Genomic blueprint of <i>Hahella chejuensis</i> , a marine microbe producing an algicidal agent

Jeong, Haeyoung,Yim, Joung Han,Lee, Choonghwan,Choi, Sang-Haeng,Park, Yon Kyoung,Yoon, Sung Ho,Hur, Cheol-Goo,Kang, Ho-Young,Kim, Dockyu,Lee, Hyun Hee,Park, Kyun Hyang,Park, Seung-Hwan,Park, Hong-Seog Oxford University Press 2005 Nucleic acids research Vol.33 No.22

<P>Harmful algal blooms, caused by rapid growth and accumulation of certain microalgae in the ocean, pose considerable impacts on marine environments, aquatic industries and even public health. Here, we present the 7.2-megabase genome of the marine bacterium <I>Hahella chejuensis</I> including genes responsible for the biosynthesis of a pigment which has the lytic activity against a red-tide dinoflagellate. <I>H.chejuensis</I> is the first sequenced species in the <I>Oceanospiralles</I> clade, and sequence analysis revealed its distant relationship to the <I>Pseudomonas</I> group. The genome was well equipped with genes for basic metabolic capabilities and contained a large number of genes involved in regulation or transport as well as with characteristics as a marine heterotroph. Sequence analysis also revealed a multitude of genes of functional equivalence or of possible foreign origin. Functions encoded in the genomic islands include biosynthesis of exopolysacchrides, toxins, polyketides or non-ribosomal peptides, iron utilization, motility, type III protein secretion and pigmentation. Molecular structure of the algicidal pigment, which was determined through LC-ESI-MS/MS and NMR analyses, indicated that it is prodigiosin. In conclusion, our work provides new insights into mitigating algal blooms in addition to genetic make-up, physiology, biotic interactions and biological roles in the community of a marine bacterium.</P>

Prognosis of patients with axillary lymph node metastases from occult breast cancer: analysis of multicenter data

Haeyoung Kim,Won Park,Su Ssan Kim,Sung Ja Ahn,Yong Bae Kim,Tae Hyun Kim,Jin Hee Kim,Jin-Hwa Choi,Hae Jin Park,Jee Suk Chang,Doo Ho Choi 대한방사선종양학회 2021 Radiation Oncology Journal Vol.39 No.2

Purpose: This study was conducted to evaluate prognosis of patients with level I/II axillary lymph node metastases from occult breast cancer (OBC). Materials and Methods: Data of 53 patients with OBC who received axillary lymph node dissection (ALND) positive/negative (+/-) breast-conserving surgery between 2001 and 2013 were retrospectively collected at seven hospitals in Korea. The median number of positive lymph nodes (+LNs) was 2. Seventeen patients (32.1%) had >3 +LNs. A total of 48 patients (90.6%) received radiotherapy. Extents of radiotherapy were as follows: whole-breast (WB; n = 11), regional lymph node (RLN; n = 2), and WB plus RLN (n = 35). Results: The median follow-up time was 85 months. Recurrence was found in four patients: two in the breast, one in RLN, and one in the breast and RLN. The 5-year and 7-year disease-free survival (DFS) rates were 96.1% and 93.5%, respectively. Molecular subtype and receipt of breast radiotherapy were significantly associated with DFS. Patients with estrogen receptor negative, progesterone receptor negative, and human epidermal growth factor receptor 2 negative (ER-/PR-/HER2-) subtype had significantly lower 7-year DFS than those with non-ER-/PR-/HER2- tumor (76.9% vs. 100.0%; p = 0.03). Whole breast irradiation (WBI) was significantly associated with a higher 7-year DFS rate (94.7% for WBI group vs. 83.3% for non-WBI group; p = 0.01). Other factors including patient’s age, number of +LNs, taxane chemotherapy, and RLN irradiation were not associated with DFS. Conclusion: Patients with OBC achieved favorable outcome after ALND and breast-targeting treatment. Molecular subtype and receipt of WBI was significant factors for DFS.

