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Genomic and Proteomic Analysis of Microbial Function in the Gastrointestinal Tract of Ruminants - Review -

  • White, Bryan A.;Morrison, Mark
    • Asian-Australasian Journal of Animal Sciences
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    • v.14 no.6
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    • pp.880-884
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    • 2001
  • Rumen microbiology research has undergone several evolutionary steps: the isolation and nutritional characterization of readily cultivated microbes; followed by the cloning and sequence analysis of individual genes relevant to key digestive processes; through to the use of small subunit ribosomal RNA (SSU rRNA) sequences for a cultivation-independent examination of microbial diversity. Our knowledge of rumen microbiology has expanded as a result, but the translation of this information into productive alterations of ruminal function has been rather limited. For instance, the cloning and characterization of cellulase genes in Escherichia coli has yielded some valuable information about this complex enzyme system in ruminal bacteria. SSU rRNA analyses have also confirmed that a considerable amount of the microbial diversity in the rumen is not represented in existing culture collections. However, we still have little idea of whether the key, and potentially rate-limiting, gene products and (or) microbial interactions have been identified. Technologies allowing high throughput nucleotide and protein sequence analysis have led to the emergence of two new fields of investigation, genomics and proteomics. Both disciplines can be further subdivided into functional and comparative lines of investigation. The massive accumulation of microbial DNA and protein sequence data, including complete genome sequences, is revolutionizing the way we examine microbial physiology and diversity. We describe here some examples of our use of genomics- and proteomics-based methods, to analyze the cellulase system of Ruminococcus flavefaciens FD-1 and explore the genome of Ruminococcus albus 8. At Illinois, we are using bacterial artificial chromosome (BAC) vectors to create libraries containing large (>75 kbases), contiguous segments of DNA from R. flavefaciens FD-1. Considering that every bacterium is not a candidate for whole genome sequencing, BAC libraries offer an attractive, alternative method to perform physical and functional analyses of a bacterium's genome. Our first plan is to use these BAC clones to determine whether or not cellulases and accessory genes in R. flavefaciens exist in clusters of orthologous genes (COGs). Proteomics is also being used to complement the BAC library/DNA sequencing approach. Proteins differentially expressed in response to carbon source are being identified by 2-D SDS-PAGE, followed by in-gel-digests and peptide mass mapping by MALDI-TOF Mass Spectrometry, as well as peptide sequencing by Edman degradation. At Ohio State, we have used a combination of functional proteomics, mutational analysis and differential display RT-PCR to obtain evidence suggesting that in addition to a cellulosome-like mechanism, R. albus 8 possesses other mechanisms for adhesion to plant surfaces. Genome walking on either side of these differentially expressed transcripts has also resulted in two interesting observations: i) a relatively large number of genes with no matches in the current databases and; ii) the identification of genes with a high level of sequence identity to those identified, until now, in the archaebacteria. Genomics and proteomics will also accelerate our understanding of microbial interactions, and allow a greater degree of in situ analyses in the future. The challenge is to utilize genomics and proteomics to improve our fundamental understanding of microbial physiology, diversity and ecology, and overcome constraints to ruminal function.

Implementation and Evaluation of a Web Ontology Storage based on Relation Analysis of OWL Elements and Query Patterns (OWL 요소와 질의 패턴에 대한 관계 분석에 웹 온톨로지 저장소의 구현 및 평가)

  • Jeong, Dong-Won;Choi, Myoung-Hoi;Jeong, Young-Sik;Han, Sung-Kook
    • Journal of KIISE:Databases
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    • v.35 no.3
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    • pp.231-242
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    • 2008
  • W3C has selected OWL as a standard for Web ontology description and a necessity of research on storage models that can store OWL ontologies effectively has been issued. Until now, relational model-based storage systems such as Jena, Sesame, and DLDB, have been developed, but there still remain several issues. Especially, they lead inefficient query processing performance. The structural problems of their low query processing performance are as follow: Jena has a simple structure which is not normalized and also stores most information in a single table. It exponentially decreases the performance because of comparison with unnecessary information for processing queries requiring join operations as well as simple search. The structures of storages(e.g., Sesame) have been completely normalized. Therefore it executes many join operations for query processing. The storages require many join operations to find simply a specific class. This paper proposes a storage model to resolve the problems that the query processing performance is decreased because of non-normalization or complete normalization of the existing storages. To achieve this goal, we analyze the problems of existing storage models as well as relations of OWL elements and query patterns. The proposed model, defined with the analysis results, provides an optimal normalized structure to minimize join operations or unnecessary information comparison. For the experiment of query processing performance, a LUBM data sets are used and query patterns are defined considering search targets and their hierarchical relations. In addition, this paper conducts experiments on correctness and completeness of query results to verify data loss of the proposed model, and the results are described. With the comparative evaluation results, our proposal showed a better performance than the existing storage models.

