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Whole Genome Analysis of the Red-Crowned Crane Provides Insight into Avian Longevity

  • Lee, HyeJin;Kim, Jungeun;Weber, Jessica A.;Chung, Oksung;Cho, Yun Sung;Jho, Sungwoong;Jun, JeHoon;Kim, Hak-Min;Lim, Jeongheui;Choi, Jae-Pil;Jeon, Sungwon;Blazyte, Asta;Edwards, Jeremy S.;Paek, Woon Kee;Bhak, Jong
    • Molecules and Cells
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    • v.43 no.1
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    • pp.86-95
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    • 2020
  • The red-crowned crane (Grus japonensis) is an endangered, large-bodied crane native to East Asia. It is a traditional symbol of longevity and its long lifespan has been confirmed both in captivity and in the wild. Lifespan in birds is known to be positively correlated with body size and negatively correlated with metabolic rate, though the genetic mechanisms for the red-crowned crane's long lifespan have not previously been investigated. Using whole genome sequencing and comparative evolutionary analyses against the grey-crowned crane and other avian genomes, including the long-lived common ostrich, we identified redcrowned crane candidate genes with known associations with longevity. Among these are positively selected genes in metabolism and immunity pathways (NDUFA5, NDUFA8, NUDT12, SOD3, CTH, RPA1, PHAX, HNMT, HS2ST1, PPCDC, PSTK CD8B, GP9, IL-9R, and PTPRC). Our analyses provide genetic evidence for low metabolic rate and longevity, accompanied by possible convergent adaptation signatures among distantly related large and long-lived birds. Finally, we identified low genetic diversity in the red-crowned crane, consistent with its listing as an endangered species, and this genome should provide a useful genetic resource for future conservation studies of this rare and iconic species.

A Study on the Forecasting of Bunker Price Using Recurrent Neural Network

  • Kim, Kyung-Hwan
    • Journal of the Korea Society of Computer and Information
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    • v.26 no.10
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    • pp.179-184
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    • 2021
  • In this paper, we propose the deep learning-based neural network model to predict bunker price. In the shipping industry, since fuel oil accounts for the largest portion of ship operation costs and its price is highly volatile, so companies can secure market competitiveness by making fuel oil purchasing decisions based on rational and scientific method. In this paper, short-term predictive analysis of HSFO 380CST in Singapore is conducted by using three recurrent neural network models like RNN, LSTM, and GRU. As a result, first, the forecasting performance of RNN models is better than LSTM and GRUs using long-term memory, and thus the predictive contribution of long-term information is low. Second, since the predictive performance of recurrent neural network models is superior to the previous studies using econometric models, it is confirmed that the recurrent neural network models should consider nonlinear properties of bunker price. The result of this paper will be helpful to improve the decision quality of bunker purchasing.

MCP, Kernel Density Estimation and LoCoH Analysis for the Core Area Zoning of the Red-crowned Crane's Feeding Habitat in Cheorwon, Korea (철원지역 두루미 취식지의 핵심지역 설정을 위한 MCP, 커널밀도측정법(KDE)과 국지근린지점외곽연결(LoCoH) 분석)

  • Yoo, Seung-Hwa;Lee, Ki-Sup;Park, Chong-Hwa
    • Korean Journal of Environment and Ecology
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    • v.27 no.1
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    • pp.11-21
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    • 2013
  • We tried to find out the core feeding site of the Red-crowned Crane(Grus japonensis) in Cheorwon, Korea by using analysis techniques which are MCP(minimum convex polygon), KDE(kernel density estimation), LoCoH(local nearest-neighbor convex-hull). And, We discussed the difference and meaning of result among analysis methods. We choose the data of utilization distribution from distribution map of Red-crowned Crane in Cheorwon, Korea at $17^{th}$ February 2012. Extent of the distribution area was $140km^2$ by MCP analysis. Extents of core feeding area of the Red-crowned Crane were $33.3km^2$($KDE_{1000m}$), $25.7km^2$($KDE_{CVh}$), $19.7km^2$($KDE_{LSCVh}$), according to the 1000m, CVh, LSCVh in value of bandwidth. Extent, number and shape complexity of the core area has decreased, and size of each core area have decreased as small as the bandwidth size(default:1000m, CVh: 554.6m, LSCVh: 329.9). We would suggest the CVh value in KDE analysis as a proper bandwidth value for the Red-crowned crane's core area zoning. Extent of the distribution range and core area have increased and merged into the large core area as a increasing of k value in LoCoH analysis. Proper value for the selecting core area of Red-crowned Crane's distribution was k=24, and extent of the core area was $18.2km^2$, 16.5% area of total distribution area. Finally, the result of LoCoH analysis, we selected two core area, and number of selected core area was smaller than selected area of KDE analysis. Exact value of bandwidth have not been used in studies using KDE analysis in most articles and presentations of the Korea. As a result, it is needed to clarify the exact using bandwidth value in KDE studies.