A Method for Generate a Mouse Model of Stroke: Evaluation of Parameters for Blood Flow, Behavior, and Survival

Park, Sin-Young,Marasini, Subash,Kim, Geu-Hee,Ku, Taeyun,Choi, Chulhee,Park, Min-Young,Kim, Eun-Hee,Lee, Young-Don,Suh-Kim, Haeyoung,Kim, Sung-Soo The Korean Society for Brain and Neural Science 2014 Experimental Neurobiology Vol.23 No.1

<P>Stroke is one of the common causes of death and disability. Despite extensive efforts in stroke research, therapeutic options for improving the functional recovery remain limited in clinical practice. Experimental stroke models using genetically modified mice could aid in unraveling the complex pathophysiology triggered by ischemic brain injury. Here, we optimized the procedure for generating mouse stroke model using an intraluminal suture in the middle cerebral artery and verified the blockage of blood flow using indocyanine green coupled with near infra-red radiation. The first week after the ischemic injury was critical for survivability. The survival rate of 11% in mice without any treatment but increased to 60% on administering prophylactic antibiotics. During this period, mice showed severe functional impairment but recovered spontaneously starting from the second week onward. Among the various behavioral tests, the pole tests and neurological severity score tests remained reliable up to 4 weeks after ischemia, whereas the rotarod and corner tests became less sensitive for assessing the severity of ischemic injury with time. Further, loss of body weight was also observed for up 4 weeks after ischemia induction. In conclusion, we have developed an improved approach which allows us to investigate the role of the cell death-related genes in the disease progression using genetically modified mice and to evaluate the modes of action of candidate drugs.</P>

Nutritional, Chemical and Physical Factors Affecting Microspore Embryo Formation in Raphanus sativus L

Haeyoung Na,Sung Un Kim,Eun ji Bae,Hanyong Park 한국육종학회 2012 한국육종학회 심포지엄 Vol.2012 No.07

Composition of nutrient media, flower bud size, cold pretreatment, heat shock stress, and ethylene inhibitor could have marked effects on microspore embryogenesis. No microspore-derived embryos (MDE) were formed when microspores were isolated from radish (Raphanus sativus L.) flower buds of 1.0-2.5 mm in size, whereas MDE were formed with microspores isolated from 2.5-4.5 and 4.5-6.5 mm flower buds. The microspores isolated from 2.5-4.5 mm flower buds showed high embryo yields. When the isolated microspores were washed with Nitsch & Nitsch (NLN) liquid medium containing 130 g‧L-1 sucrose (NLN-13), the yield of MDE increased significantly when comparing with washing using B-5 liquid medium containing 130 g‧L-1 sucrose.Microspores cultured on half strength NLN liquid medium containing 0.05 mgL-1 silver nitrate (AgNO3) produced the most MDE, showing a more than two-fold increase in yield compared to those cultured on medium without AgNO3. A heat shock pretreatment of microspores at 32°C for 24 h gave high-frequency production of MDE when compare to higher or lower temperatures; no MDE were formed at 42.5°C. Microspore viability is known to decrease rapidly with storage; however, in this experiment, microspore viability was maintained for 24 h at 4°C without media. A polyploidy test indicated that 19.7% of the microspore-derived plants were double haploid, other plants were haploid, and chimeras were haploid and diploid. This protocol is thought to be very useful for efficient production of homozygous lines that is critical for the production of radish F1 hybrids

Comparative Genomic Analysis of Lactobacillus rhamnosus BFE5264, a Probiotic Strain Isolated from Traditional Maasai Fermented Milk

( Haeyoung Jeong ),( Sanghaeng Choi ),( Gun-seok Park ),( Yosep Ji ),( Soyoung Park ),( Wilhelm Heinrich Holzapfel ),( Julius Maina Mathara ),( Jihee Kang ) 한국미생물생명공학회(구 한국산업미생물학회) 2019 한국미생물·생명공학회지 Vol.47 No.1

