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cacGMS: 특성평가 정보기반 식물 유전자원 군집 알고리즘
유동수(Dong Su Yu),강만정(Manjung Kang),노나영(Nayoung Ro),허온숙(Onsook Hur) 한국육종학회 2022 한국육종학회지 Vol.54 No.2
Plant germplasm is a part of living genetic resources, including seeds and plant materials, such as roots, leaves, and stems, and should be conserved and managed to maintain ecological biodiversity and to consistently generate the product and supply food crops. Plant germplasm can be categorized based on various genetic traits such as race, and clustering based on similar genetic traits is an efficient method for managing large numbers of germplasms. Therefore, we developed an algorithm, termed cacGMS (Clustering Analysis for Categorical genetic traits of germplasms in Genebank Management System), using categorical variables which statistically differentiate the datatype of genetic traits such as seed-coat color, seed shape, and flower color. Briefly, using Newman’s modularity method, cacGMS combines the hierarchical clustering algorithm using the Ward2 method and representative-based algorithms such as K-medoids, and it regroups all germplasms using germplasm core sets. We tested cacGMS using 2,378 pepper germplasms with 46 different categorical genetic traits, and it exhibited better performance than the hierarchical and K-medoids algorithms for the average distance among clusters (0.4534) and entropy (1.2672). Moreover, cacGMS showed better performance in terms of threshold (from 15 to 30) for genetic traits than other algorithms and provided similar results in a test run using tomato germplasm. From these results, we expect that cacGMS will be a useful tool for managing each group with numerous plant germplasms and facilitate the analysis of other studies, such as analysis of representative characteristics of clustered germplasms and of correlations among germplasms in a particular cluster.
Evaluation of Bioassay Methods to Assess Bacterial Soft Rot Resistance in Radish Cultivars
Tania Afroz(타니아 아프로즈),Onsook Hur(허온숙),Nayoung Ro(노나영),Jae-eun Lee(이재은),Aejin Hwang(황애진),Bichsaem Kim(김빛샘),Awraris Derbie Assefa(아와리스 데비 아세파),Ju Hee Rhee(이주희),Jung Sook Sung(성정숙),Ho-sun Lee(이호선),Bum-So 한국생명과학회 2021 생명과학회지 Vol.31 No.7
세균성 무름병 균[Pectobacterium carotovorum subsp. carotovorum (Pcc)]에 의해서 일어나는 무름병은 아시아 국가에서 재배되는 무에 있어서 심각한 질병 중의 하나로 알려져 있다. 이번 연구의 목적은 상업적으로 시판되는 무 품종의 세균성 무름병의 저항성에 대한 효율적인 생물검정법을 확립하고자 하였다. 첫째, 무 품종에 대해 세균성 무름병의 효율적인 생물검정 방법을 조사하였다. 6개의 무 품종을 다양한 조건[두 가지 온도(25℃와 30℃), 3가지 접종방법(관주, 분무, 침지), 두 발생단계(2와 4잎 단계)]으로 조사하였다. 연구 결과는 무름병균 1×106 cfu/ml 농도를 분무한 4잎 단계와 30℃에서 배양한 생물검정 방법이 무 품종에 대해 가장 효율적인 방법임을 알 수 있었다. 둘째, 41개의 무 품종에 5가지 세균(KACC 10225, KACC 10343, KACC 10421, KACC 10458, KACC 13953)을 접종하여 저항성을 조사하였다. KACC 10421가 세균성 무름병의 감수성 및 저항성 질병 정도를 가장 잘 나타냈다. 41개의 무 품종 중 13개는 무름병 균에 대해 중도 저항성을 나타냈고 28개는 감수성을 나타냈다. 이 연구에서 중도저항성 무 품종은 세균성 무름병 저항성 육종을 위한 저항성 자원으로 활용 가능하고 육종가, 농민, 연구자, 최종 소비자에 의해서 다양한 목적을 위해 사용 가능할 것으로 사료된다. Bacterial soft rot, caused by Pectobacterium carotovorum subsp. carotovorum (Pcc), is one of the destructive diseases of radish (Raphanus sativus) in Asian countries. The objective of this study was to establish an efficient bioassay method for the evaluation of bacterial soft rot resistance in commercial radish cultivars. First, an efficient bioassay method for examining resistance to bacterial soft rot in commercial radish cultivars was investigated. Six commercial radish cultivars were tested under various conditions: two temperatures (25℃ and 30℃), three inoculations methods (drenching, spraying, and root dipping), and two growth stages (two- and four-leaf stages). The results suggested that spraying with 1×106 cfu/ml of bacterial inoculums during the four-leaf stage and incubating at 30℃ could be the most efficient screening method for bacterial soft rot resistance in commercial radish cultivars. Second, we investigated the degree of resistance of 41 commercial radish cultivars to five Pcc isolates, namely KACC 10225, KACC 10343, KACC 10421, KACC 10458, and KACC 13953. KACC 10421 had the strongest susceptibility in terms of moderately resistant disease response to bacterial soft rot. Out of the 41 radish cultivars, 13 were moderately resistant to this pathogen, whereas 28 were susceptible. The moderately resistant radish cultivars in this investigation could serve as resistance donors in the breeding of soft rot resistance or could be used to determine varietal improvement for direct use by breeders, scientists, farmers, researchers, and end customers.
