Enhanced Drought and Salt Stress Tolerance in Arabidopsis by Flavobacterium crocinum HYN0056T

설우준,이재훈 한국식물학회 2020 Journal of Plant Biology Vol.63 No.1

Plant growth-promoting bacteria (PGPB) are indigenous to the plant rhizosphere and largely afect many events occurring during the plant life cycle, through either a direct or an indirect mechanism such as regulation of hormonal balance, facilitation of nutrients uptake and improvement of stress tolerance. Since drought stress, a representative abiotic stress, is one of the main reasons limiting plant growth, the identifcation of useful PGPB involved in drought stress resistance in plants and its application into the agricultural feld could be utilized as a strategy to facilitate crop productivity. To obtain a useful PGPB that is involved in drought stress resistance, we checked the expression patterns of drought-inducible marker genes such as RD29A and RAB18 in Arabidopsis after application of 16 Flavobateria obtained from various environmental sources. After screening, a PGPB known as Flavobacterium crocinum HYN0056T, which contributes to more than twofold upregulation of drought-inducible marker genes, was fnally selected for this study. Application of HYN0056T enhanced the tolerance against both drought stress, possibly via induction of stomatal closure, the highly related salt stress, in the presence of HYN0056T . Moreover, treatment of HYN0056T under drought and salt stresses resulted in enhanced upregulation of various drought- and salt-inducible genes in Arabidopsis. HYN0056T was responsible for the development of lateral roots under nonstress condition, implying that it may be involved in efective uptake of water/inorganic nutrients. Based on these results, we suggest that this bacterium could be used as a useful biocontrol agent to improve plant productivity, especially under drought/salt stress conditions.

Metabolome and Transcriptome Analyses Reveal Tissue‑Specifc Variations in Gene Expression and Metabolites of Olive

설우준,이재훈 한국식물학회 2020 Journal of Plant Biology Vol.63 No.1

Metabolome and transcriptional correlation analyses can be used to reveal the relationship between metabolites and gene expression in diferent tissues. Here, targeted metabolome and Illumina RNA-Seq analyses were used for the identifcation of co-regulated metabolites and genes from three diferent tissue of Olea europaea (fruits, new leaves, and old leaves). In total, 57.49 Gb of clean data from nine samples was obtained. The clean data of each sample reached 5.25 Gb, and the Q30 base percentage exceeded 88.44%. Through sequence alignments of clean reads from each sample with the olive reference genome, 3049 newly annotated genes were identifed, of which 2350 were functionally annotated. Diferentially expressed genes (DEGs) and metabolite correlation analysis showed that most of the up-regulated genes in fruits were enriched in fatty acid (FA) biosynthesis metabolic pathways; the up-regulated genes in leaves were mainly related to plant hormones, biotic (abiotic) stress tolerance, signal transduction, and secondary metabolite biosynthesis pathways. The current global gene expression and metabolite content profling exercise provides a comprehensive view of the combination of transcriptome and metabolome data, which provides valuable information for identifying DEGs in olives.

친환경 전기추진선박·선외기 시장동향 및 산업분석

설우준,노창균,차상현,안필립 해양환경안전학회 2022 해양환경안전학회 학술발표대회 논문집 Vol.2022 No.06

Metagenomic Analysis of Chicken Gut Microbiota for Improving Metabolism and Health of Chickens — A Review

최기영,이태권,설우준 아세아·태평양축산학회 2015 Animal Bioscience Vol.28 No.9

Chicken is a major food source for humans, hence it is important to understand the mechanisms involved in nutrient absorption in chicken. In the gastrointestinal tract (GIT), the microbiota plays a central role in enhancing nutrient absorption and strengthening the immune system, thereby affecting both growth and health of chicken. There is little information on the diversity and functions of chicken GIT microbiota, its impact on the host, and the interactions between the microbiota and host. Here, we review the recent metagenomic strategies to analyze the chicken GIT microbiota composition and its functions related to improving metabolism and health. We summarize methodology of metagenomics in order to obtain bacterial taxonomy and functional inferences of the GIT microbiota and suggest a set of indicator genes for monitoring and manipulating the microbiota to promote host health in future.

하수처리장 방류수에 존재하는 항생제 내성인자가 하천에 미치는 영향

장예진,유용재,설우준,차창준,이옥재,채종찬,Jang, Yejin,Yoo, Yong-Jae,Sul, Woo Jun,Cha, Chang-Jun,Rhee, Ok-Jae,Chae, Jong-Chan 한국미생물학회 2017 미생물학회지 Vol.53 No.4

하수처리장 방류수와 하천 중의 항생제 내성인자 분포에 대한 상관성을 분석하기 위해 방류수와 상류 하천수, 하류 하천수를 대상으로 항생제 내성유전자와 전파 관련 유전자를 조사하였다. 3개 지점에서 134~183개의 항생제 내성유전자(ARG) 및 전파 관련 유전자(MGE)가 검출되었으며, 1개의 16S rRNA 유전자에 대한 ARG 및 MGE 유전자의 상대적인 총 합이 0.063~0.422 copy로 분석되었다. ARG와 MGE의 수와 존재량은 방류수에서 가장 높게 검출된 반면, 총 세균 수는 가장 적게 검출됨으로서 하수처리 과정에서 사멸된 세균에 포함된 유전자들이 검출된 것으로 판단된다. 또한 MGE의 존재량 양상이 ARG의 존재량과 상관관계를 보임으로서 항생제 내성균들의 내성기작이 자연내성보다는 획득내성일 가능성을 제시하였다. The antibiotic resistant genes (ARG) and mobile genetic elements (MGE) were investigated with the effluent of waste-water treatment plant (WWTP), and river waters of upstream and downstream in order to elucidate the effect of effluent on antibiotic resistance in a natural river. Total numbers of 134~183 of ARG and MGE were detected and the abundance of ARG and MGE was 0.063~0.422 copies per one of 16S rRNA gene in three water samples. Effluent sample contained the highest amount of the total number and abundance of ARG and MGE whereas total viable cells were observed in the lowest amount among the three samples. This indicated that the genes were originated from cells died during the wastewater treatment process. In addition, the co-relationship of abundance between ARG and MGE suggested that acquired resistance was a prevalent mechanism among the antibiotic-resistant bacteria existing in WWTP.

