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215 results on '"Tung, Chih-Wei"'

9. The bracteatus pineapple genome and domestication of clonally propagated crops

Author

Chen, Li-Yu, VanBuren, Robert, Paris, Margot, Zhou, Hongye, Zhang, Xingtan, Wai, Ching Man, Yan, Hansong, Chen, Shuai, Alonge, Michael, Ramakrishnan, Srividya, Liao, Zhenyang, Liu, Juan, Lin, Jishan, Yue, Jingjing, Fatima, Mahpara, Lin, Zhicong, Zhang, Jisen, Huang, Lixian, Wang, Hao, Hwa, Teh-Yang, Kao, Shu-Min, Choi, Jae Young, Sharma, Anupma, Song, Jian, Wang, Lulu, Yim, Won C., Cushman, John C., Paull, Robert E., Matsumoto, Tracie, Qin, Yuan, Wu, Qingsong, Wang, Jianping, Yu, Qingyi, Wu, Jun, Zhang, Shaoling, Boches, Peter, Tung, Chih-Wei, Wang, Ming-Li, Coppens d’Eeckenbrugge, Geo, Sanewski, Garth M., Purugganan, Michael D., Schatz, Michael C., Bennetzen, Jeffrey L., Lexer, Christian, and Ming, Ray

Published
2019
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20. Additional file 13 of Patterns of genetic variation and QTLs controlling grain traits in a collection of global wheat germplasm revealed by high-quality SNP markers

Author

Chou, Chia-Hui, Lin, Hsun-Shih, Wen, Chen-Hsin, and Tung, Chih-Wei

Abstract

Additional file 13: Supplementary Fig. S13. LD heatmap of the grain color locus. The pairwise LD of significant SNPs associated with three color channels on chromosome 3B was calculated and plotted. The position of significant SNPs and Tamyb10-B1 gene was labeled.

Published
2022
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21. Additional file 9 of Patterns of genetic variation and QTLs controlling grain traits in a collection of global wheat germplasm revealed by high-quality SNP markers

Author

Chou, Chia-Hui, Lin, Hsun-Shih, Wen, Chen-Hsin, and Tung, Chih-Wei

Abstract

Additional file 9: Supplementary Fig. S9. Genome-wide association mapping for color channel 1. Manhattan plots of the four models (GLM, GLM_PC, MLM, MLM_PC) and associated quantile-quantile (Q-Q) plots representing the statistical association between each SNP and color channel 1.

Published
2022
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22. Additional file 2 of Patterns of genetic variation and QTLs controlling grain traits in a collection of global wheat germplasm revealed by high-quality SNP markers

Author

Chou, Chia-Hui, Lin, Hsun-Shih, Wen, Chen-Hsin, and Tung, Chih-Wei

Abstract

Additional file 2: Supplementary Fig. S2. Distribution of markers with the same chromosomal assignment but different orientations or order between IWGSC RefSeq v1.0 and IWGSC RefSeq v2.1. The x axis indicates wheat chromosomes, and the y axis shows the physical position along the chromosome. The chromosomes of IWGSC RefSeq v1.0 are shown in black, and chromosomes of IWGSC RefSeq v2.1 are colored blue. The red line connects the physical positions of each marker between the two RefSeq assemblies.

Published
2022
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23. Additional file 4 of Patterns of genetic variation and QTLs controlling grain traits in a collection of global wheat germplasm revealed by high-quality SNP markers

Author

Chou, Chia-Hui, Lin, Hsun-Shih, Wen, Chen-Hsin, and Tung, Chih-Wei

Abstract

Additional file 4: Supplementary Fig. S4. Genome-wide scan for selection signal between two subpopulations, Pop1 and Pop2. The points colored blue indicate outliers detected according to a significance threshold of a FDR < 0.05.

Published
2022
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24. Additional file 5 of Patterns of genetic variation and QTLs controlling grain traits in a collection of global wheat germplasm revealed by high-quality SNP markers

Author

Chou, Chia-Hui, Lin, Hsun-Shih, Wen, Chen-Hsin, and Tung, Chih-Wei

Abstract

Additional file 5: Supplementary Fig. S5. LD in subpopulations Pop1 and Pop2. (a) LD decay at the whole-genome level. (b) LD decay of subgenome A. (c) LD decay of subgenome B. (d) LD decay of subgenome D. The physical distance (in megabases) is plotted against the LD estimate (r2) for pairs of markers.

Published
2022
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25. Additional file 8 of Patterns of genetic variation and QTLs controlling grain traits in a collection of global wheat germplasm revealed by high-quality SNP markers

Author

Chou, Chia-Hui, Lin, Hsun-Shih, Wen, Chen-Hsin, and Tung, Chih-Wei

Abstract

Additional file 8: Supplementary Fig. S8. Genome-wide association mapping for grain area. Manhattan plots of the four models (GLM, GLM_PC, MLM, MLM_PC) and associated quantile-quantile (Q-Q) plots representing the statistical association between each SNP and grain area.