Use of Feeding Site by Wintering Population of White-naped Crane in Han-river Estuary, Korea (한강하구에서 월동하는 재두루미 개체군의 취식지 이용)

  • Lee, Hwa-Su;Kim, Jung-Soo;Koo, Tae-Hoe
    • Korean Journal of Environmental Biology
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    • v.27 no.4
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    • pp.375-383
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    • 2009
  • The aims of this study were wintering individuals, usage of foraging sites, potential food availability, daily activity and disturbance factors of White-naped Cranes Grus vipio on the wintering site, Han-river estuary, Goyang and Gimpo city, Korea. We want to provide basic data to conserve the cranes. Maxium population was identified 162 individuals at the middle of February in the river side and mud flat of this study area. Spring migration for breeding was started at the first week of March and finished for two weeks later. White-naped Cranes were used four feeding sites in winter; agricultural area in Hongdopyong, Yihwa-dong, Pyong-dong and Songpo-dong. Expected carrying capacity (ECC) was 334 days (121~909 days). White-naped Cranes departed from roosting site to feeding site at every morning for foraging. If they were disturbed by some factors at feeding sites, they moved to mud flat in the Han river to forage and take a rest. Daily activity was consisted of six category; feeding, alert, locomotion, preening, comfort, social and other behaviors. Feeding was the highest portion among behaviors in the wintering area. Feeding, alert, locomotion and preening in daily activities significantly differed among feeding sites. We watched total 348 times of disturbances in the wintering sites. Artificial disturbances were vehicles, humans, bicycles and motorcycles. Natural disturbances were noises, animals and others. Disturbances in all wintering sites were highest in Yihwa-dong (134 times) and followed by Hongdopyong (109 times), Songpo-dong (64 times) and then Pyong-dong (44 times). And artificial disturbances (228 times) were more than natural disturbances (120 times). Especially, vehicle was one of the most checked factor in the wintering area.

Effects of weather change, human disturbance and interspecific competition on life-history and migration of wintering Red-crowned cranes (기후변화와 인간의 방해 및 종간경쟁이 두루미 월동생태와 이동에 미치는 영향)

  • Hong, Mi-Jin;Lee, Who-Seung;Yoo, Jeong-Chil
    • Korean Journal of Environment and Ecology
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    • v.29 no.5
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    • pp.681-692
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    • 2015
  • It is well documented that physiological and nutritional condition of wintering birds is strongly related to migration success to breeding sites, and also breeding success. However, how abiotic factors during winter affect the migration and breeding successes still remains unclear. Thus, this study developed a dynamic-state-dependent model for wintering life-history to identify the potential impact on the life-history, success to breeding site and breeding success of wintering birds, which are related to temperature fluctuation, interspecific competition and human disturbance at the wintering sites. To find the best-fit-model, we referred to the existing research data on wintering ecology of Red-crowned cranes (Grus japonensis) in Cheolwon, Korea, which is well documented as a long-term wintering study. Our model predicted that the higher temperature fluctuation and a higher rate of human disturbance are negatively related to migration success to breeding sites and their fitness, ultimately breeding success via changing of proportion in resource allocation (for e. g., lower energy compensation or higher level of stress accumulation). Particularly, the rate of body mass compensation after arrival at wintering sites may be accelerated when there are less temperature fluctuations and a lower rate of human disturbance. In addition, the rate of interspecific competition sharing the wintering foraging sites is negatively related to the rate of body mass compensation. Consequently, we discussed the conservation strategies of wintering birds based on the outcomes of the model.

Cranes(Grus japonensis) Adopted as a Traditional Factor in Landscaping and Gardening Culture (전통조경요소로써 도입된 학(鶴)과 원림문화)

