• 한국패류학회지
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• 제30권3호
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• pp.197-210
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• 2014

Single nucleotide polymorphisms (SNPs) are widely acknowledged as the marker of choice for many genetic and genomic applications because they show co-dominant inheritance, are highly abundant across genomes and are suitable for high-throughput genotyping. Here we evaluated the applicability of SNP markers developed from Crassostrea gigas and C. virginica expressed sequence tags (ESTs) in closely related Crassostrea and Ostrea species. A total of 213 putative interspecific level SNPs were identified from re-sequencing data in six amplicons, yielding on average of one interspecific level SNP per seven bp. High polymorphism levels were observed and the high success rate of transferability show that genic EST-derived SNP markers provide an efficient method for rapid marker development and SNP discovery in closely related oyster species. The six EST-SNP markers identified here will provide useful molecular tools for addressing questions in molecular ecology and evolution studies including for stock analysis (pedigree monitoring) in related oyster taxa.

• 한국어병학회지
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• 제22권3호
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• pp.383-389
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• 2009

Analysis of expressed sequence tags (ESTs) is an efficient approach for gene discovery, expression profiling, and development of resources useful for functional genomics studies. As part of studies on the immune system of olive flounder, a total of 251 EST sequences from gill cDNA library were generated to identify and characterize important genes in the immune machanisms of olive flounder. Of the 251 clones, 126 clones (50.2%) were identified as orthologues of known genes from olive flounder and other organisms. Among the 126 EST clones, 16 clones (12.7%) were representing 9 unique genes identified as homologous to the previously reported olive flounder ESTs, 100 clones (79.4%) representing 103unique genes were identified as orthologs of known genes from other organisms. We also identified several kinds of immune associated proteins, indicating EST as a powerful method for identifying immune related genes of fish as well as identifying novel genes. Further studies using cDNA microarrays are needed to identify the differentially expressed transcripts after disease infection.

• Journal of Microbiology and Biotechnology
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• 제22권7호
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• pp.902-906
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• 2012

Expressed sequence tags (ESTs) from the Antarctic green algae Pyramimonas gelidicola were analyzed to obtain molecular information on cold acclimation of psychrophilic microorganisms. A total of 2,112 EST clones were sequenced, generating 222 contigs and 219 singletons, and 200 contigs and 391 singletons from control ($4^{\circ}C$) and cold-shock conditions ($-2^{\circ}C$), respectively. The complete EST sequences were deposited to the DDBJ EST database (http://www.ddbj.nig.ac.jp/index-e.html) and the nucleotide sequences reported in this study are available in the DDBJ/EMBL/GenBank. These EST databases of Antarctic green algae can be used in a wide range of studies on psychrophilic genes expressed by polar microorganisms.

• 한국약용작물학회지
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• 제21권6호
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• pp.444-454
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• 2013

The development of random amplified polymorphic DNA (RAPD) and expressed sequence tag-derived simple sequence repeats (EST-SSRs) provided a useful tool for investigating Korean ginseng genetic diversity. In this study, 18 polymorphic markers (7 RAPD and 11 EST-SSR) selected to assess the genetic diversity in 31 ginseng accessions (11 Korean ginseng cultivars and 20 breeding lines). In RAPD analysis, a total of 53 unique polymorphic bands were obtained from ginseng accessions and number of amplicons ranged from 4 to 11 with a mean of 7.5 bands. Pair-wise genetic similarity coefficient (Nei) among all pairs of ginseng accessions varied from 0.01 to 0.32, with a mean of 0.11. On the basis of the resulting data, the 31 ginseng accessions were grouped into six clusters. As a result of EST-SSR analysis, 11 EST-SSR markers detected polymorphisms among the 31 ginseng accessions and revealed 49 alleles with a mean of 4.45 alleles per primer. The polymorphism information content (PIC) value ranged from 0.06 to 0.31, with an average of 0.198. The 31 ginseng accessions were classified into five groups by cluster analysis based on Nei's genetic distances. Consequently, the results of ginseng-specific RAPD and EST-SSR markers may prove useful for the evaluation of genetic diversity and discrimination of Korean ginseng cultivars and breeding lines.

• International Journal of Ocean System Engineering
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• 제2권1호
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• pp.37-49
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• 2012

An analysis of potential flooding by storm surge and wave run-up and overtopping can be used to evaluate protection afforded by the existing storm protection system. The analysis procedure can also be used to evaluate various protection alternatives for providing typhoon flood protection. To determine risk, the storm surges for both historical and hypothetical are compiled with tide conditions to represent high, slack and low water for neap, spring and mid range tides to use with the statistical procedure known as the Empirical Simulations Technique (EST). The EST uses the historic and hypothetical events to generate a large population of life-cycle databases that are used to compute mean value maximum storm surge elevation frequency relationships. The frequency-of-occurrence relationship is determined for all relevant locations along the shoreline at appropriate locations to identify the effect using the Empirical Storm Simulation (EST). To assist with understanding the process, an example is presented for a study of storm surge analysis for Freeport, Texas. This location is in the Gulf of Mexico and is subject to hurricanes and other tropical storms that approach from the Atlantic Ocean.

