A report of 22 unrecorded bacterial species in Korea in the phyla Bacteroidetes and Rhodothermaeota

Lee, Do-Hoon,Jang, Ho-Jin,Bae, Jin-Woo,Cho, Jang-Cheon,Jang, Kwang-Yeop,Joh, Ki-seong,Seong, Chi-Nam,Cha, Chang-Jun The National Institute of Biological Resources 2018 Journal of species research Vol.7 No.2

A total of 22 bacterial strains belonging to the phylum Bacteroidetes were isolated primarily from aquatic environments such as seawater, freshwater, lagoon and tidal flat. One of these 22 strains was isolated from ginseng soil. Phylogenetic analyses based on 16S rRNA gene sequences revealed that 21 strains showed the high sequence similarities(${\geq}98.7%$) to the closest type strains and formed robust phylogenetic clades with closely related species in the phylum Bacteroidetes. One strain, which had been previously classified as Balneola vulgaris in the phylum Bacteroidetes, was identified as a member of the newly described phylum Rhodothermaeota. These strains had not been previously reported in Korea. Here, we report 21 species of 13 genera in the phylum Bacteroidetes and one species in the phylum Rhodothermaeota which were not reported in Korea. Morphological, biochemical, and physiological characteristics, isolation sources, and NIBR deposit numbers are described in the species descriptions.

Succession of bacterial community structure during the early stage of biofilm development in the Antarctic marine environment

이영미,조경희,황규인,김은혜,김민철,홍순규,이홍금,Lee, Yung Mi,Cho, Kyung Hee,Hwang, Kyuin,Kim, Eun Hye,Kim, Mincheol,Hong, Soon Gyu,Lee, Hong Kum The Microbiological Society of Korea 2016 미생물학회지 Vol.52 No.1

부유 세균의 군집과 구별되는 생물막내 세균 군집은 다양한 수생태계에서 중요한 생태학적 역할을 수행한다. 자연계에서 생물막이 생태학적으로 중요함에도 불구하고, 남극 해양 환경에서 생물막 형성 과정 동안의 세균 군집 구조와 그들의 변화에 대한 연구는 수행되지 않았다. 본 연구에서, 남극 해양 환경에서 생물막 형성 초기 단계에서의 세균 군집 구조 변화를 16S rRNA 유전자의 pyrosequencing을 통해 수행하였다. 생물막내 전반적인 세균 군집은 주변의 해수의 군집과 매우 달랐다. 전체 세균 군집의 78.8%에서 88.3%를 차지한 Gammaproteobacteria와 Bacteroidetes의 상대적 풍부도는 생물막의 형성에 따라 급격하게 변하였다. Gammaproteobacteria는 생물막 형성 진행에 따라 증가하다가 (4일째에 75.7%), 7일째에 46.1%로 감소하였다. 반면, Bacteroidetes는 초기에서 중기로 갈수록 감소하다가 다시 증가하는 양상을 보이며, Gammaproteobacteria와 반대의 변화 양상을 나타내었다. 생물막 형성의 초기 과정에 우점 하는 OTU (>1%)들의 변화 양상은 시기에 따라 뚜렷한 차이를 보였다. Gammaproteobacteria에 속하는 종의 경우, 4일째까지 증가한 반면, 첫째날 가장 우점 하였던 문인 Bacteroidetes에 속하는 종은 4일째까지 감소한 후, 다시 증가하는 양상을 보였다. 흥미롭게, Pseudoalteromonas prydzensis가 67.4%를 차지하며 우점 하였는데, 이는 생물막 형성에 이 종이 중요한 역할을 수행함을 시사하는 것으로 보인다. Compared to planktonic bacterial populations, biofilms have distinct bacterial community structures and play important ecological roles in various aquatic environments. Despite their ecological importance in nature, bacterial community structure and its succession during biofilm development in the Antarctic marine environment have not been elucidated. In this study, the succession of bacterial community, particularly during the early stage of biofilm development, in the Antarctic marine environment was investigated by pyrosequencing of the 16S rRNA gene. Overall bacterial distribution in biofilms differed considerably from surrounding seawater. Relative abundance of Gammaproteobacteria and Bacteroidetes which accounted for 78.9-88.3% of bacterial community changed drastically during biofilm succession. Gammaproteobacteria became more abundant with proceeding succession (75.7% on day 4) and decreased to 46.1% on day 7. The relative abundance of Bacteroidetes showed opposite trend to Gammaproteobacteria, decreasing from the early days to the intermediate days and becoming more abundant in the later days. There were striking differences in the composition of major OTUs (${\geq}1%$) among samples during the early stages of biofilm formation. Gammaproteobacterial species increased until day 4, while members of Bacteroidetes, the most dominant group on day 1, decreased until day 4 and then increased again. Interestingly, Pseudoalteromonas prydzensis was predominant, accounting for up to 67.4% of the biofilm bacterial community and indicating its important roles in the biofilm development.