Neurolysis for Megalgia Paresthetica

  • Son, Byung-Chul;Kim, Deok-Ryeong;Kim, Il-Sup;Hong, Jae-Taek;Sung, Jae-Hoon;Lee, Sang-Won
    • Journal of Korean Neurosurgical Society
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    • v.51 no.6
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    • pp.363-366
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    • 2012
  • Objective : Meralgia paresthetica (MP) is a syndrome of pain and/or dysesthesia in the anterolateral thigh that is caused by an entrapment of the lateral femoral cutaneous nerve (LFCN) at its pelvic exit. Despite early accounts of MP, there is still no consensus concerning the effectiveness of neurolysis or transaction treatments in the long-term relief for medically refractory patients with MP. We retrospectively analyzed available long-term results of LFCN neurolysis for medically refractory MP in an effort to clarify this issue. Methods : During the last 7 years, 11 patients who had neurolysis for MP were enrolled in this study. Nerve entrapment was confirmed preoperatively by electrophysiological studies or a positive response to local anesthetic injection. Decompression of the LFCN was performed at the level of the iliac fascia, inguinal ligament, and fascia of the thigh distally. The outcome of surgery was assessed 8 weeks after the procedure followed at regular intervals if symptoms persisted. Results : Twelve decompression procedures were performed in 11 patients over a 7-year period. The average duration of symptoms was 8.5 months (range, 4-15 months). The average follow-up period was 33 months (range, 12-60 months). Complete and partial symptom improvement were noted in nine (81.8%) and two (18.2%) cases, respectively. No recurrence was reported. Conclusion : Neurolysis of the LFCN can provide adequate pain relief with minimal complications for medically refractory MP. To achieve a good outcome in neurolysis for MP, an accurate diagnosis with careful examination and repeated blocks of the LFCN, along with electrodiagnosis seems to be essential. Possible variation in the course of the LFCN and thorough decompression along the course of the LFCN should be kept in mind in planning decompression surgery for MP.

Behaviour of steel-fibre-reinforced concrete beams under high-rate loading

  • Behinaein, Pegah;Cotsovos, Demetrios M.;Abbas, Ali A.
    • Computers and Concrete
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    • v.22 no.3
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    • pp.337-353
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    • 2018
  • The present study focuses on examining the structural behaviour of steel-fibre-reinforced concrete (SFRC) beams under high rates of loading largely associated with impact problems. Fibres are added to the concrete mix to enhance ductility and energy absorption, which is important for impact-resistant design. A simple, yet practical non-linear finite-element analysis (NLFEA) model was used in the present study. Experimental static and impact tests were also carried out on beams spanning 1.3 meter with weights dropped from heights of 1.5 m and 2.5 m, respectively. The numerical model realistically describes the fully-brittle tensile behaviour of plain concrete as well as the contribution of steel fibres to the post-cracking response (the latter was allowed for by conveniently adjusting the constitutive relations for plain concrete, mainly in uniaxial tension). Suitable material relations (describing compression, tension and shear) were selected for SFRC and incorporated into ABAQUS software Brittle Cracking concrete model. A more complex model (i.e., the Damaged Plasticity concrete model in ABAQUS) was also considered and it was found that the seemingly simple (but fundamental) Brittle Cracking model yielded reliable results. Published data obtained from drop-weight experimental tests on RC and SFRC beams indicates that there is an increase in the maximum load recorded (compared to the corresponding static one) and a reduction in the portion of the beam span reacting to the impact load. However, there is considerable scatter and the specimens were often tested to complete destruction and thus yielding post-failure characteristics of little design value and making it difficult to pinpoint the actual load-carrying capacity and identify the associated true ultimate limit state (ULS). To address this, dynamic NLFEA was employed and the impact load applied was reduced gradually and applied in pulses to pinpoint the actual failure point. Different case studies were considered covering impact loading responses at both the material and structural levels as well as comparisons between RC and SFRC specimens. Steel fibres were found to increase the load-carrying capacity and deformability by offering better control over the cracking process concrete undergoes and allowing the impact energy to be absorbed more effectively compared to conventional RC members. This is useful for impact-resistant design of SFRC beams.