  • Kim, Hai-Gyoung;So, Hyun-Su
    • Journal of the Korean Institute of Traditional Landscape Architecture
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    • v.30 no.3
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    • pp.57-67
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    • 2012
  • This study draws the following conclusions about the nature garden culture with crane that is a dynamic landscaping factor introduced into nature garden by analyzing the literatures on cranes written and landscapes painted in Chosun Dynasty. First, crane symbolizes such Buddhist, Taoist and Confucius media as appearance of Buddha, desire for Taoist hermit world and long life, and a solitary's life of proud loneliness. It has been recorded that crane was raised from the Three Nations Era till the Japanese occupation and Confucius scholars in Chosun Dynasty opened shows concerning crane or formed literature groups enjoying poems of it, and often using crane as their denial of going into government service. Second, in order to introduce crane to nature garden, people caught wild crane and made a fence and some kind of pond for their growth. In addition, crane was strictly managed by appointed slaves and they trained crane for dancing and then tended to allow a crane to play on the yard in terms of abstract meaning or got two cranes free in consideration of their ecology. Third, for more appreciation of crane and the expression of some symbolism matching for it, both plum and pine, which mean a solitary's life and long life respectively, were planted in nature garden. And, Confucius scholars in Chosun Dynasty also enjoyed their refined tastes with appreciation, napping, reading and playing the harp, accompanied by crane. As aforementioned, Confucius scholars in Chosun Dynasty did not only draw the meaning symbolized by cranes and write poems about such symbolic meaning, but also positively introduce crane into nature garden as a dynamic landscaping factor, so that they enjoyed synesthetic senses including looks, motions and sounds of cranes for their refined tastes.

Estimation Model for Freight of Container Ships using Deep Learning Method (딥러닝 기법을 활용한 컨테이너선 운임 예측 모델)

  • Kim, Donggyun;Choi, Jung-Suk
    • Journal of the Korean Society of Marine Environment & Safety
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    • v.27 no.5
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    • pp.574-583
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    • 2021
  • Predicting shipping markets is an important issue. Such predictions form the basis for decisions on investment methods, fleet formation methods, freight rates, etc., which greatly affect the profits and survival of a company. To this end, in this study, we propose a shipping freight rate prediction model for container ships using gated recurrent units (GRUs) and long short-term memory structure. The target of our freight rate prediction is the China Container Freight Index (CCFI), and CCFI data from March 2003 to May 2020 were used for training. The CCFI after June 2020 was first predicted according to each model and then compared and analyzed with the actual CCFI. For the experimental model, a total of six models were designed according to the hyperparameter settings. Additionally, the ARIMA model was included in the experiment for performance comparison with the traditional analysis method. The optimal model was selected based on two evaluation methods. The first evaluation method selects the model with the smallest average value of the root mean square error (RMSE) obtained by repeating each model 10 times. The second method selects the model with the lowest RMSE in all experiments. The experimental results revealed not only the improved accuracy of the deep learning model compared to the traditional time series prediction model, ARIMA, but also the contribution in enhancing the risk management ability of freight fluctuations through deep learning models. On the contrary, in the event of sudden changes in freight owing to the effects of external factors such as the Covid-19 pandemic, the accuracy of the forecasting model reduced. The GRU1 model recorded the lowest RMSE (69.55, 49.35) in both evaluation methods, and it was selected as the optimal model.

The Direction of Inter-Korean Cooperation on Ecological Conservation along the Han and Imjin Rivers Confluence: Focusing on Conservation of Migratory Species (한강-임진강 합류부 환경·생태보전을 위한 남북협력 방향: 이동성 생물종 보전을 중심으로)

  • Choi, Hyun-Ah;Han, Donguk
    • Journal of Wetlands Research
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    • v.24 no.3
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    • pp.155-160
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    • 2022
  • The debate of South-North transboundary rivers must be expanded from the existing cooperation in water resources towards cooperation within ecosystem conservation. Regarding the Han and Imjin rivers confluence water system, the nature of the estuarine ecosystem must be conserved considering the aspect of climate change. Furthermore, the agenda of maintaining continuous inter-Korean communication and cooperation should focus on ecosystem conservation, including conserving migratory species that inhabit both Koreas. Notably, within the Han and Imjin rivers confluence, transboundary rivers are abundant legally protected species such as Grus vipio, Anser fabalis, Anser cygnoides, Platalea minor, Lutra lutra, Prionailurus bengalensis which suggests a strong need for a debate regarding habitat conservation. This study analyzed the ecosystem conditions and environmental aspects within the confluence of Han and Imjin rivers. In addition, this study provided step wise approach of ecosystem conservation that consider conditions for potential direct inter-Korean cooperation. The inter-Korean cooperation mentioned in this study will be developed into legitimate cooperation once the results from monitoring the ecosystem of transboundary rivers, awareness raising are exchanged.