A report of 22 unrecorded bacterial species in Korea in the phyla Bacteroidetes and Rhodothermaeota

이도훈,차창준,조장천,장광엽,조기성,성치남,배진우 국립생물자원관 2018 Journal of species research Vol.7 No.2

A total of 22 bacterial strains belonging to the phylum Bacteroidetes were isolated primarily from aquatic environments such as seawater, freshwater, lagoon and tidal flat. One of these 22 strains was isolated from ginseng soil. Phylogenetic analyses based on 16S rRNA gene sequences revealed that 21 strains showed the high sequence similarities (≥98.7%) to the closest type strains and formed robust phylogenetic clades with closely related species in the phylum Bacteroidetes. One strain, which had been previously classified as Balneola vulgaris in the phylum Bacteroidetes, was identified as a member of the newly described phylum Rhodothermaeota. These strains had not been previously reported in Korea. Here, we report 21 species of 13 genera in the phylum Bacteroidetes and one species in the phylum Rhodothermaeota which were not reported in Korea. Morphological, biochemical, and physiological characteristics, isolation sources, and NIBR deposit numbers are described in the species descriptions.

Report on 14 unrecorded bacterial species in Korea that belong to the phyla Bacteroidetes and Deinococcus-Thermus

Chun, Jeesun,Bae, Jin-Woo,Cha, Chang-Jun,Cho, Jang-Cheon,Chun, Jongsik,Im, Wan-Taek,Jeon, Che Ok,Joh, Kiseong,Kim, Seung Bum,Seong, Chi Nam,Yoon, Jung-Hoon,Jahng, Kwang Yeop The National Institute of Biological Resources 2015 Journal of species research Vol.4 No.2

As a result of the research project 'Survey and excavation of Korean indigenous species' to secure unrecorded species in Korea, a total of 14 unreported bacterial strains assigned to the phyla Deinococcus-Thermus and Bacteroidetes were isolated from various environmental habitats all around Korea. On the basis of 16S rRNA gene sequence similarity and affiliation to the clade with the closest species, it was concluded that the isolates represent deep groups of the phyla Deinococcus-Thermus and Bacteroidetes. There have been no records about these 14 unreported species in Korea; therefore 2 species of 2 genera in the class Deinococci within the phylum Deinococcus-Thermus, and 11 species of 9 genera in the class Flavobacteriia and one species in one genus in the class Sphigobacteriia within the phylum Bacteroidetes are described as unreported species found in Korea. Gram staining reaction, morphological and other biochemical characteristics are described in the species description section.

Report on 14 unrecorded bacterial species in Korea that belong to the phyla Bacteroidetes and Deinococcus-Thermus

Jeesun Chun,Jin-Woo Bae,CHANG-JUN CHA,조장천,JONGSIK CHUN,임완택,Che Ok Jeon,KISEONG JOH,김승범,성치남,Jung-Hoon Yoon,Kwang-Yeop Jahng 국립생물자원관 2015 Journal of species research Vol.4 No.2

As a result of the research project ‘Survey and excavation of Korean indigenous species’ to secure unrecorded species in Korea, a total of 14 unreported bacterial strains assigned to the phyla Deinococcus- Thermus and Bacteroidetes were isolated from various environmental habitats all around Korea. On the basis of 16S rRNA gene sequence similarity and affiliation to the clade with the closest species, it was concluded that the isolates represent deep groups of the phyla Deinococcus-Thermus and Bacteroidetes. There have been no records about these 14 unreported species in Korea; therefore 2 species of 2 genera in the class Deinococci within the phylum Deinococcus-Thermus, and 11 species of 9 genera in the class Flavobacteriia and one species in one genus in the class Sphigobacteriia within the phylum Bacteroidetes are described as unreported species found in Korea. Gram staining reaction, morphological and other biochemical characteristics are described in the species description section.

