sites in South Korea. The microbiome datasets were obtained using Illumina MiSeq sequencing of the 18S rRNA gene and ITS1 gene. The raw sequences and metadata used for analysis are available at the National Center for Biotechnology Information (NCBI) (BioProject ID: PRJNA821335).

gen. nov., sp. nov., a new member of the order , isolated from a freshwater aquarium.

A novel bacterium, strain SJAQ100, was isolated from a freshwater aquarium and was characterized taxonomically and phylogenetically. Strain SJAQ100 was a Gram-stain-negative, aerobic, rod-shaped and non-motile bacterium. The strain grew optimally with 0 % NaCl and at 25-37 °C on Reasoner's 2A agar.

Ecological network analysis reveals distinctive microbial modules associated with heavy metal contamination of abandoned mine soils in Korea.

Heavy metal pollution in soil around abandoned mine sites is one of the most critical environmental issues worldwide. Soil microbes form complex communities and perform ecological functions individually or in cooperation with other organisms to adapt to harsh environments. In this study, we investigated the distribution patterns of bacterial and fungal communities in non-contaminated and heavy metal-contaminated soil of the abandoned Samkwang mine in Korea to explore microbial interaction mechanisms and their modular structures.

Seasonal succession of microbes in different size-fractions and their modular structures determined by both macro- and micro-environmental filtering in dynamic coastal waters.

Microbes interact with each other in response to various environmental changes in coastal marine ecosystems. To explore how the macroenvironment (environmental filtering) and species-engineered microenvironment (niche construction) affect the ecological network of the marine microbiome in the highly dynamic coastal waters of Korea, we analyzed the modular structures of the microbial community and identified microbial interconnections in different size fractions for a year. Fluctuations in the macroenvironment, such as temperature and nutrient concentrations driven by seasonal changes, are the major factors in determining successive microbial modules.

sp. nov. isolated from culture of microalga sp.

A novel Gram-stain-negative, aerobic, non-spore-forming, non-motile, and rod-shaped bacterium, strain ETT8 was isolated from a chemostat culture of microalga sp. YC001. Optimal growth was with 0-2% NaCl and at 25-37 °C on R2A medium.

Distribution of Dimethylsulfoniopropionate Degradation Genes Reflects Strong Water Current Dependencies in the Sanriku Coastal Region in Japan: From Mesocosm to Field Study.

Dimethyl sulfide (DMS) is an important component of the global sulfur cycle as it is the most abundant sulfur compound that is emitted the ocean surface to the atmosphere. Dimethylsulfoniopropionate (DMSP), the precursor of DMS, is mainly produced by phytoplankton and is degraded by marine bacteria. To reveal the role of bacteria in the regulation of DMSP degradation and DMS production, mesocosm and field studies were performed in the Sanriku Coast on the Pacific Ocean in northeast Japan.

Unique microbial module regulates the harmful algal bloom (Cochlodinium polykrikoides) and shifts the microbial community along the Southern Coast of Korea.

Harmful algal blooms (HABs) of Cochlodinium (aka Margalefidinium) polykrikoides cause huge economic and ecological damages and thus are considered environmental problems. Previous studies uncovered that the formation and collapse of phytoplankton blooms could be closely related to their associated microbes although their roles in C. polykrikoides bloom have not been elucidated yet.

Network analysis reveals succession of Microcystis genotypes accompanying distinctive microbial modules with recurrent patterns.

Every member of the ecological community is connected via a network of vital and complex relationships, called the web of life. To elucidate the ecological network and interactions among producers, consumers, and decomposers in the Daechung Reservoir, Korea, during cyanobacterial harmful algal blooms (cyanoHAB), especially those involving Microcystis, we investigated the diversity and compositions of the cyanobacterial (16S rRNA gene), including the genotypes of Microcystis (cpcBA-IGS gene), non-cyanobacterial (16S), and eukaryotic (18S) communities through high-throughput sequencing. Microcystis blooms were divided into the Summer Major Bloom and Autumn Minor Bloom with different dominant genotypes of Microcystis.

gen. nov., sp. nov., a novel actinobacterium isolated from a eutrophic lake during the end of cyanobacterial harmful algal blooms, and proposal of fam. nov. in the order .

A novel bacterium, strain Seoho-28, was isolated from a shallow eutrophic lake during the end of cyanobacterial harmful algal blooms and was characterized taxonomically and phylogenetically. Strain Seoho-28 was a Gram-stain-negative, aerobic, rod-shaped and non-motile bacterium. The strain grew optimally with 0 % NaCl and at 25-30 °C on Reasoner's 2A medium.

Characterization of Distinct CyanoHABs-Related Modules in Microbial Recurrent Association Network.

To elucidate the interspecies connectivity between cyanobacteria and other bacteria (non-cyanobacteria) during cyanobacterial harmful algal blooms (cyanoHABs), samples were collected from the Nakdong River, Korea, from June 2016 to August 2017, and microbial recurrent association network (MRAN) analysis was performed to overcome the limitations of conventional network analysis. blooms were tightly linked with in summer and were accompanied by significant changes in the non-cyanobacterial community composition (nCCC) compared to non-bloom period. Riverine bacterial communities could be clearly separated into modules that were involved in the formation, maintenance, and decomposition of cyanoHABs.

The water depth-dependent co-occurrence patterns of marine bacteria in shallow and dynamic Southern Coast, Korea.

To investigate the interactions between bacterial species in relation to the biotic and abiotic environmental fluctuations, free-living (FL), nanoparticle-associated (NP), and microparticle-associated (MP) bacterial community compositions (BCCs) were analyzed. A total of 267 samples were collected from July to December 2016 in the dynamic and shallow southern coastal water of Korea. The variations in BCC mostly depended on planktonic size fraction.