Lactobacillus rhamnosus BFE5264, isolated from a Maasai fermented milk product (“kule naoto”), was previously shown to exhibit bile acid resistance, cholesterol assimilation, and adhesion to HT29-MTX cells in vitro. In this study, we re-annotated and analyzed the previously reported complete genome sequence of strain BFE5264. The genome consists of a circular chromosome of 3,086,152 bp and a putative plasmid, which is the largest one identified among L. rhamnosus strains. Among the 2,883 predicted protein-coding genes, those with carbohydrate-related functions were the most abundant. Genome analysis of strain BFE5264 revealed two consecutive CRISPR regions and no known virulence factors or antimicrobial resistance genes. In addition, previously known highly variable regions in the genomes of L. rhamnosus strains were also evident in strain BFE5264. Pairwise comparison with the most studied probiotic strain L. rhamnosus GG revealed strain BFE5264-specific deletions, probably due to insertion sequence-mediated recombination. The latter was associated with loss of the spaCBA pilin gene cluster and exopolysaccharide biosynthetic genes. Comparative genomic analysis of the sequences from all available L. rhamnosus strains revealed that they were clustered into two groups, being within the same species boundary based on the average nucleotide identities. Strain BFE5264 had a sister group relationship with the group that contained strain GG, but neither ANI-based hierarchical clustering nor core-gene-based phylogenetic tree construction showed a clear distinctive pattern associated with the isolation source, implying that the genotype alone cannot account for their ecological niches. These results provide insights into the probiotic mechanisms of strain BFE5264 at the genomic level.

Oncologic outcomes according to the level of disease burden in patients with metachronous distant metastases from uterine cervical cancer: a Korean Radiation Oncology Group study (KROG 18-10)

Sunmin Park,Won Park,Shin-Hyung Park,Joo Young Kim,Jin Hee Kim,Haeyoung Kim,Yeon-Sil Kim,Won Kyung Cho,Won Sup Yoon,Dae Sik Yang 대한부인종양학회 2022 Journal of Gynecologic Oncology Vol.33 No.3

Objective: This study aimed to evaluate the oncologic outcomes according to disease burden in uterine cervical cancer patients with metachronous distant metastases. Methods: Between 2005 and 2015, 163 patients with metachronous distant metastases from uterine cervical cancer after receiving a definitive therapy were evaluated at seven institutions in Korea. Low metastatic burden was defined as less than 5 metastatic sites, whereas high metastatic burden was others. Each metastasis site was divided based on the lymph node (LN) and organs affected. The overall survival (OS) and progression-free survival (PFS) were assessed. Cox proportional hazards models, including other clinical variables, were used to evaluate the survival outcomes. Results: The median follow-up duration was 22.2 months (range: 0.3–174.8 months). Para- aortic LNs (56.4%), lungs (26.4%), supraclavicular LNs (18.4%), and peritoneum (13.5%) were found to be the common metastasis sites. Among 37 patients with a single metastasis, 17 (45.9%) had LN metastases and 20 (54.1%) had organ metastases. The 1- and 2-year OS rates were 73.9% and 55.0%, respectively, whereas the PFS rates were 67.2% and 42.9%, respectively. SCC Ag after recurrence and high metastatic burden were significant factors affecting the OS (p=0.004 and p<0.001, respectively). Distant organ recurrence, short disease-free interval (≤2 years), and high metastatic burden were unfavorable factors for PFS (p=0.003, p=0.011, and p=0.002, respectively). Conclusion: A favorable oncologic outcome can be expected by performing salvage treatments in selected patients with a long disease-free interval, low metastatic burden, and/ or lymphatic-only metastasis.

Prognostic Impact of Elective Supraclavicular Nodal Irradiation for Patients with N1 Breast Cancer after Lumpectomy and Anthracycline Plus Taxane-Based Chemotherapy (KROG 1418): A Multicenter Case-Controlled Study

Kim, Haeyoung,Park, Won,Yu, Jeong Il,Choi, Doo Ho,Huh, Seung Jae,Kim, Yeon-Joo,Lee, Eun Sook,Lee, Keun Seok,Kang, Han-Sung,Park, In Hae,Shin, Kyung Hwan,Wee, Chan Woo,Kim, Kyubo,Park, Kyung Ran,Kim, Y 대한암학회 2017 Cancer Research and Treatment Vol.49 No.4

