Publications

📄 期刊論文 Journal Articles 14

Ling-Yu Chen, Yen-Hsiang Huang, Chung-Feng Kao, Yan-Jeng Wu, Ting-Fang Hsieh, Jiunn-Feng Su, Yung-Hsiang Lai, Pen-Chih Lai, Yung-Yu Lin, Te-Cheng Lin, Wen-Huei Chen, Hong-Hwa Chen and Shu-Yun Chen.

Whole-genome resequencing-based GWAS reveals loci associated with yellow leaf disease resistance in Phalaenopsis.

Scientia Horticulturae 2026 NEW 359:114767 DOI

Pei-Hsiu Kao, Supaporn Baiya, Chong-Wei Lee, Chia-Wen Tseng, Shu-Yun Chen, Yen-Hsiang Huang and Chung-Feng Kao.

Identification of key drought-tolerant genes in soybean using an integrative data-driven feature engineering pipeline.

Journal of Big Data 2025 12:68 DOI

Po-Hsien Lu, Yung-Chang Lai, and Shu-Yun Chen.

Advances in Genome-Wide Association Study (GWAS) on the Sweetpotato (Ipomoea batatas).

Journal of Agriculture and Forestry 2025 72(1): 59–80 LINK

Ya-Syuan Lai, Shu-Yun Chen, Yan-Jeng Wu, Wen-Huei Chen, Hong-Hwa Chen, Yung-Yu Lin, Te-Cheng Lin, Te-Ju Lin, and Chung-Feng Kao.

Genetic profiles and phenotypic patterns in Taiwanese Phalaenopsis orchids: a two-step phenotype and genotype strategy using modified genetic distance algorithms.

Frontiers in Plant Science 2024 15:1416886 DOI

Li, Y. D., Liu, Y. C., Jiang, Y. X., Namisy, A., Chung, W. H., Sun, Y. H., & Chen, S. Y.

Analyzing genetic diversity in luffa and developing a Fusarium wilt-susceptible linked SNP marker through a single plant genome-wide association (sp-GWAS) study.

BMC Plant Biology 2024 24(1):307 DOI

Namisy, A., Chen, S. Y., Huang, J. H., Unartngam, J., Thanarut, C., & Chung, W. H.

Histopathology and quantification of green fluorescent protein-tagged Fusarium oxysporum f. sp. luffae isolate in resistant and susceptible Luffa germplasm.

Microbiology Spectrum 2024 e03127-23 DOI

Wu, Y. J., Chen, S. Y., Hsu, F. C., Wu, W. L., Hsieh, T. F., Su, J. F., Lai, Y. H., Lai, P. C., Chen, W.H. & Chen, H. H.

PeCIN8 expression correlates with flower size and resistance to yellow leaf disease in Phalaenopsis orchids.

BMC Plant Biology 2023 23(1):545 DOI

Chia-Chi Hsu, Shu-Yun Chen, Shang-Yi Chiu, Cheng-Yuan Lai, Pei-Han Lai, Tariq Shehzad, Wen-Luan Wu, Wen-Huei Chen, Andrew H. Paterson & Hong-Hwa Chen*.

High-density genetic map and genome-wide association studies of aesthetic traits in Phalaenopsis orchids.

Scientific Reports 2022 12:3346 DOI

Shu-Yun Chen, Yan-Jeng Wu, Ting-Fang Hsieh, Jiunn-Feng Su, Wei-Chiang Shen, Yung-Hsiang Lai, Pen-Chih Lai, Wen-Huei Chen and Hong-Hwa Chen.

Develop an efficient inoculation technique for Fusarium solani isolate "TJP-2178-10" pathogeny assessment in Phalaenopsis orchids.

Botanical Studies 2021 62:4–11 DOI

Chia-Chi Hsu, Shu-Yun Chen, Pei-Han Lai, Yu-Yun Hsiao, Wen-Chieh Tsai, Zhong-Jian Liu, Mei-Chu Chung, Olivier Panaud and Hong-Hwa Chen.

Identification of high-copy number long terminal repeat retrotransposons and their expansion in Phalaenopsis orchids.

BMC Genomics 2020 21:807–820 DOI

Shu-Yun Chen, Mei-Hsiu Su, Karl A. Kremling, Nicholas K. Lepak, M. Cinta Romay, Qi Sun, Peter J. Bradbury, Edward S. Buckler and Hsin-Mei Ku.

Identification of miRNA-eQTLs in maize mature leaf by GWAS.

BMC Genomics 2020 21:689–702 DOI

Yi-Lun Liao, Wen-Shiin Lin and Shu-Yun Chen. [通訊作者]

'Taichung No. 5': A Short Plant Height with High Grain Yield Job's Tears Cultivar.