Published
2022
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26. Additional file 6 of Patterns of genetic variation and QTLs controlling grain traits in a collection of global wheat germplasm revealed by high-quality SNP markers

Author

Chou, Chia-Hui, Lin, Hsun-Shih, Wen, Chen-Hsin, and Tung, Chih-Wei

Abstract

Additional file 6: Supplementary Fig. S6. Genome-wide association mapping for grain width. Manhattan plots of the four models (GLM, GLM_PC, MLM, MLM_PC) and associated quantile-quantile (Q-Q) plots representing the statistical association between each SNP and grain width.

Published
2022
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27. Additional file 3 of Patterns of genetic variation and QTLs controlling grain traits in a collection of global wheat germplasm revealed by high-quality SNP markers

Author

Chou, Chia-Hui, Lin, Hsun-Shih, Wen, Chen-Hsin, and Tung, Chih-Wei

Abstract

Additional file 3: Supplementary Fig. S3. PCA of 765 bread wheat accessions on the basis of 29,803 SNPs in the A, B, and D genomes. The proportion of the total variance explained by each PC is shown on the axis label. The color of each point indicates the subpopulation assigned based on an ADMXITURE analysis.

Published
2022
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29. Marker-Assisted Development and Evaluation of Monogenic Lines of Rice cv. Kaohsiung 145 Carrying Blast Resistance Genes

Author

Chen, Yi-Chia, primary, Hu, Chih-Chieh, additional, Chang, Fang-Yu, additional, Chen, Chieh-Yi, additional, Chen, Wei-Lun, additional, Tung, Chih-Wei, additional, Shen, Wei-Chiang, additional, Wu, Chih-Wen, additional, Cheng, An-Hsiu, additional, Liao, Dah-Jing, additional, Liao, Ching-Ying, additional, Liu, Li-yu D., additional, and Chung, Chia-Lin, additional

Published
2021
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31. Correction: Corrigendum: Open access resources for genome-wide association mapping in rice

Author

McCouch, Susan R., Wright, Mark H., Tung, Chih-Wei, Maron, Lyza G., McNally, Kenneth L., Fitzgerald, Melissa, Singh, Namrata, DeClerck, Genevieve, Perez, Francisco Agosto, Korniliev, Pavel, Greenberg, Anthony J., Naredo, Ma. Elizabeth B., Mercado, Sheila Mae Q., Harrington, Sandra E., Shi, Yuxin, Branchini, Darcy A., Kuser-Falcão, Paula R., Leung, Hei, Ebana, Kowaru, Yano, Masahiro, Eizenga, Georgia, McClung, Anna, and Mezey, Jason

Published
2016
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33. High-throughput single nucleotide polymorphism genotyping for breeding applications in rice using the BeadXpress platform

Author

Thomson, Michael J., Zhao, Keyan, Wright, Mark, McNally, Kenneth L., Rey, Jessica, Tung, Chih-Wei, Reynolds, Andy, Scheffler, Brian, Eizenga, Georgia, McClung, Anna, Kim, Hyunjung, Ismail, Abdelbagi M., de Ocampo, Marjorie, Mojica, Chromewell, Reveche, Ma. Ymber, Dilla-Ermita, Christine J., Mauleon, Ramil, Leung, Hei, Bustamante, Carlos, and McCouch, Susan R.

Published
2012
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36. Identifcation of hybridization and introgression between Cinnamomum kanehirae Hayata and C. camphora (L.) Presl using genotyping‑by‑sequencing

Author

Taiwan Forestry Research Institute, Gogorcena Aoiz, Yolanda [0000-0003-1081-430X], Wu, Chia‑Chen, Chang, Shu‑Hwa, Tung, Chih‑Wei, Ho, Cheng‑Kuen, Gogorcena Aoiz, Yolanda, Chu, Fang‑Hua, Taiwan Forestry Research Institute, Gogorcena Aoiz, Yolanda [0000-0003-1081-430X], Wu, Chia‑Chen, Chang, Shu‑Hwa, Tung, Chih‑Wei, Ho, Cheng‑Kuen, Gogorcena Aoiz, Yolanda, and Chu, Fang‑Hua

Abstract

Cinnamomum kanehirae Hayata and C. camphora (L.) Presl are important tree species in eastern Asia. The wood of C. kanehirae is in increasing demand for culturing Antrodia cinnamomea, a medicinal fungus that naturally grows inside the trunk of C. kanehirae. Putative hybrids between C. kanehirae and C. camphora were previously reported but with no scientifc evidence, leading to confusion or misplanting. First, to identify the female parent of putative hybrids, the maternal inheritance InDel (insertion/deletion) markers were developed by using low-coverage sequencing. SNPs were developed by using genotyping-by-sequencing (GBS) approach in C. kanehirae, C. camphora and putative hybrids. The results indicated that the female parent of the studied hybrids was C. camphora. Eight hundred and forty of the 529,006 high-density SNPs were selected and used for analysis. Hybrids were classifed as F1 (C. kanehirae × C. camphora), F2 and backcrosses. Hybridization has occurred in the human-developed area of eastern and southwestern Taiwan, and the introgression was bidirectional. For producing pure wood, bufering zones should be established around seed orchards to avoid crossspecies pollination and to preserve the genetic purity of C. kanehirae. The DNA markers developed in this study will also be valuable for further wood identifcation, breeding and evolutionary research.