<P><B>Purpose</B></P><P>This study was conducted to evaluate the impact of supraclavicular lymph node radiotherapy (SCNRT) on N1 breast cancer patients receiving post-lumpectomy whole-breast irradiation (WBI) and anthracycline plus taxane-based (AT) chemotherapy.</P><P><B>Materials and Methods</B></P><P>We performed a case-control analysis to compare the outcomes of WBI and WBI plus SCNRT (WBI+SCNRT). Among 1,147 patients with N1 breast cancer who received post-lumpectomy radiotherapy and AT-based chemotherapy in 12 hospitals, 542 were selected after propensity score matching. Patterns of failure, disease-free survival (DFS), distant metastasis-free survival (DMFS), and treatment-related toxicity were compared between groups.</P><P><B>Results</B></P><P>A total of 41 patients (7.6%) were found to have recurrence. Supraclavicular lymph node (SCN) failure was detected in three patients, two in WBI and one in WBI+SCNRT. All SCN failures were found simultaneously with distant metastasis. There was no significant difference in patterns of failure or survival between groups. The 5-year DFS and DMFS for patients with WBI and WBI+SCNRT were 94.4% versus 92.6% (p=0.50) and 95.1% versus 94.5% (p=0.99), respectively. The rates of lymphedema and radiation pneumonitis were significantly higher in the WBI+SCNRT than in the WBI.</P><P><B>Conclusion</B></P><P>We did not find a benefit of SCNRT for N1 breast cancer patients receiving AT-based chemotherapy.</P>

이상기후를 대비한 에너지 절감형 국소냉난방 시스템 및 운용기술 연구 현황

나해영(Haeyoung Na),김은지(Eun Ji Kim),박인(In Park),이성주(Sung Ju Lee),신경호(Gyung-Ho Shin),명동주(Dong-Ju Myung),전창후(Changhoo Chun),박경섭(Kyoung Sub Park) 한국원예학회 2022 한국원예학회 학술발표요지 Vol.2022 No.11