Flavobacterium aquaticum sp. nov., a Member of the Bacteroidetes Isolated from a Freshwater Reservoir

이시원,이정남,안태영 한국미생물학회 2013 The journal of microbiology Vol.51 No.3

A novel bacterial strain, designated ARSA-111T, was isolated from a freshwater reservoir in Cheonan, Korea. Phylogenetic analysis based on 16S rRNA gene sequences suggested that the isolate belonged to the genus Flavobacterium of phylum Bacteroidetes. The 16S rRNA gene sequence of strain ARSA-111T showed a high degree of sequence similarity to those of Flavobacteium cheonanense KACC 14972T (97.3%), F. aquatile JCM 20475T (97.1%), and other type strains of the genus Flavobacterium (<97.0%). The phylogenetic tree and network analysis (i.e. median-joining) based on 16S rRNA gene sequences showed that strain ARSA-111T is most closely related to F. aquatile JCM 20475T. DNA-DNA hybridization experiment revealed <70% of genomic relatedness among strain ARSA-111T, F. aquatile JCM 20475T and F. cheonanense KACC 14972T. The isolate had iso-C15:1, iso-C15:0, and iso-C15:0 3-OH as predominant cellular fatty acids and MK-6 as a predominant menaquinone. The genomic DNA G+C content of the isolate was 35.6 mol%. On the basis of these data, strain ARSA-111T is considered to be a novel species of the genus Flavobacterium, for which the name Flavobacterium aquaticum sp. nov. is proposed. The type strain is strain ARSA-111T (=KACC 14973T =KCTC 23185T = JCM 17070T).

성인 남성의 유산소 운동능력과 장내미생물 조성 요인과의 관계

윤소미(Yun, Somi),이미영(Lee, Miyoung),이대택(Lee, Dae Taek) 한국웰니스학회 2022 한국웰니스학회지 Vol.17 No.4

이 연구는 최대산소섭취량(Maximum oxygen uptake, VO₂max)에 따른 장내미생물 조성 요인과의 관계를 분석하였다. 총 32명의 건강한 성인 남성이 참여하였으며, 대상자를 선정 시, 식이, 장건강, 신체활동 상태를 파악하였다. VO₂max 측정 값에 따라 유산소 운동능력이 낮은 그룹(Low Group, LG, n=16, 29.5±5.0 yrs, 175.8±4.7 cm, 78.5±11.9 kg, 25.3±3.2 kg/m², 36.9±4.3 ml/kg/min)과 높은 그룹(High Group, HG, n=16, 27.6±4.9 yrs, 175.3±4.0 cm, 74.6±8.7 kg, 24.3±2.7 kg/m², 45.6±5.0 ml/kg/min)으로 분류하였다. 모든 대상자들은 운동부하검사 시기에 맞춰, 일주일간 식이를 조사하였으며, 장내미생물 검사를 위해 10시간 공복을 유지하였고, 기상 후 첫 번째 채변을 획득하였다. 그룹 간 비교 결과, Bacteroidetes는 HG가 높고(t=-2.349 p=0.026), Firmicutes는 HG가 낮아(t=-2.252 p=0.032) 통계적으로 유의한 차이가 나타났다. F/B ratio에서도 HG에서 더 낮은 결과를 보여 그룹 간 유의한 차이가 나타났다(t=-2.092 p=0.045). VO₂max와 장내미생물의 다양성 지표 및 Phylum의 상관관계는 니타나지 않았다. 본 연구 결과, 유산소 운동능력이 좋은 사람은 건강한 사람에게 나타나는 주요 장내미생물 분포와 일치하였다. 추후 세부적인 연구를 통한 추가 검증이 필요할 것이다. This study analyze the relationships between the gut microbiome composition and the maximum oxygen uptake (VO2max) level. A total of 32 healthy adult males whose diet, intestinal health and physical activity status were identified, were recruited. Based on VO₂max level, subjects were divided into two groups; low (Low Group, LG, n=16, 29.5±5.0 yrs, 175.8±4.7 cm, 78.5±11.9 kg, 25.3±3.2 kg/m², 36.9±4.3 ml/kg/min) and high aerobic exercise capacity groups (High Group, HG, n=16, 27.6±4.9 yrs, 175.3±4.0 cm, 74.6±8.7 kg, 24.3±2.7 kg/m2, 45.6±5.0 ml/kg/min). All subjects kept their 1-week dietary records matching time with an exercise stress test. The first stool sample was taken after 10 hour fasting for analysis of intestinal microbiome. When comparing groups, Bacteroidetes were significantly high in HG (t=-2.349 p=0.026) and Firmicutes were significantly low in HG (t=-2.252 p=0.032). The F/B ratio also showed a lower value in HG than LG (t=-2.092 p=0.045). There was no correlation between VO₂max and intestinal microbial diversity index and Phylum. As a result, it was found that a person with high aerobic capacity showed a healthy gut microbiome distribution. Additional studies for verifying these responses were granted.