Distribution Model of the Wintering Red-crowned Crane and White-naped Crane in Cheorwon, Korea (철원지역에서 월동하는 두루미와 재두루미의 서식밀도모델)

  • Yoo, Seung-Hwa;Lee, Ki-Sup;Kim, Hwa-Jung;Hur, Wee-Haeng;Kim, Jin-Han;Park, Chong-Hwa
    • Korean Journal of Ecology and Environment
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    • v.47 no.4
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    • pp.282-291
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    • 2014
  • This study was conducted to make distribution model of the Red-crowned Crane and the White-naped Crane according to the anthropogenic and natural factors affecting distribution of crane in Cheorwon, Korea. It was investigated that the impact power and its range of the indirect anthropogenic influence to feeding flock density in cranes from the road, residential area, military facilities, civilian control zone (CCZ), greenhouse and natural influence such as roosting site and available feeding area. Available feeding area is the most important factor for the crane's feeding site selection. The feeding flock density of the cranes near the residential area was lower than that of area far from the area, and tended to increase within 2.5 km distance. The increasing tendencies of feeding flock density from military facilities and high traffic volume road were similar, but the density in military facilities increased within 800 m, and the density from high traffic volume road increased within 2 km. These results suggested that residential area, military facilities and the road with high traffic volume had significant effect on foraging densities to the certain range. As the distance from the road with low traffic volume and roosting site increased, feeding flock density tended to decrease. The density of Red-crowned crane and White-naped crane inside the CCZ were respectively higher than those of outside the CCZ, especially for the Red-crowned crane. As a result, density of Red crowned cranes inside the CCZ was 5.2 times higher than that of outside, while that of white-naped cranes was 2.2 times bigger. If the density of greenhouse is lower than $40km^{-2}$, crane's feeding flock density in the low greenhouses density area was higher than that of high greenhouses density area. However, there was no difference in the feeding flock density if the density of the green houses is higher than $40km^{-2}$. The model for the Red-crowned Crane was related with available feeding area, distance from residential area, civilian control zone and distance from high traffic road. The model of the White-naped Crane was related with available feeding area, distance from roosting site and distance from lake. Finally, the estimated feeding flock density of cranes significantly correlated with density model according to the natural and anthropogenic factors.

Wintering Population Change of the Cranes according to the Climatic Factors in Cheorwon, Korea: Effect of the Snow Cover Range and Period by Using MODIS Satellite Data (기후요인에 의한 철원지역 두루미류 월동개체수 변화 - MODIS 위성영상을 이용한 눈 덮임 범위와 지속기간의 영향 -)

  • Yoo, Seung-Hwa;Lee, Ki-Sup;Jung, Hwa-Young;Kim, Hwa-Jung;Hur, Wee-Haeng;Kim, Jin-Han;Park, Chong-Hwa
    • Korean Journal of Ecology and Environment
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    • v.48 no.3
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    • pp.176-187
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    • 2015
  • In this study, we hypothesized that the size of wintering crane population would change due to the climate factors. We assumed that wintering population size would differ by climate values in January, which is the coldest period in year. Especially, White-naped cranes were able to choose wintering site between Cheorwon and other alternative place where snow coverage had low influence, differing from Red crowned cranes. For this reason, we predicted the population size of White-naped cranes would fluctuate according to the extent of snow coverage in Cheorwon. Therefore we used snow coverage data based on MODIS and climate data from KMA (Korea Meteorological Administration) that are generally used. We analyzed the crane's population size in Cheorwon in January from 2002 to 2014. The temperature in the Cheorwon increased from 2002 to wintering period in 2007~ 2008 and went down, showing the lowest temperature in 2011~ 2012. With this phenomenon, warmth index showed the similar pattern with temperature. Amount of newly accumulated snow (the amount of snow that fallen from 0:01 am to 11:29 pm in a day) was low after 2002, but rapidly increased in 2010~ 2011 and 2011~ 2012. The area of snow coverage rapidly declined from 2002 to 2005~ 2006 but suddenly expanded in wintering period in 2009~ 2010 and 2010~ 2011. Wintering population size of the White-naped cranes decreased as snow coverage area increased in January and the highest correlation was found between them, compared to the other climatic factors. However, the number of individuals of Red crowned cranes had little relationship with general climate factors including snow cover range. Therefore it seems that population size of the Red crowned crane varied by factors related with habitat selection such as secure roosting site and area of foraging place, not by climatic factors. In multiple regression analysis, wintering population of White-naped cranes showed significant relationship with logarithmic value of snow cover range and its period. Therefore, it suggests that the population size of the White-naped crane was affected by snow cover range n wintering period and this was because it was hard for them to find out rice grains which are their main food items, buried in snow cover. The population size variation in White-naped cranes was caused by some individuals which left Cheorwon for Izumi where snow cover had little influence on them. The wintering population in Izumi and Cheorwon had negative correlation, implying they were mutually related.