Immunological Responses of Broiler Chicks Can Be Modulated by Dietary Supplementation of Zinc-methionine in Place of Inorganic Zinc Sources

  • Moghaddam, Hasan Nassiri;Jahanian, Rahman
    • Asian-Australasian Journal of Animal Sciences
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    • v.22 no.3
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    • pp.396-403
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    • 2009
  • Male broiler chicks were fed graded levels of organic zinc (zinc-methionine) supplementation to investigate the effects of partial or complete substitution of the organic zinc source for inorganic ones on the development of lymphoid organs and immunological responses. A total of 450 day-old male broilers were distributed into groups of 10 chicks and randomly assigned to nine experimental diets during a 42-day feeding trial. Dietary treatments consisted of two basal diets supplemented with 40 mg/kg added zinc as feed-grade Zn sulfate or Zn oxide in which, Zn was replaced with that provided from zinc-methionine (ZnMet) complex at the levels of 25, 50, 75 or 100%. Two randomly-selected birds from each pen replicate were bled and then slaughtered by cervical cutting on the final day of the trial to measure leukocyte subpopulations and relative weights of lymphoid organs. Among lymphoid organs, only thymus weight was affected (p<0.05) by dietary treatments. The sulfate-supplemented birds were heavier (p<0.01) in relative weight of thymus than oxide-supplemented birds. The 10 days of age-assessed cutaneous hypersensivity reaction was stronger in chicks fed ZnMet-containing diets. Dietary ZnMet supplementation caused (p<0.05) an increase in proportion of lymphocytes and consequently a decrease in heterophil to lymphocyte ratio. Diet fortification by zinc-methionine complex increased (p<0.01) Newcastle antibody titer at 19 days of age. Also, a similar response was observed in antibody titers at 6 and 12 d after infectious bronchitis vaccine administration. There was no significant effect of replacement of dietary zinc on antibody titer against infectious bursal disease virus (IBDV) at the 6th d post-vaccine inoculation; however, at d 12 after vaccination, ZnMet-fortified diets improved antibody titer against IBDV. Although dietary inclusion of ZnMet had no marked effect on primary antibody titer against sheep erythrocytes, effective responses were observed during secondary reaction from the viewpoint of both total antibody and immunoglobulin Y (IgY) titers. From the present findings, it can be concluded that dietary supplementation with organic zinc improves both cellular and humoral immune responses. It is necessary to replace 75% of supplemental inorganic zinc with organic ZnMet complex to achieve the optimum immunological responses in broiler chicks.

Novel and Effective Almagate Enema for Hemorrhagic Chronic Radiation Proctitis and Risk Factors for Fistula Development

  • Yuan, Zi-Xu;Ma, Teng-Hui;Zhong, Qing-Hua;Wang, Huai-Ming;Yu, Xi-Hu;Qin, Qi-Yuan;Chu, Li-Li;Wang, Lei;Wang, Jian-Ping
    • Asian Pacific Journal of Cancer Prevention
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    • v.17 no.2
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    • pp.631-638
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    • 2016
  • Radiation proctitis is a common complication after radiotherapy for pelvic malignant tumors. This study was conducted to assess the efficacy of novel almagate enemas in hemorrhagic chronic radiation proctitis (CRP) and evaluate risk factors related to rectal deep ulcer or fistula secondary to CRP. All patients underwent a colonoscopy to confirm the diagnosis of CRP and symptoms were graded. Typical endoscopic and pathological images, risk factors, and quality of life were also recorded. A total of 59 patients were enrolled. Gynecological cancers composed 93.1% of the primary malignancies. Complete or obvious reduction of bleeding was observed in 90% (53/59) patients after almagate enema. The mean score of bleeding improved from 2.17 to 0.83 (P<0.001) after the enemas. The mean response time was 12 days. No adverse effects were found. Moreover, long-term successful rate in controlling bleeding was 69% and the quality of life was dramatically improved (P=0.001). The efficacy was equivalent to rectal sucralfate, but the almagate with its antacid properties acted more rapidly than sucralfate. Furthermore, we firstly found that moderate to severe anemia was the risk factor of CRP patients who developed rectal deep ulcer or fistulas (P= 0.015). We also found abnormal hyaline-like thick wall vessels, which revealed endarteritis obliterans and the fibrosis underlying this disease. These findings indicate that almagate enema is a novel effective, rapid and well-tolerated method for hemorrhagic CRP. Moderate to severe anemia is a risk factor for deep ulceration or fistula.