A report of 9 unrecorded radiation resistant bacterial species in Korea

강명석,스리니바산 사티야라지 국립생물자원관 2017 Journal of species research Vol.6 No.2

Five bacterial strains, ES10-3-3-1, KKM10-2-2-1, Ant11, JM10-4-1-3, and KMS4-11 assigned to the genus Deinococcus were isolated from soil samples collected from Namyangju-si in Gyeonggi-do, Gangnam-gu and Dongdaemun-gu in Seoul, Korea. In addition, four bacterial strains, KKM10-2-7-2, JM10-2-5, JM10-2-6-2, and KKM10-2-3 assigned to the genus Hymenobacter were isolated from soil samples collected from Gangnam-gu and Dongdaemun-gu in Seoul, in South Korea. The five Deinococcus species were Gram-stain positive, pink-pigmented, and short-rod or coccus shaped. The four Hymenobacter species were Gram-stain negative, red-pigmented, and short-rod shaped. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strains ES10-3-3-1, KKM10-2-2-1, Ant11, JM10-4-1-3, and KMS4-11 were most closely related to Deinococcus citri NCCP-154T (with 99.8% similarity), Deinococcus grandis DSM 12784T (99.0%), Deinococcus marmoris DSM 12784T (98.8%), Deinococcus claudionis PO-04-19-125T (98.7%), and Deinococcus radioresistens 8AT (99.8%), respectively. KKM10-2-7-2, JM10-2-5, JM10-2-6-2, and KKM10-2-3 were most closely related to Hymenobacter algoricola VUG-A23aT (99.1% similarity), Hymenobacter elongatus VUG-A112T (99.1% similarity), Hymenobacter gelipurpurascens Txg1T (99.1% similarity), and Hymenobacter psychrotolerans Tibet-IIU11T (99.3% similarity), respectively. These nine species have never been reported in Korea; thus, five Deinococcus species are reported in the family Deinococcaceae, order Deinococcales, class Deinococci, phylum Deinococcus-Thermus and four Hymenobacter species are reported in the family Cytophagaceae, order Cytophagales, class Cytophagia, phylum Bacteroidetes.

A report of 9 unrecorded radiation resistant bacterial species in Korea

Kang, Myung-Suk,Srinivasan, Sathiyaraj The National Institute of Biological Resources 2017 Journal of species research Vol.6 No.2

Five bacterial strains, ES10-3-3-1, KKM10-2-2-1, Ant11, JM10-4-1-3, and KMS4-11 assigned to the genus Deinococcus were isolated from soil samples collected from Namyangju-si in Gyeonggi-do, Gangnam-gu and Dongdaemun-gu in Seoul, Korea. In addition, four bacterial strains, KKM10-2-7-2, JM10-2-5, JM10-2-6-2, and KKM10-2-3 assigned to the genus Hymenobacter were isolated from soil samples collected from Gangnam-gu and Dongdaemun-gu in Seoul, in South Korea. The five Deinococcus species were Gram-stain positive, pink-pigmented, and short-rod or coccus shaped. The four Hymenobacter species were Gram-stain negative, red-pigmented, and short-rod shaped. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strains ES10-3-3-1, KKM10-2-2-1, Ant11, JM10-4-1-3, and KMS4-11 were most closely related to Deinococcus citri $NCCP-154^T$ (with 99.8% similarity), Deinococcus grandis DSM $12784^T$ (99.0%), Deinococcus marmoris DSM $12784^T$ (98.8%), Deinococcus claudionis $PO-04-19-125^T$ (98.7%), and Deinococcus radioresistens $8A^T$ (99.8%), respectively. KKM10-2-7-2, JM10-2-5, JM10-2-6-2, and KKM10-2-3 were most closely related to Hymenobacter algoricola $VUG-A23a^T$ (99.1% similarity), Hymenobacter elongatus $VUG-A112^T$ (99.1% similarity), Hymenobacter gelipurpurascens $Txg1^T$ (99.1% similarity), and Hymenobacter psychrotolerans $Tibet-IIU11^T$ (99.3% similarity), respectively. These nine species have never been reported in Korea; thus, five Deinococcus species are reported in the family Deinococcaceae, order Deinococcales, class Deinococci, phylum Deinococcus-Thermus and four Hymenobacter species are reported in the family Cytophagaceae, order Cytophagales, class Cytophagia, phylum Bacteroidetes.