조선 전기 제화시(題畫詩) 연구

혜영(PARK, HAEYOUNG) 慶熙大學校 大學院 2021 高凰論集 Vol.68 No.-

제화시는 그림을 대상으로 한다. 이에 그림을 기준으로 제화시를 유형화하면 ‘산수 제화시’, ‘조수초목 제화시’, ‘누각인물 제화시’로 나눌 수 있다. 본 논문의 연구 대상은 조선 전기[태조-명종 연간] 문인들이 남긴 제화시 작품이다. 현재 『한국문집총간』에 수록된 조선 전기 제화시는 총 842제이다. 주요 작가는 신숙주, 서거정, 이승소, 이행, 정사룡 등을 꼽을 수 있다. 이를 유형별로 나누면 누각인물, 산수, 조수초목 제화시 순으로 나타난다. 제화시 유형별로 그림 속 사물이 어떤 상징의미를 지니는지 분석하였다. 산수 제화시의 기본 소재는 산수, 즉 ‘자연’이다. 청산백운류의 산수는 자연 그대로의 모습인 ‘이경(異境)’과 신선이 사는 ‘선계(仙界)’의 이미지가 강조되고 부각된다. 사시도 속 ‘계절’과 ‘기상’은 산수의 외부 조건에 따른 상태인데, 이를 시로 형상화할 땐 일반적인 산수의 경우와 구별되는, 다소 극적이고 특별한 상황을 즐겨 사용했다. 도원류의 산수도는 안평대군의 ‘도원몽(桃源夢)’을 중심으로 전개된다. 안평대군의 ‘몽도원(夢桃源)’은 현실에서 도원을 대리만족할 수 있는 매개체로 등장한다. 도원의 산수는 도가적 선경인데, 일반 산수와 다른 점은 환상성이다. 조수초목 제화시는 동물과 식물을 대상으로 한다. 조선 전기 영모류의 팔준은 태조의 조선 개국과 관련하여 공업의 조력자이자 하늘이 내린 신령한 영모로서 그 정당성을 입증하는 매개체였다. 화훼류의 대나무는 ‘신룡’으로, ‘군자’로 객체화되어 나타난다. 이때 신룡은 기존 신물(神物)의 이미지에 덧붙여 절개와 지조를 갖춘 존재로 나타난다. 이 절조의 속성은 대나무의 군자적 속성과도 연결되는데 이는 조선 전기 묵죽도 제화시에서부터 강화된 의미이다. 또한 대나무는 소상강(瀟湘江) 유역의 아황과 여영, 굴원과도 관련이 있다. 이때 ‘소상’의 대나무로서 ‘탈속’과 ‘비애’의 정서를 환기시킨다. 누각인물 제화시는 누각과 인물을 대상으로 한다. 계회류는 관료들의 공적 집단 모임과 문사들의 사적 친목 모임으로 나눌 수 있다. 형조와 사헌부 등의 공적 ‘관료 집단’에 대한 계회도 제화시가 해당 집단의 ‘정체성’과 ‘동료의식’을 상징적으로 보여주는 데 주력했다면, 사적 ‘문사 모임’의 계회도 제화시는 ‘풍류’와 ‘흥취’를 자랑하고 과시한다. 고사인물류는 해당 고사의 인물과 행적이 중심이 된다. ‘조어도(釣魚圖)’ 관련 인물로는 ‘태공’과 ‘엄광’이 있다. 조선 전기에는 때에 맞게 출사하여 태평한 세상을 만든 강태공을 긍정적으로 바라보고, 보다 많은 관심을 주었다. ‘이백’ 관련 제화시에서는 이백의 ‘문월(問月)’하는 행동을 중심으로 이백을 적선(謫仙)으로 그리며, 그의 신선적 풍채와 용모를 강조하는 것이 특징이다. 제화시의 상징이 제화시의 ‘안’과 ‘밖’에서 어떻게 연결되어 구현되는지 살펴보았다. 제화시 언어의 특징은 ‘물상의 관념화’와 ‘사건의 실재화’이다. 물상의 관념화는 물건의 형상이 정물화(靜物畵)로 박제되어 고정불변의 속성으로 치환되고 그 물상의 상징의미로 관념 속에 자리 잡는다. 사건의 실재화는 정지되어 있는 화면을 마치 실제 현실처럼 동적으로 상황 묘사하여 사건에 현장감을 부여하는 것을 말한다. 이러한 제화시의 언어의 특성은 동일 소재의 영물시(詠物詩)·제영시(題詠詩)와 비교했을 때 더 확연히 드러난다. 그림을 바라보는 관점과 이를 해석하는 방식을 ‘독화법’이라고 한다. 독화의 ‘개인적’ 관점은 <상산사호도>를 대상으로 문인별 시각차를 살펴보았다. 개인의 출처관에 따라 그림을 바라보는 입장이 다르다. 독화의 ‘시대적’ 경향성은 15-16세기 계회의 풍경 묘사에 나타난 어조 변화에 집중하였다. 15세기에는 낙관의 화미가, 16세기에는 비관의 정조가 나타난다. 즉 같은 유형의 그림이라도 시대에 따라 다르게 독화할 수 있으며, 이 경향성은 제화시에 반영되어 드러난다. A painting poetry targets paintings. So in Chapter II, it was typified based on paintings. This type is three, ‘landscape[山水] painting poetry’, ‘birds, animals and flowers[鳥獸草木] painting poetry’, ‘pavilion and figure[樓閣人物] painting poetry’. The subject of this study is the poems of literary person[文人] in the former Joseon period. By sorting out of Joseon dynasty s literary person from Hankkuk Munjip Chonggan(Korea classic anthology) published by Institute for the Translation of Korean Classics DB and calculating pieces of painting poetry from each anthology, we have a result that there are 842 pieces of painting poetry. Major writers include Shin Suk-ju(申叔舟), Seo Geo-jeong(徐居正), Lee Seung-so(李承召), Lee haeng(李荇), and Jeong Sa-ryong(鄭士龍). When dividing types of painting poetry, it appears in the order of pavilion and figure painting poetry, landscape painting poetry, birds, animals and flowers painting poetry. The symbolic diagram of painting poetry is as follows. When objects come into contact with people and make a relationship, a meaning arises. And then it is shared within a group, it functions as a ‘object symbol’. The meaning conveyed through the symbolic action of this object through a painting is ‘painting symbol’, that is ‘Hwaui(畵意)’. On that basis, we analyzed what symbolic meaning of objects in the ‘Hwamyeon(畵面)’. The landscape of ‘CheongsanBaegun (靑山白雲)’ is ‘mysterious scenery[異境]’ and ‘world of sage[仙界]’. As a result, the landscape of CheongsanBaegun can be said to be the symbol of ‘unworldliness[脫俗]’ and ‘reclusiveness[隱逸]’. The season and weather of ‘four seasons[四時]’ is expressed to more or less dramatic situations. Examples are ‘wind and snow[風雪]’ in winter and ‘wind and rain[風雨]’ in summer. This reveals the symbolic meaning of the seasons and weather conditions through contrast and color. The landscape of ‘Dowon(桃源)’ is developed Anpyeongdaegun(安平大君) s ‘Dowonmong(桃源夢)’. This appears in reality as a medium that can satisfy Dowon as a proxy. Birds, animals and flowers painting poetry is intended for animals and plants. Eight steeds[八駿] of ‘birds and animals[翎毛]’ are a helper of contribution and a spiritual steed from heaven about King Taejo(太祖) s founding of Joseon. A bamboo of ‘flowering plant[花卉]’ is expressed to a ‘spiritual dragon[神 龍]’ and ‘Gunja(君子)’. The spiritual dragon appears as a being equipped with integrity in addition to the existing image of a god. And it is connected to the attribute of Gunja. In addition, a bamboo is related to ‘Seven sages of the bamboo grove[竹林 七賢]’, ‘Ahwang(娥皇) and Yeoyeong(女英)’, and ‘Gulwon(屈原)’. It evokes the sentiment of unworldliness in relation to the ‘bamboo grove[竹林]’, and sorrow for the bamboo of ‘sosang(瀟湘)’. pavilion and figure painting poetry is centered on the ‘people[人物]’ and ‘actions[行跡]’. The people about ‘Joeodo(釣 魚圖)’ are Taegong(太公) and Um Kwang(嚴光). According to the times and the personal ‘taking and leaving government posts[出 處觀]’, a positions on Taegong and Um Kwang are divided. In the former Joseon period, it was more interested in Taegong and looked at him positively. The moon and alcohol are the basics in the paintings of Lee Baek(李白). Lee Baek painting poetry draws Lee Baek in sage, and emphasizes his sage appearance. In the next, we looked at how symbols are connected and embodied in the inside and outside of the painting poetry. The characteristics of painting poetry language are ‘idealization[觀念化] of objects’ and ‘realization[實在化] of events’. Idealization of objects describes the object statically. Conversely, realization of events describes the event dynamically. These characteristics are clearly evident when compared to ‘Yeongmulshi(詠物詩)’ and ‘Jeyoungshi(題詠詩)’ in the same material.

