國立中興大學基因體暨生物資訊學研究所

　　

　　 　　

　　　　　　　

　　　　　　　

　　　　　　　

基因體暨生物資訊學研究所

Graduate Institute of Genomics and Bioinformatics

Chinese
English

興大首頁

National Chung Hsing University

醫科博班

Doctoral Program in Medical Biotechnology

生命科學院

College of Life Sciences

Chen, Ying-Tsong

Lab: Microbial Genomics Lab

ORCID https://orcid.org/0000-0003-1337-4127

Experience

Title Department Period
Professor NCHU, Institute of Genomics and Bioinformatics 2022-
Adjunct Investigator National Health Research Institutes,  Institute of Molecular and Genomic Medicine 2023-

Research

Research Interests
  1. Antimicrobial Resistance and Mobile Genetic Elements
  2. Emerging Pathogens and Outbreak Genomics
  3. Host–Microbe Interactions and Functional Regulation
  4. Symbiotic Microbes and Vector Control Genomics

Lectures:

Course

Biochemistry (University Department of Horticulture)
Cell Biology (University Biotechnology Program)
Bioinformatics and Internship (University Department of Life Sciences)
Interesting Talk on Life Science and Bioinformatics (University General Course)
Biochemistry (Department of Food and Biotechnology)
Shotgun Sequencing Principles and Practice (Fundamentals)
Functional Biology (Foundation Institute)
Special Discussion on Biomedical Big Data (1, 2) (Foundation Institute)
Microbial Genetics and Genomes (1, 2)
Applied Genomics and Bioinformatics cum Internship (GFSI)
Panel Discussion (GFSI)
Thematic Study E (Medical Courses)

