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Genomic Tools and Their Implications for Vegetable Breeding
Ngan Thi Phan,Sung-Chur Sim 한국원예학회 2017 원예과학기술지 Vol.35 No.2
Next generation sequencing (NGS) technologies have led to the rapid accumulation of genome sequences through whole-genome sequencing and re-sequencing of crop species. Genomic resources provide the opportunity for a new revolution in plant breeding by facilitating the dissection of complex traits. Among vegetable crops, reference genomes have been sequenced and assembled for several species in the Solanaceae and Cucurbitaceae families, including tomato, pepper, cucumber, watermelon, and melon. These reference genomes have been leveraged for re-sequencing of diverse germplasm collections to explore genome-wide sequence variations, especially single nucleotide polymorphisms (SNPs). The use of genomewide SNPs and high-throughput genotyping methods has led to the development of new strategies for dissecting complex quantitative traits, such as genome-wide association study (GWAS). In addition, the use of multi-parent populations, including nested association mapping (NAM) and multiparent advanced generation intercross (MAGIC) populations, has helped increase the accuracy of quantitative trait loci (QTL) detection. Consequently, a number of QTL have been discovered for agronomically important traits, such as disease resistance and fruit traits, with high mapping resolution. The molecular markers for these QTL represent a useful resource for enhancing selection efficiency via marker-assisted selection (MAS) in vegetable breeding programs. In this review, we discuss current genomic resources and markertrait association analysis to facilitate genome-assisted breeding in vegetable species in the Solanaceae and Cucurbitaceae families.
Genomic Tools and Their Implications for Vegetable Breeding
Phan, Ngan Thi,Sim, Sung-Chur Korean Society of Horticultural Science 2017 원예과학기술지 Vol.35 No.2
Next generation sequencing (NGS) technologies have led to the rapid accumulation of genome sequences through whole-genome sequencing and re-sequencing of crop species. Genomic resources provide the opportunity for a new revolution in plant breeding by facilitating the dissection of complex traits. Among vegetable crops, reference genomes have been sequenced and assembled for several species in the Solanaceae and Cucurbitaceae families, including tomato, pepper, cucumber, watermelon, and melon. These reference genomes have been leveraged for re-sequencing of diverse germplasm collections to explore genome-wide sequence variations, especially single nucleotide polymorphisms (SNPs). The use of genome-wide SNPs and high-throughput genotyping methods has led to the development of new strategies for dissecting complex quantitative traits, such as genome-wide association study (GWAS). In addition, the use of multi-parent populations, including nested association mapping (NAM) and multiparent advanced generation intercross (MAGIC) populations, has helped increase the accuracy of quantitative trait loci (QTL) detection. Consequently, a number of QTL have been discovered for agronomically important traits, such as disease resistance and fruit traits, with high mapping resolution. The molecular markers for these QTL represent a useful resource for enhancing selection efficiency via marker-assisted selection (MAS) in vegetable breeding programs. In this review, we discuss current genomic resources and marker-trait association analysis to facilitate genome-assisted breeding in vegetable species in the Solanaceae and Cucurbitaceae families.