멜론 덩굴쪼김병균(Fusarium oxysporum f. sp. melonis) race 2에 대한 멜론 유전자원 저항성 평가
황애진(Aejin Hwang),노형준(Hyungjun Noh),허온숙(Onsook Hur),노나영(Nayoung Ro),이정윤(Jung-Yoon Yi),이재은(Jae-eun Lee),김빛샘(Bichsaem Kim),김지현(Ji Hyeon Kim) 한국육종학회 2021 한국육종학회지 Vol.53 No.4
Fusarium wilt is a serious disease that causes damping-off, serious wilt symptoms, or death in melon. The aim of this study wasto evaluate the resistance of melon germplasm to Fusarium wilt and select promising disease-resistant accessions for further applications. Resistanceto Fusarium wilt was examined in 216 melon germplasms by the root-dipping inoculation method with Fusarium oxysporum f. sp. melonis fungalisolate KACC43206 (race 2). Inoculated seedlings were incubated for four weeks and assessed for disease symptoms using indices ranging fromindex 1 (no symptoms) to 5 (plant wither). A total of 34 accessions showed a disease index < 2.0. Disease indices of 10 accessions were 1.0four weeks after inoculation. The resistant accessions of melon are expected to help in breeding commercial varieties with Fusarium wilt resistance.
유색 호박 (Cucurbita spp.) 유전자원별 카로테노이드 대사체 분석
이민기 ( Minki Lee ),조수연 ( Sooyeon Cho ),조수정 ( Soojung Cho ),신재형 ( Jaehyeong Shin ),김헌웅 ( Heonwoong Kim ),김상규 ( Sanggyu Kim ),고호철 ( Hocheol Ko ),노나영 ( Nayoung Ro ),김정봉 ( Jungbong Kim ),백형진 ( Hyungjin Bae 한국환경농학회 2015 한국환경농학회지 Vol.34 No.3
BACKGROUND: Carotenoids which are a major source of vitamin A are contributed to have great potential role in anti-carcinogenic effects and eyesight. Carotenoids which can not synthesize in human body are required for food supply. The objectives of this study are to investigate compositions and contents of pumpkin (Cucurbita spp.) germplasms based on their pulp color. METHODS AND RESULTS: Carotenoids were extracted with 0.2% ascorbic acid in ethanol and saponified with 80% potassium hydroxide. Insoluble compounds were extracted into hexane. A total of nine carotenoids (three xanthophylls and six carotenes) were identified from pumpkin germplasms using HPLC equipped with photodiode array detector (450 nm). Especially, lutein and β-carotenes were major compound in germplasms. Among isomers of β-carotene, all-trans-β-carotene (16-27% of total carotenoids) was predominant compositions. Themean of total carotenoid contents was showed as brown (286.1 mg/100 g dw) > dark green (217.0) > orange (153.4) > primrose (85.8) > dark yellow (80.3). On the basis of carotenoid information, PLS-DA score plots showed different patterns by cluster in pumpkin germplasms. It was considered that these differences of phenotype were relative closely to genotype. CONCLUSION: This study indicated that dark color of pumpkin pulp was presented in high-level of biological pigments. It may contribute to develop potentially beneficial functional food ingredients.