Published
2020

42. Gramene: a growing plant comparative genomics resource

Author

Liang, Chengzhi, Jaiswal, Pankaj, Hebbard, Claire, Avraham, Shuly, Buckler, Edward S., Casstevens, Terry, Hurwitz, Bonnie, McCouch, Susan, Ni, Junjian, Pujar, Anuradha, Ravenscroft, Dean, Ren, Liya, Spooner, William, Tecle, Isaak, Thomason, Jim, Tung, Chih-wei, Wei, Xuehong, Yap, Immanuel, Youens-Clark, Ken, Ware, Doreen, and Stein, Lincoln

Published
2008

45. Additional file 13: of Chlorophyll fluorescence analysis in diverse rice varieties reveals the positive correlation between the seedlings salt tolerance and photosynthetic efficiency

Author

Tsai, Yu-Chang, Kuan-Chuan Chen, Tung-Shan Cheng, Lee, Chuan, Shih-Hung Lin, and Tung, Chih-Wei

Abstract

Figure S7. Genome-wide association analysis of qL in 232 diverse varieties and LD pattern of the most significant SNP. (a) Manhattan plot showing the significance of each SNP tested by a mixed linear model. (b) The most significant SNP is at 26,473,167â bp. The dot color of each SNP represents its LD with the most significant SNP, and the decay of LD is bordered by two vertical dashed lines. The location of the OsCBL4 gene is marked with a blue bar. (PPTX 14234 kb)

Published
2019
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46. Additional file 7: of Chlorophyll fluorescence analysis in diverse rice varieties reveals the positive correlation between the seedlings salt tolerance and photosynthetic efficiency

Author

Tsai, Yu-Chang, Kuan-Chuan Chen, Tung-Shan Cheng, Lee, Chuan, Shih-Hung Lin, and Tung, Chih-Wei

Abstract

Figure S1. Daily changes in chlorophyll fluorescence parameters (ÎŚPSII, qL, NPQ) in eight rice varieties under control (red line) and salt (blue line) conditions. Each data point represents the average value of 3 replicates. (PPTX 10924 kb)

Published
2019
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47. Additional file 9: of Chlorophyll fluorescence analysis in diverse rice varieties reveals the positive correlation between the seedlings salt tolerance and photosynthetic efficiency

Author

Tsai, Yu-Chang, Kuan-Chuan Chen, Tung-Shan Cheng, Lee, Chuan, Shih-Hung Lin, and Tung, Chih-Wei

Abstract

Figure S3. Genetic relationship and phenotypic distributions of varieties in five subpopulations. Each column represents a single variety, and the sample ID is labeled at the bottom of the heatmap. Each row represents the chlorophyll fluorescence parameter and injury score of each variety. The colors close to red indicate that the value of each chlorophyll fluorescence parameter is higher than its average value over all accessions; for the injury score, the red represents the lower injury scores, which suggest that the variety is more tolerant to salt toxicity. The color key of the Z-score was calculated from the distance between the raw score and the population mean in units of the standard deviation. (PDF 1686 kb)

Published
2019
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49. Additional file 8: of Chlorophyll fluorescence analysis in diverse rice varieties reveals the positive correlation between the seedlings salt tolerance and photosynthetic efficiency

Author

Tsai, Yu-Chang, Kuan-Chuan Chen, Tung-Shan Cheng, Lee, Chuan, Shih-Hung Lin, and Tung, Chih-Wei

Abstract

Figure S2. Box plot of six chlorophyll fluorescence measurements and injury score in six subpopulations and two subspecies. Studentâ s t-test was used to determine whether any two subpopulations or two subspecies were different. *, **, and **** represent the significance level at Pâ

Published
2019
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50. MOESM6 of Genome-wide association study of rice genes and loci conferring resistance to Magnaporthe oryzae isolates from Taiwan

Author

Heng-An Lin, Szu-Yu Chen, Chang, Fang-Yu, Tung, Chih-Wei, Yi-Chia Chen, Wei-Chiang Shen, Ruey-Shyang Chen, Chih-Wen Wu, and Chung, Chia-Lin

Subjects
food and beverages
Abstract

Additional file 6: Table S6. Resistance and susceptibility haplotypes in the candidate blast QTLs identified using Magnaporthe oryzae isolate 12YL-DL3-2.

Published
2018
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