Phan, Ngan Thi,Trinh, Lan Thi,Rho, Mi-Young,Park, Tae-Sung,Kim, Ok-Rye,Zhao, Jun,Kim, Hyoung-Moon,Sim, Sung-Chur Elsevier 2019 Scientia horticulturae Vol.243 No.-
<P><B>Abstract</B></P> <P>Advances in sequencing technology have facilitated allele mining with high resolution for quantitative traits in crop species. In this study, a genome-wide association study (GWAS) was conducted to detect quantitative trait loci (QTL) for fruit traits in tomato. We developed a core collection of 192 tomato accessions representing contemporary breeding lines, vintage varieties, and wild species. Phenotypic variations in this collection were evaluated for six traits including fruit shape, fruit color, pericarp thickness, fruit weight, fruit height, and fruit width over two years in field trials. Genotyping by sequencing (GBS) detected a total of 140,072 SNPs in the core collection and 8,550 SNPs were selected based on missing data rate (<20%) and minor allele frequency (≥5%) for GWAS. The 192 accessions were divided into seven clusters and the resulting membership coefficient matrix was used to account for population structure. We identified two loci for fruit color, seven loci for fruit shape, 11 loci for pericarp thickness, 13 loci for fruit weight, seven loci for fruit height, and 10 loci for fruit width at <I>P</I> < 0.0001 using the compressed mixed linear model. These loci explained 7.11–37.64% of total phenotypic variance. We also found that nine loci on seven chromosomes showed significant associations with multiple traits, suggesting pleiotropic effects of QTL. A total of 41 loci associated with the six fruit traits in our study will be a useful resource for marker-assisted selection to improve fruit traits in tomato.</P> <P><B>Highlights</B></P> <P> <UL> <LI> A core collection of 192 tomato accessions was developed for GWAS. </LI> <LI> Phenotypic evaluations were conducted for the six fruit traits over two years in field trials. </LI> <LI> Genotyping by sequencing generated the quality filtered 8,550 SNPs. </LI> <LI> A total of 41 SNP loci were significantly associated with the six fruit traits. </LI> </UL> </P>
Dinh Tram Anh PHAN,Thi Thuy Ngan NGUYEN,Thi Khanh Nhi NGUYEN,Tran Thien An NGUYEN,Van Si Dan PHAN,Ngoc Phuong Thao HO,Kim Xuan DO,Trong Luan NGUYEN 한국유통과학회 2022 The Journal of Asian Finance, Economics and Busine Vol.9 No.5
The outbreak of the COVID-19 pandemic has had a significant impact on the Vietnamese economy. In the midst of a complex disease that compelled people to limit their interaction, customers’ shopping habits shifted from “offline” to “online” transactions. Mobile payments have also grown in popularity. The goal of this study is to figure out what factors influence the use of mobile payments by hotel clients in Can Tho after COVID-19. The research team also examines how those factors influence customers’ willingness to use mobile payment and makes recommendations to better the current situation. Primary data was collected from 227 persons using online surveys and processed with SPSS software for this study. To analyze the correlation relationship between the elements determining the intention to use, the Cronbach alpha, EFA, Correlation, and Regression methods used to assess the scale are applied. Perceived Trustworthiness, Perceived Usefulness, and Perceived Ease of Use all have positive effects on customers’ propensity to use, according to the findings. Perceived Security, on the other hand, has no bearing. The findings of this study have significant theoretical and practical implications for the development of mobile payment services in Can Tho, particularly following the implementation of COVID-19.
Trieu Ngan Hoang Kim,Phan Xuan Thi,Tran Linh Thanh,Pham Huy Minh,Huynh Dai Quang,Nguyen Tuan Manh,Mai Anh Tuan,Du Quan Quoc Minh,Nguyen Bach Xuan,Pham Thao Thi Ngoc 대한중환자의학회 2023 Acute and Critical Care Vol.38 No.3
Background: Hemostatic dysfunction during extracorporeal membrane oxygenation (ECMO) due to blood-circuit interaction and the consequences of shear stress imposed by flow rates lead to rapid coagulation cascade and thrombus formation in the ECMO system and blood vessels. We aimed to identify the incidence and risk factors for cannula-associated arterial thrombosis (CaAT) post-decannulation. Methods: A retrospective study of patients undergoing arterial cannula removal following ECMO was performed. We evaluated the incidence of CaAT and compared the characteristics, ECMO machine parameters, cannula sizes, number of blood products transfused during ECMO, and daily hemostasis parameters in patients with and without CaAT. Multivariate analysis identified the risk factors for CaAT. Results: Forty-seven patients requiring venoarterial ECMO (VA-ECMO) or hybrid methods were recruited for thrombosis screening. The median Sequential Organ Failure Assessment score was 11 (interquartile range, 8–13). CaAT occurred in 29 patients (61.7%), with thrombosis in the superficial femoral artery accounting for 51.7% of cases. The rate of limb ischemia complications in the CaAT group was 17.2%. Multivariate analysis determined that the ECMO flow rate–body surface area (BSA) ratio (100 ml/min/m2) was an independent factor for CaAT, with an odds ratio of 0.79 (95% confidence interval, 0.66–0.95, P=0.014). Conclusions: We found that the incidence of CaAT was 61.7% following successful decannulation from VA-ECMO or hybrid modes, and the ECMO flow rate–BSA ratio was an independent risk factor for CaAT. We suggest screening for arterial thrombosis following VA-ECMO, and further research is needed to determine the risks and benefits of such screening.