• 한국자원식물학회:학술대회논문집
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• 한국자원식물학회 2003년도 춘계 학술발표대회
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• pp.121-121
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• 2003

Expressed sequence tags (EST) are help to quickly identify functions of expressed genes and to understand the complexity of gene expression. To assist genetic study of the root development in Panax ginseng, which is one of the most important medicinal plant, expressed sequence tags (EST) analysis was carried out. We constructed a CDNA library using the 4-year Chunpoon root. Partial sequences were obtained from 3,841 clone. The ESTs could be clustered into 2,056 (64%) non-redundant groups. Similarity search of the non-redundant ESTs against public non-redundant databases of both protein and DNA indicated that 1,498 groups show similarity to genes of known function. These ESTs clones were divided into eighteen categories depending upon gene function. The most abundant transcripts were major latex protein (41), ribonuclease 2 (36), metallothionein 2(35). Our extensive EST analysis of genes expressed in 4-year Chunpoong root not only contributes to the understanding of the dynamics of genome expression patterns in root organ development but also adds data to the repertoire of all genomic genes.

• 한국자원식물학회:학술대회논문집
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• 한국자원식물학회 2020년도 춘계학술대회
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• pp.47-47
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• 2020

The Korean National Agrobiodiversity Center holds the more than 1300 accessions of proso millet, but a large portion of accessions are landrace of Korea that has very similar traits. To comprehend the maximum genetic diversity of this crop, a core collection with minimum number of accessions will facilitate easy access to genetic material. Here we assessed the genetic diversity and population structure in a germplasm collection of 830 accessions by employing EST-SSR markers and morphological traits. A total of 107 alleles were detected with an average allele number of 4.9 per locus among the 830 accessions based on 37 EST-SSR markers. The number of alleles per locus ranged from 2 to 7. Polymorphism information content and expected heterozygosity ranged from 0.06 to 0.68 (mean = 0.21) and 0.06 to 0.73 (mean = 0.23), respectively. The germplasm collection was separated into two groups based on population structure analysis, whereas principal coordinate analysis (PCoA) could not cluster accessions according to their geographic origin. Subsequently, a preliminarily developed core collection with a total of 141 accessions (17%) was selected from the whole set of germplasm by combining allelic variations of EST-SSR markers and eight different phenotypic traits. The core collection optimally represented the whole germplasm collection and displayed a similar level of PCoA value and genetic variation from the initial collection. The results obtained here provide a primary resource for further genetic analysis and establish a reference for further development of appropriate genetic breeding strategies.

• 대한토목학회논문집
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• 제29권2B호
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• pp.141-153
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• 2009

우리나라에서 발생하는 호우의 발생원인은 태풍과 집중호우로 구분할 수 있다. 태풍은 비정기적으로 우리나라에 영향을 끼치며 막대한 강우를 유발시키며, 집중호우는 전선형 호우와 같은 장마와 지형성 호우인 국지성 호우를 의미한다. 태풍과 집중호우는 매년 우리나라에 극한강우를 발생시킴으로써 침수 등의 재해를 유발시키고 있다. 따라서 본 연구에서는 호우의 원인을 태풍과 집중호우로 구분하여, 집중호우로 인한 강우자료를 이용하여 확률강우량을 산정하였다. 집중호우에 대한 평가는 돌발홍수와 같은 짧은 지속시간의 호우에 대한 분석에 활용할 수 있다. 확률강우량의 산정방법은 일반적인 매개변수적 지점빈도해석과 EST를 적용하였다. EST의 적용을 위하여 해수면온도 및 습윤지수와 같은 수문기상인자와 집중호우로 인한 연최대시간강수량과의 상관성 분석을 수행하였다. 상관성 분석 결과에서 우리나라의 집중호우로 인한 강우량은 해수면온도와 밀접한 관련이 있는 것으로 나타났다. 또한, EST에 의해 산정된 확률강우량은 빈도해석한 확률강우량에 비하여 경기도 등의 우리나라의 서중부 지역에서 보다 큰 결과를 나타내었다. 따라서 우리나라의 서중부 지역에서는 집중호우로 인한 극한강우 발생에 대비해야 할 필요성이 있다.

• 한국어병학회지
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• 제23권3호
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• pp.429-440
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• 2010

We constructed a rock bream (Oplegnathus fasciatus) gill cDNA library and a total of 1450 expressed sequence tag (EST) clones were generated. Gene annotation procedures and homology searches of the sequenced ESTs were locally done by BLASTX for amino acid similarity comparisons. Of the 1450 EST clones, 1022 EST clones showed significant homology to previously described genes while 428 ESTs were unidentified, and 259 clones were hypothetical, or unnamed proteins. Encoding 313 different sequences were identified as putative bio-defense genes or genes associated with immune response.

• 한국어병학회지
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• 제23권2호
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• pp.229-238
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• 2010

We constructed a rock bream (Oplegnathus fasciatus) liver cDNA library and a total of 1533 expressed sequence tag (EST) clones were generated. Gene annotation procedures and homology searches of the sequenced ESTs were analyzed using BLASTX. Of the 1533 EST clones, 1165 different ESTs showed significant homology to previously described genes while 368 ESTs were unidentified, hypothetical, or unnamed proteins. Encoding 106 different sequences were identified as putative bio-defense genes or genes associated with immune response.