Cecal microbiome divergence of broiler chickens by sex and body weight

이규찬,길동용,설우준 한국미생물학회 2017 The journal of microbiology Vol.55 No.12

The divergence of gut bacterial community on broiler chickens has been reported as potentially possible keys to enhancing nutrient absorption, immune systems, and increasing poultry health and performance. Thus, we compared cecal bacterial communities and functional predictions by sex and body weight regarding the association between cecal microbiota and chicken growth performance. In this study, a total of 12 male and 12 female 1-day-old broiler chickens were raised for 35 days in 2 separate cages. Chickens were divided into 3 subgroups depending on body weight (low, medium, and high) by each sex. We compared chicken cecal microbiota compositions and its predictive functions by sex and body weight difference. We found that bacterial 16S rRNA genes were classified as 3 major phyla (Bacteroidetes, Firmicutes, and Proteobacteria), accounting for > 98% of the total bacterial community. The profiling of different bacterial taxa and predictive metagenome functions derived from 16S rRNA genes were performed over chicken sex and bodyweight. Male chickens were related to the enrichment of Bacteroides while female chickens were to the enrichment of Clostridium and Shigella. Male chickens with high body weight were associated with the enrichment of Faecalibacterium and Shuttleworthia. Carbohydrate and lipid metabolisms were suggested as candidate functions for weight gain in the males. This suggests that the variation of cecal bacterial communities and their functions by sex and body weight may be associated with the differences in the growth potentials of broiler chickens.

Complete genome sequence of Acidovorax citrulli strain KACC17005, a causal agent for bacterial fruit blotch on watermelon

박혜지,성훈제,설우준,오창식,한상욱,Park, Hye-Jee,Seong, Hoon Je,Sul, Woo Jun,Oh, Chang-Sik,Han, Sang-Wook The Microbiological Society of Korea 2017 미생물학회지 Vol.53 No.4

Acidovorax citrulli 병원세균은 수박에 과실썩음병을 일으킨다. 이 논문에서는 A. citrulli strain KACC17005 균주의 완전한 게놈 서열을 분석하여 보고한다. 게놈은 총 5,349,924 bp로 구성되어 있으며 G + C 함량이 68.54%이다. 단백질을 coding하는 유전자가 총 4,520개이고, 이들 중 적어도 15개의 유전자들은 감수성 식물에서 병원성을 증가시키거나 저항성 식물에서 면역반응을 유도하는데 중요한 제3형 effector 단백질을 코딩하고 있다. Acidovorax citrulli is a causal agent for bacterial fruit blotch on watermelon. Here, we report the complete genome sequence of A. citrulli strain KACC17005. The genome contains 5,349,924 bp with G + C contents of 68.54%, including 4,520 protein coding genes in a circular chromosome. It also possesses at least 15 genes encoding putative type III effector proteins, which may contribute to promoting virulence in susceptible hosts or triggering immune responses in resistant hosts.

Analysis of the Microbiome of the Ear Canal in Normal Individuals and Patients with Chronic Otitis Externa

이지수,이선미,윤이나,신정은,설우준,유다애,최용범,이양원 대한피부과학회 2022 Annals of Dermatology Vol.34 No.6

Background: Recently, microbiome research has been actively conducted for various skinareas. However, no study has yet compared the microbiome of bacteria and fungi in the earcanal of healthy individuals and patients with chronic otitis externa in Korea. Objective: This study aimed to investigate the difference in the distribution of fungal andbacterial microbial communities in ear canal samples of healthy individuals and patientswith chronic otitis externa. Methods: In 24 patients with bilateral chronic otitis externa and 24 healthy controls, cottonswabs were used to obtain samples from the bilateral ear canal. To characterize the fungaland bacterial communities, we sequenced and analyzed the 16S rRNA V4–V5 and ITS1 re-gions using Quantitative Insights into Microbial Ecology 2, respectively. Results: The alpha diversity analysis for bacteria and fungi confirmed that both richnessand evenness decreased in the patient group. The beta diversity analysis for bacteria con-firmed that these parameters differed between the control and patient groups. The beta di-versity analysis for fungi showed no difference between the groups. Conclusion: We observed different skin microbiomes in the patients with chronic otitis ex-terna compared with those in the healthy individuals.

토양오염복원 안정성 평가

박준홍,기동원,Shankar Congeevaram,설우준,James M. Tiedje 대한환경공학회 2006 대한환경공학회 학술발표논문집 Vol.2006 No.12

친환경 스마트 낚시어선(9.77톤) 경제적 타당성 검토

차상현,노창균,안필립,설우준 해양환경안전학회 2022 해양환경안전학회 학술발표대회 논문집 Vol.2022 No.06