Nguyen Phuong Thao,Bui Thi Thuy Luyen,Nguyen Thi Thanh Ngan,Le Duc Dat,Nguyen Xuan Cuong,Nguyen Hoai Nam,Phan Van Kiem,Seok Bean Song,Chau Van Minh,김영호 대한약학회 2015 Archives of Pharmacal Research Vol.38 No.5
Peroxisome proliferator-activated receptors(PPARs) are ligand-activated transcription factors thatregulate the expression of multiple genes involved inmetabolic, anti-inflammatory, and developmental processes. This study evaluated the PPARs transactivationaleffects of thirteen cembranoid diterpenoids 1–13 from thesoft coral Lobophytum crassum, using PPAR-responsiveelements–luciferase reporter and GAL4–PPAR chimeraassays. All isolated compounds activated the transcriptionof PPARs in a dose-dependent manner, with EC50 valuesranging from 2.07 ± 1.73 to 130.20 ± 1.85 lM. Moreover,compounds 6–9 affected the transactivation of allthree PPAR types, PPARa, c, b(d), in a dose-dependentmanner, with EC50 values in a ranging from 11.92 ± 1.23to 122.50 ± 2.12 lM. These results provide a scientificrationale for further studies on the soft coral L. crassum andits diterpenoid constituents to develop medicinal productsagainst inflammatory and metabolic diseases.
α-Glucosidase Inhibitors from the Roots of Sophora flavescens
Quang, Tran Hong,Ngan, Nguyen Thi Thanh,Minh, Chau Van,Kiem, Phan Van,Tai, Bui Huu,Thao, Nguyen Phuong,Kwon, Se-Uk,Lee, Young-Mi,Kang, Hee-Kyoung,Kim, Young-Ho Korean Chemical Society 2012 Bulletin of the Korean Chemical Society Vol.33 No.5
TRANHONG QUANG,Nguyen Thi Thanh Ngan,Chau Van Minh,Phan Van Kiem,Nguyen Xuan Nhiem,BUIHUU TAI,Nguyen Phuong Thao,Doobyeong Chae,Vivek Bhakta Mathema,고영상,이제현,양서영,김영호 대한약학회 2013 Archives of Pharmacal Research Vol.36 No.3
Kalopanax pictus (Araliaceae) is a deciduous treedistributed in Korea, Japan, and China. The stem bark ofK. pictus has been functionally used as a traditional crude drugfor the treatment of various inflammatory diseases. In thepresent study, we describe the inhibitory effects of oleananetypetriterpenes and saponins isolated from the stem bark ofK. pictus on production of pro-inflammatory cytokines inLPS-stimulated bone marrow-derived dendritic cells. Of thecompounds tested, 16,23,29-trihydroxy-3-oxo-olean-12-en-28-oic acid (1), 4,23,29-trihydroxy-3,4-seco-olean-12-en-3-oate-28-oic acid (2), 3b,6b,23-trihydroxyolean-12-en-28-oicacid 28-O-b-D-glucopyranoside (3), nipponogenin E (6),3b,6b,23-trihydroxyolean-12-en-28-oic acid (7), and caulophyllogenin(19) significantly inhibited the production ofIL-12 p40 and IL-6 with IC50 values ranging from 3.3 to 9.1 lM. Compounds 2, 3, 7, and 19 significantly suppressedthe secretion ofTNF-a with IC50 ranging from8.8 to 20.0 lM. These data provide scientific support for the use of K. pictusstem bark and its triterpene and saponin components in theinhibition of pro-inflammatory cytokine secretion, includingIL-12 p40, IL-6, and TNF-a, and for prevention and treatmentof inflammatory diseases.