Comparative Genomic Analysis of Lactobacillus rhamnosus BFE5264, a Probiotic Strain Isolated from Traditional Maasai Fermented Milk

Jeong, Haeyoung,Choi, Sanghaeng,Park, Gun-Seok,Ji, Yosep,Park, Soyoung,Holzapfel, Wilhelm Heinrich,Mathara, Julius Maina,Kang, Jihee The Korean Society for Microbiology and Biotechnol 2019 한국미생물·생명공학회지 Vol.47 No.1

Lactobacillus rhamnosus BFE5264, isolated from a Maasai fermented milk product ("kule naoto"), was previously shown to exhibit bile acid resistance, cholesterol assimilation, and adhesion to HT29-MTX cells in vitro. In this study, we re-annotated and analyzed the previously reported complete genome sequence of strain BFE5264. The genome consists of a circular chromosome of 3,086,152 bp and a putative plasmid, which is the largest one identified among L. rhamnosus strains. Among the 2,883 predicted protein-coding genes, those with carbohydrate-related functions were the most abundant. Genome analysis of strain BFE5264 revealed two consecutive CRISPR regions and no known virulence factors or antimicrobial resistance genes. In addition, previously known highly variable regions in the genomes of L. rhamnosus strains were also evident in strain BFE5264. Pairwise comparison with the most studied probiotic strain L. rhamnosus GG revealed strain BFE5264-specific deletions, probably due to insertion sequence-mediated recombination. The latter was associated with loss of the spaCBA pilin gene cluster and exopolysaccharide biosynthetic genes. Comparative genomic analysis of the sequences from all available L. rhamnosus strains revealed that they were clustered into two groups, being within the same species boundary based on the average nucleotide identities. Strain BFE5264 had a sister group relationship with the group that contained strain GG, but neither ANI-based hierarchical clustering nor core-gene-based phylogenetic tree construction showed a clear distinctive pattern associated with the isolation source, implying that the genotype alone cannot account for their ecological niches. These results provide insights into the probiotic mechanisms of strain BFE5264 at the genomic level.