The Study of HR and Energy Expenditure Change according to Walking Types (걷기유형에 따른 심박수 및 에너지소비량 변화에 관한 연구)

  • Lee, hyung-kook
    • Proceedings of the Korea Contents Association Conference
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    • 2009.05a
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    • pp.405-409
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    • 2009
  • There are many types of walking exercise. We have choice the way according to the walking exercise purpose. Nordic walking(NW) is one of walking types with nordic poles. Also, power walking(PW) has motion of large swing the arm in walking, and dumbbell walking(DW) way is walking with 3-pound dumbbell. This study compared the physiological response(heart rate, energy expenditure) of general walking(GW) to another types(nordic, power, and 3-pound hand weights walking way). Seven apparently male health volunteers between the ages 19 and 24 years participated. Each complete a treadmill test. The tests were assigned randomly, as submaximal walking trials on separate days. Each walking trial was conducted on a level treadmill, for 40 minutes(3-5mile/hour 5min warm-up, 6mile/hour speed for 15min walking and 7mile/hour speed for 15min Jogging exercise, and 5-3mile/hour cool down 5min), at an same pace. Heart rate in beats per minute(bpm), and energy expenditure in kcal per minute(kcal/min) were recorded each minute. Results between trials were compared using repeated measures analysis of variance and Tukey's post hoc tests. In slow walking, it was found that walking with 3-pound hand weight way resulted in and average of ($127.8{\pm}8.27bpm$) the highest score HR, Caloric expenditure($85.4{\pm}14.51kcal/min$), responses compared to regular walking way($117.4{\pm}7.27bpm$ and $70.4{\pm}10.99kcal/min$). Nordic walking way($121.4{\pm}11.74bpm$, and $77.0{\pm}16.83kcal/min$) is second, power walking way($118.5{\pm}9.98bpm$, and $68.7{\pm}20.62kcal/min$) is next. In fast walking, it was found that walking way with 3-pound hand weight resulted in and average of ($160.1{\pm}8.72bpm$) the highest score HR, caloric expenditure($126.1{\pm}13.86kcal/min$), responses compared to regular walking way($148.4{\pm}11.94bpm$, and $109.0{\pm}4.70kcal/min$). Nordic walking way($156.7{\pm}10.82bpm$, and $113.5{\pm}14.51kcal/min$) is second, power walking way($149.7{\pm}12.56bpm$, and $109.2{\pm}17.64kcal/min$) is next. Thus, it is the unavoidable conclusion that, comparing with general walking, 3-pound hand weight walking, nordic walking, and power walking methods have the advantage of high exercise intensity and energy expenditure to meet the purpose of performers without the problem. Furthermore, 3-pound hand weight walking ways were proved to be a useful aerobic exercise method as whole body that achieves high-energy efficiency. To this extent, 3-pound hand weight walking ways can be recommended as a continuous and regulative aerobic exercise for some people.

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Comparison of imputation methods for item nonresponses in a panel study (패널자료에서의 항목무응답 대체 방법 비교)

  • Lee, Hyejung;Song, Juwon
    • The Korean Journal of Applied Statistics
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    • v.30 no.3
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    • pp.377-390
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    • 2017
  • When conducting a survey, item nonresponse occurs if the respondent does not respond to some items. Since analysis based only on completely observed data may cause biased results, imputation is often conducted to analyze data in its complete form. The panel study is a survey method that examines changes of responses over time. In panel studies, there has been a preference for using information from response values of previous waves when the imputation of item nonresponses is performed; however, limited research has been conducted to support this preference. Therefore, this study compares the performance of imputation methods according to whether or not information from previous waves is utilized in the panel study. Among imputation methods that utilize information from previous responses, we consider ratio imputation, imputation based on the linear mixed model, and imputation based on the Bayesian linear mixed model approach. We compare the results from these methods against the results of methods that do not use information from previous responses, such as mean imputation and hot deck imputation. Simulation results show that imputation based on the Bayesian linear mixed model performs best and yields small biases and high coverage rates of the 95% confidence interval even at higher nonresponse rates.