건강한 성인의 유산소 운동강도에 따른 장내미생물 구성요인 변화(변화추이 분석)

윤소미,이미영,이대택 한국체육측정평가학회 2022 한국체육측정평가학회지 Vol.24 No.3

This study analyzed changes in the phylum component of intestinal microbes after performing aerobic exercise by exercise intensity for 4 weeks. A total of 24 men volunteered for the study and they were evenly divided into three groups; Non-Exercise Group (NEG, 28.6±5.3 yrs, 176.0±7.8 cm, 81.3±14.6 kg), Moderate Intensity Exercise Group (MIEG, 26.5±3.3 yrs, 176.9±5.0 cm, 75.4±9.5 kg) and Vigorous Intensity Exercise Group (VIEG, 30.6±5.9 yrs, 174.2±3.5 cm, 77.8±12.2 kg). For the inclusion in the study, their physical activity level, intestinal health status, disease prevalence, medical history, and eating disorder were assessed. The basal level of gut microbiome in all participants was examined by stools collected one morning after a 10-hour fasting. Those in MIEG exercised aerobically at 40-50% of VO2max for 50 min a day, 3 times a week matching 150 min per week. Those in VIEG exercised aerobically at over 60% of VO2max for over 30 min a day including warm-up, 3 times a week matching more than 90 min per week. After 4 weeks of training in MIEG and VIEG, samples of gut microbiome were collected. Data analysis was performed using Kruskal-Wallis and Wilcoxon. As a result, significant difference in Actinobacteria in the change between groups (p<0.05). Firmicutes decreased in the MIEG (p<0.05). Bacteroidetes increased, Firmicutes and F/B ratio decreased in the HIEG (p<0.05). It was confirmed that the constituent factors of the gut microbiome can be changed only by performing exercise. 이 연구는 4주간의 운동강도별 유산소 운동을 수행한 후, 장내미생물의 Phylum 구성요인 변화를 분석하였 다. 총 24명의 남성들이 참여하였으며, 비운동군(Non Exercise Group, NEG, 28.6 ± 5.3 yrs, 176.0 ± 7.8 cm, 81.3 ± 14.6 kg), 중강도 운동군(Moderate Intensity Exercise Group, MIEG, 26.5 ± 3.3 yrs, 176.9 ± 5.0 cm, 75.4 ± 9.5 kg), 고강도 운동군(Vigorous Intensity Exercise Group, VIEG, 30.6 ± 5.9 yrs, 174.2 ± 3.5 cm, 77.8 ± 12.2 kg)으로 구분하였다. 대상자 선정을 위한 절차로 신체활동과 장건강 상태, 질환 보유 여부, 최근 질병 진단 여부 및 식이장애 여부를 확인하였다. 장내 마이크로바이옴 분석을 위해 10시간 공복 후에 채변하였다. MIEG는 개인의 %VO2R 40%-59%, 주 3회, 하루에 50분 이상, 주 150분 이상 중강도 유산소 운동을 진행하였고, VIEG는 %VO2R 60% 이상의 강도로 주 3회, 5분 간의 준비운동을 포함하여 하루에 30분 이상, 주 90분 이상으로 고강도 유산소 운동을 수행하였다. 4주 훈련 뒤에 모든 연구 대상자들은 장내마이크로바이옴 채변을 수집하였다. 데이터 분석은 Kruskal-Wallis, Wilcoxon 검증을 실시하였다. 연구 결과, 그룹간 변화에서 Actinobacteria에서 유의한 차이가 나타났다( <0.05). 중강도 운동군은 Firmicutes가 감소하였고( <0.05), 고강도 운동군에서는 Bacteroidetes가 증가하고, Firmicutes와 F/B ratio는 감소하였다 ( <0.05). 운동 수행만으로 장내미생물의 구성요인이 변화될 수 있음을 확인하였다.