Publications

Journal (∗Corresponding author)
  1. Hong YP, Yeh WS, Wan MH, Wu YC, Chen YT, Huang WK, Yang CH, Su LY, Hong YM, Tsai PJ, Chen YT, Lin,CT Lai YC, Chiou CS, Chen YT* Plasmid-borne transcriptional regulator RamAp modulates Salmonella genes for environmental and host adaptation. 2026. Front Microbial. [Accepted]
  2. Yu HY, Chen BY, Chen YT, Huang WK, Yang CH, Wu YC, Wan MS, Yeh WS, Got FG, You H, Too PK, Ng SH, Cai Y, Li JC, Chen CH, Liu WL*. Establishment and characterization of a Wolbachia (wAlbB)-infected Aedes aegypti line (Tw-Kao) for dengue control. 2026. PLOS Neglected Tropical Diseases 20(5): e0014222. [online]
  3. Huang WK, Yang CH, Lee YC, Wu YC, Chen YT, Wan MS, Yeh WS, Hong YP, Wu TH, Li JC, Liu WL, Chen CH, Chen YT*. Adaptive sampling-based enrichment enables genome reconstruction of intracellular symbionts despite host background and reference divergence. 2026. bioRxiv 2026.03.25.714109. [online]
  4. Dhital B, Pudasaini R, Hsieh JC, Pudasaini R, Chen YT, Chao DY, Chiang HI*. One Health Perspective on Antimicrobial Resistance in Bovine Mastitis Pathogens — A Narrative Review. 2026. Antibiotics. 15(1):84. [online]
  5. Wu TH, Wu YC, Yeh WS, Wan MS, Li RY, Lee CY, Fang YP, Yang YY, Chang YF, Chen YT*. Genomic and phylogenetic characterization of human-adapted methicillin-resistant Staphylococcus aureus clonal complex 398 lineages in Taiwan. 2025. Microbiol Spectr. 0:e02090-25. [online]
  6. Dhital B, Chen YT, Paudyal S, Pudasaini R, Chen YT, Chiang HI*. Genomic signatures of beta-lactam resistance and reversion in Staphylococcus aureus from bovine mastitis. Lett Appl Microbial. 2025. 78(10):ovaf107. [online]
  7. Chou TH, Chen CW, Huang SH, Chen YT, Chu YW. Rapid antibiotic sensitivity prediction in Pseudomonas aeruginosa using UV–vis-NIR spectroscopy and gray-box one-vs-all models. J Microbiol Methods. 2025. 236:107179. [online]
  8. Chen CM, Tang HL, Chen YT, Ke SC, Lin YP, Chen BH, Teng RH, Chiou CS, Lu MC*, Lai YC*. Emergence and transmission of the high-risk ST78 clone of OXA-48-producing Enterobacter hormaechei in a single hospital in Taiwan. Emerg Microbes Infec. 2024. 13:2404165. [online]
  9. Huang CL, Chu HF, Wu CC, Deng FS, Wen PJ, Chien SP, Chao CH, Chen YT, Lu MK, Tsai TC*. Exopolysaccharide is the Potential Effector of Lactobacillus fermentum PS150, a Hypnotic Psychobiotic Strain. Front Microbial. 2023. 14:1209067. [online]
  10. Cheng YH, Ko YC, Ku HJ, Huang CC, Yao YC, Liao YT, Chen YT, Huang SF, Huang LR*. Novel paired cell lines for the study of lipid metabolism and cancer stemness of hepatocellular carcinoma. Front Cell Dev Biol. 2022. 10:821224. [online]
  11. Lee YL, Liu KM, Chang HL, Liao YC, Lin JS, Kung FY, Ho CM, Lin KH, Chen YT*. The evolutionary trend and genomic features of an emerging lineage of Elizabethkingia anophelis strains in Taiwan. Microbiol Spectr. 2022 [online]
  12. Hong YP, Wang YW, Chen BH, Song HY, Chiou CS, Chen YT*. RamAp, an efflux pump regulator carried by an IncHI2 plasmid. Antimicrob Agents Chenother. 2022 [Epub ahead of print]
  13. Hong YP, Chen YT, Wang YW, Chen BH, Teng RH, Chen YS, Chiou CS*. Integrative and conjugative element-mediated azithromycin resistance in multi drug-resistant Salmonella enterica serovar Albany. Antimicrob Agents Chemother. 2021 [Epub ahead of print]
  14. Huang YS, Tsai WC, Li JJ, Chen PY, Wang JT, Chen YT, Chen FJ, Lauderdale TL, Chang SC. Increasing New Delhi metallo- β-lactamase-positive Escherichia coli among carbapenem non-susceptible Enterobacteriaceae in Taiwan during 2016 to 2018. Sci Rep. 2021. 11(1):2609. [online]
  15. Lee YL, Liu KM, Chang HL, Lin JS, Kung FY, Ho CM, Lin KS, Chen YT*. A dominant strain of Elizabethkingia anophelis emerged from hospital water system to cause a three-year outbreak in a respiratory care center. J Hosp Infect. 2021. 108:43-51. PubMed PMID33157171. [online]
  16. Lu MC, Chen YT, Tang HL, Liu YY, Chen BH, Wang YW, Chen YS, Teng RH, Hong YP, Chiou CS, Chiang MK, Lai YC*. Transmission and evolution of OXA-48-producing Klebsiella pneumoniae ST11 in a single hospital in Taiwan. J Antimicrob Chemother. 2020. 75(2):318-326. [online]
  17. Liu KM, Chang HL, Hsu MH, Lin YZ, Lee YL, Chen YT*. Complete Genome Sequencing of Elizabethkingia sp. Strain 2-6. Microbiol Resour Announc. 2019. 8(44). pii: e00805-19. [online]
  18. Wang YC, Tang HL, Liao YC, Chiou CS, Chen YT, Chiang MK, Lu MC, Lai YC. Co-carriage of distinct blaKPC-2and blaOXA-48 plasmids in a single ST11 carbapenem-resistant Klebsiella pneumoniae isolate. Antimicrobial Agents and Chemotherapy(2019). [online]
  19. Dou HY, Lin CH, Chen YY, Yang SJ, Chang JR, Wu KM, Chen YT, Chin PJ, Liu YM, Su IJ, Tsai SF: Lineage-specific SNPs for genotyping of Mycobacterium tuberculosis clinical isolates. Scientific Reports(2017). [online]