Evaluation of the Standardized Curriculum Module and Integrated Program for Social-Environmental Education (사회환경 교육과정의 표준화 모형 및 통합 프로그램의 평가)

  • Lee, Sook-Im;Kang, Myoung-Hee;Nam, Sang-Jun;Park, Suk-Soon;Sung, Hyo-Hyun;Choi, Don-Hyung;Hur, Myung
    • Hwankyungkyoyuk
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    • v.14 no.2
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    • pp.76-94
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    • 2001
  • Promoting positive values, attitudes, participation and personal actions on the basis of the acquisition of one's knowledge and skills is emphasized on teaching environmental education. To complete this purpose of environmental education, it is necessary not only to use various and practical educational resources, but also to develop information system, with multimedia and internet, which are effective for learning. This research attempts to assess the consistency of planning, organization and operation of integrated program for social environmental education which was developed for the necessities mentioned above. We surveyed about the accuracy of contents, usefulness, convenience and easiness of Integrated program for social environmental education. Also, we used a questionnaire to clarify the values and attitudes of respondents after they took environmental education. Then, technically, descriptive statistical method has been used to analyze the results of these surveys. Finally, we conduct an examination of the distribution of chi-square to verify the relationship between the learner's experience of using computer and one's concern about environmental issues. The results of this program, developed by research team, can be assessed by following five basic elements: usefulness, practicality, appropriation, efficiency and effectiveness. More than 90% of respondents said that this program is convenient and easy to loam. Also, more than 85% of whole respondents identified that after teaming this program they recognized more clearly what the main contents of environmental education are. In addition, we got positive response from 93% of respondents that they could understand environmental problems. On the other hand, values and attitudes of respondents have not improved a lot after the environmental education compared with the remarkable change in their recognition and understanding of environmental issues; only 34% of respondents responded that they changed their life style for making better environment after teaming this program. But it is clear that they understand much better about the environmental policy after they are educated. Developed by using information system, this integrated program for social environmental education may get different results according to a respondent's experience of using computer. Therefore, the more a respondent got a chance to use computer for a long period of time, the more he/she gave positive evaluation on the convenience and easiness of this program. However, there was no certain relationship between the frequence of using computer and one's understanding of environmental issues. Futhermore, a person who has constant concerns about environmental problems showed more positive attitudes against the understanding of environmental education. This integrated program for social environmental education, characterized by integrated, specialized and efficient educational system, can also be used as a curriculum or teaching materials for environmental education for adults; especially, it would be appropriate for teaching learners at all levels, who have different personal characteristics, to let them acquire virtual education by using information system.

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Prognosis and Surgical Treatment of the Urethra Embedding Leiomyosarcoma in a Dog (개에서 요도를 포매한 평활근육종의 수술적 처치 및 예후)

  • Kim, Ji-Hyun;Lee, Jun-Am;Kim, Ill-Hwa;Jang, Dong-Woo;Kang, Hyun-Gu
    • Journal of Veterinary Clinics
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    • v.31 no.4
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    • pp.307-312
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    • 2014
  • A 16-year-old female Shih-Tzu, weighing 5 kg, presented with clinical symptoms of abdominal distension and urinary and fecal incontinence. Abdominal palpation detected a large mass. According to the radiographic findings, the bladder had been moved to the umbilicus by the mass and a large abdominal mass was confirmed in the lower abdominal area. Ultrasonography indentified a large heterogeneous mass with heterogeneous parenchyma and a focal anechoic area in the lower abdominal area. The complete blood count abnormalities suggested thrombocytosis and mild neutrophilia, and the serum chemistry indicated an elevated alkaline phosphatase value. During laparotomy, a firm mass that measured $10.5{\times}9.6cm$ was found between the uterine cervix and urinary bladder. The urethra was embedded in the mass. A diagnosis of leiomyosarcoma was established based on histopathology and histochemistry. One week after surgery, urinary retention symptoms that did not appear to be related to mechanical obstruction presented suddenly, but they did not respond to several drug treatments, thus long-term conservative therapy was adopted. The urinary symptoms disappeared on day 27 and the patient started to void large quantities of urine in a smooth and frequent manner. This case report describes the serial changes in the patient's status and the response after surgical remove of the urethra embedding leiomyosarcoma.