HortScience (American Society for Horticultural Science) 2019 52:761–762 DOI

Karl A.G. Kremling, Shu-Yun Chen, Mei-Hsiu Su, Nicholas K. Lepak, M. Cinta Romay, Kelly L. Swarts, Fei Lu, Anne Lorant, Peter J. Bradbury, Edward S. Buckler.

Dysregulation of expression correlates with rare-allele burden and fitness loss in maize.

Nature 2018 555:520–523 DOI

Wei-Ting Liu, Peng-Wen Chen, Li-Chi Chen, Chia-Chun Yang, Shu-Yun Chen, Guan-Fu Huang, Tzu-Che Lin, Hsin-Mei Ku and Jeremy J.W. Chen.

Suppressive Effect of MicroRNA319 Expression on rice plant height.

Theoretical and Applied Genetics 2017 130(7):1507–1518 DOI

📚 書籍著作 Books & Chapters 1

2025

Applications and Future Perspectives of Genome-Wide Association Studies in Horticultural Flower Crops

Chen, S.-Y. et al.

CABI Digital Library · 10.1079/9781800627895.0008

🎤 研討會海報 Conference Posters 10

#	年份	Year	題目	Title
1	2025	探討台農57與台農66甘藷的氮素分配模式與氮肥使用效率之差異佳作	臺灣園藝學會114年會暨論文宣讀	陳柏儒、陸柏憲、鄭舒允
2	2025	Genetic exploration and Genome-Wide Association Study of Leaf Morphology in Sweet Potato Germplasm from the TARI Chiayi Branch, Taiwan.	ABS2025	Chong-Wei Lee, Po-Hsien Lu, and Shu-Yun Chen
3	2025	Identification of molecular markers associated with growth and floral traits in hydrangea through GWAS analysis.	ABS2025	Chang-Yin Chu, Shu-Yun Chen and Chin-Mu Chen
4	2025	A proposed model of the early resistance gene expression pathway in Luffa against Fusarium oxysporum strain FOLUST.	ABS2025	Che-Han Chu, Yu-Xuan Jiang, Yu-Chi Liu, Mei-Hsiu Su, Ahmed Namisy, Wen-Hsin Chung, Hsin-Hung Lin, and Shu-Yun Chen
5	2025	Discovery of seven reproducible markers linked to mid-to-late Stage Fusarium Wilt in Luffa through Genome-Wide Association Study.	ABS2025	Yu-Chi Liu, Yu-Xuan Jiang, Ahmed Namisy, Wen-Hsin Chung and Shu-Yun Chen
6	2025	Transcriptome profiling identifies cell wall biosynthesis as a key early defense mechanism in luffa against fusarium wilt.	ABS2025	Yu-Xuan Jiang, Che-Han Chu, Yu-Chi Liu, Mei-Hsin Su, Ahmed Namisy, Wen-Hsin Chung, Hsin-Hung Lin and Shu-Yun Chen
7	2025	Unveiling Key genes underlying High-market value traits in bitter gourd through integrated computer vision and GWAS approaches. Best Poster Award 🏆	ABS2025	Chi-Chen Wei, Chuang-Kai Chueh, Sheng-Chih Chang and Shu-Yun Chen
8	2025	Genetic Structure and Phylogenetic Analysis of 183 Sweet Potato Germplasm from TARI Chiayi Branch.	2025 International Symposium on Genomics, Evolution and Biodiversity	Chong-Wei Lee, Po-Hsien Lu, and Shu-Yun Chen
9	2024	Genetic Exploration and Genome-Wide Identification of Resistance Genes Related to Yellow Leaf Disease in Phalaenopsis Orchids. 3rd Best Poster Award 🥉	The 32nd Plant & Animal Genome Conference	Ling-Yu Chen, Yen-Hsiang Huang, Yan-Jeng Wu, Wen-Huei Chen, Hong-Hwa Chen, Shu-Yun Chen
10	2024	A multiple phenotypes imputation method for genetic diversity and core collection in Taiwanese vegetable soybean.	ASA, CSSA, SSSA International Annual Meeting	Ling-Yu Chen, Yen-Hsiang Huang, Yan-Jeng Wu, Wen-Huei Chen, Hong-Hwa Chen, Shu-Yun Chen

🏅 學生得獎 Student Awards 2

年份	Year	學生	Student	獎項	Award	名次	Rank	論文題目	Thesis Title
2025	陳令瑜	台灣植物學會　最佳植物學碩士論文	Taiwan Botanical Society — Best M.S. Thesis in Plant Biology	佳作	基因型數據集篩選對蝴蝶蘭黃葉病抗性之全基因體關聯分析結果之影響
2025	魏琪蓁	台灣植物學會　最佳植物學碩士論文	Taiwan Botanical Society — Best M.S. Thesis in Plant Biology	佳作	利用電腦輔助判讀苦瓜花性與果實性狀的遺傳模式及相關QTL的探勘

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