  20. Chiou CS*, Chen YT, Wang YW, Liu YY, Kuo HC, Tu YH, Lin AC, Liao YS, Hong YP. Dissemination of mcr-1-Carrying Plasmids among Colistin-Resistant Salmonella Strains from Humans and Food-Producing Animals in Taiwan. Antimicrobial Agents and Chemotherapy(2017). [online]
  21. Lu MC, Chen YT, Chiang MK, Wang YC, Hsiao PY, Huang YJ, Lin CT, Cheng CC, Liang CL, Lai YC: Colibactin contributes to the hyper virulence of pks+ K1 CC23 Klebsiella pneumoniae in mouse meningitis infections. Frontiers in Cellular and Infection Microbiology(2017). [online]
  22. Chen YT, Lai YC, Tan MC, Hsieh LY, Wang JT, Shiau YR, Wang HY, Lin AC, Lai JF, Huang IW, Lauderdale TL: Prevalence and characteristics of pks genotoxin gene cluster-positive clinical Klebsiella pneumoniae isolates in Taiwan. Scientific Reports(2017). [online]
  23. Chen YT, Siu LK, Tsai YK, Lin FM, Koh TH, Chen JH*. A Common Flanking Region in Promiscuous Plasmids Encoding blaNDM-1 in Klebsiella pneumoniae Isolated in Singapore. Microbial Drug Resistance. 2016. 22:109-114. [online]
  24. Huang TW, Lauderdale TL, Liao TL, Hsu MC, Chang FY, Chang SC, Khong WX, Ng OT, Chen YT, Kuo SC, Chen TL, Mu JJ, Tsai SF: Effective transfer of a 47 kb NDM-1-positive plasmid among Acinetobacter species. Journal of Antimicrobial Chemotherapy(2015). [online]
  25. Chang JW, Hou MM, Hsieh JJ, Cheung YC, Wang HM, Chen JS, Wang CH,Chen CH, Yeh KY, Ou LY, Hsieh CH, Wu HDI, Chen YT, Chang IC, Huang SF: Early radiographic response to epidermal growth factor receptor- tyrosine kinase inhibitor in non-small cell lung cancer patients with epidermal growth factor receptor mutations: A prospective study. Biomedical Journa(2015). [online]
  26. Tang HJ, Chen YT, Chiang T, Fung CP, Chuang YC, Siu LK: Identification of the first imported KPC-3 Klebsiella pneumoniae from the USA to Taiwan. International Journal of Antimicrobial Agents(2014). [online]
  27. Chen CJ, Wu TL, Chen YT, Fung CP, Chuang YC, Lin JC*, and Siu LK. Closely related NDM-1-encoding plasmids from Escherichia coli and Klebsiella pneumoniae in Taiwan. PlosONE. 2014. 9:e104899. [online]
  28. Lai YC, Lin AC, Chiang MK, Dai YH, Hsu CC, Lu MC, Liau CY, and Chen YT: Genotoxic Klebsiella pneumoniae in Taiwan. PlosONE(2014). [online]
  29. Chen YT*, Lin JC, Fung CP, Lu PL, Chuang YC, Wu TL, Siu LK*. KPC-2-encoding plasmids from Escherichia coli and Klebsiella pneumoniae in Taiwan. Journal of Antimicrobial Chemotherapy(2014). [online]
  30. Huang TW, Wang JT, Lauderdale TL, Liao TL, Lai JF, Tan MJ, Lin AC, Chen YT*, Tsai SF, Chang SC*. Complete sequences of two plasmids in an NDM-1 positive Klebsiella oxytoca isolated from Taiwan. Antimicrobial Agents and Chemotherapy. 2013. 57:4072-4076. [online]
  31. Huang TW, Chen TL, Chen YT*, Lauderdale TL, Liao TL, Lee YT, Chen CP, Liu YM, Lin AC, Chang YH, Wu KM, Kirby R, Lai JF, Tan, MC, Siu, LK, Chang CM, Fung CP, Tsai SF. Copy Number Change of the NDM-1 Sequence in a Multidrug-Resistant Klebsiella pneumoniae Clinical Isolate. PlosONE. 2013. 8:e62774. [online]
  32. Chen YT*, Lin AC, Siu LK, Koh TH. Sequence of closely related plasmids encoding blaNDM-1 in two unrelated Klebsiella pneumoniae isolates in Singapore. PlosONE. 2012. 7:e48737. [online]
  33. Lin AC, Liao TL, Lin YC, Lai YC, Lu MC, Chen YT*. Complete Genome Sequence of Klebsiella pneumoniae 1084, a Hypermucoviscosity-negative K1 Clinical Strain. Journal of Bacteriology. 2012. 194:6316. [online]
  34. Liao TL, Chen SY, Lin AC, Huang TW, Lauderdale TL, Tsai SF, and Chen YT*. Complete genome sequence of Klebsiella oxytoca E718, a New Delhi Metallo-beta-lactamase-1-producing nosocomial strain. Journal of Bacteriology. 2012. 194:5454. [online]
  35. Huang SH, Wang CK, Peng HL, Wu CC, Chen YT*, Hong YM, and Lin CT. Role of the small RNA RyhB in the Fur regulon in mediating the capsular polysaccharide biosynthesis and iron acquisition systems in Klebsiella pneumoniae. BMC Microbiology. 2012. 12:148. [online]
  36. Huang TW, Chen FJ, Miu WC, Liao TL, Lin AC, Huang IW, Wu KM, Tsai SF, Chen YT*, and Lauderdale TL*. Complete Genome Sequence of Staphylococcus aureus M013, a pvl-positive ST59:SCCmec V Strain Isolated in Taiwan. Journal of Bacteriology. 2012. 194:1256-1257. [online]
  37. Chen YT*, Chang WC J, Liu HP, Yu TF, Chiu YT, Hsieh JJ, Chen YT, Chen YR, Wu I HD, Huang SF*. Clinical implications of high MET gene dosage in non-small cell lung cancer patients without prior tyrosine kinase inhibitor treatment. Journal of Thoracic Oncology. 2011. 6:2027-2035. [online]
  38. Chang JR, Lin CH, Tsai SF, Su IJ, Tseng FC, Chen YT*, Chiueh TS, Sun JR, Huang TS, Chen YS, and Dou HR*. Genotypic analysis of genes associated with transmission and drug resistance in the Beijing lineage of Mycobacterium tuberculosis. Clinical Microbiology and Infection. 2011. 17:1391-1396. [online]
  39. Hoang KC, Lai TH, Lin CS, Chen YT*, and Liau CY*.The Chitinolytic Activities of Streptomyces sp. TH-11. International Journal of Molecular Sciences. 2011. 12:56-65. [online]