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SL Huang

Shir-Ly Huang

Professor and Director, Institute of Microbiology and Immunology, NYMU

Director, Department of Microbiology, College of Medicine, NYMU

Phone: +886-2-2826-7108 (Office)

      +886-2-2826-7000 ext: 5620 (Lab)

E-mail: sl.huang@ym.edu.tw

Education

9/1985 ~12/1990

PhD

Department of Microbiology, The University of Iowa, USA

9/1983 ~ 6/1985

MS

Institute of Microbiology and Immunology,

National Yang Ming University, Taiwan

9/1979 ~ 6/1983

BS

Department of Agricultural Chemistry,

National Taiwan University, Taiwan

Experience

2/2017~ present

Director

Institute of Microbiology and Immunology, College of Life Science, National Yang-Ming University, Taiwan

2/2017~ present

Director

Department of Microbiology, College of Medicine, NYMU

8/2016~ 1/2017

Professor

Institute of Microbiology and Immunology,

National Yang-Ming University, Taiwan

8/2004 ~ 7/2016

Professor

Dept. of Life Sciences,

National Central University, Taiwan

8/2015 ~ 7/2016

Professor

Dept. of Biomedical Science and Engineering, NCU

2/2015 ~ 7/2016

Professor

Institute of Environmental Engineering, NCU

8/2006 ~ 8/2015

Professor

Institute of Systems Biology and Bioinformatics, NCU

8/2010 ~ 7/2013

Chair

Department of Life Sciences, NCU, Taiwan

8/2007 ~ 7/2013

Director

Center for Biotechnology & Biomedical Engineering, NCU

8/2004 ~ 7/2006

Director

Division of Planning, Office of R&D, NCU, Taiwan

8/1997 ~ 7/1998

Acting Director

Graduate Institute of Life Sciences, NCU, Taiwan

8/1995 ~ 7/2004

Associate Professor

Graduate Institute of Life Sciences, NCU, Taiwan

10/1992~7/1995

Research Fellow

Development Center for Biotechnology, Taiwan

1/1991 ~ 9/1992

Postdoctoral Fellow

Eli Lilly & Co., Indianapolis, USA

Scientific interest

1. Microbial catabolism of toxic compounds including endocrine disrupting chemicals and surfactants/emulsifiers using biochemical, proteomic and mutagenesis approaches.

2. Microbial ecology/physiology of microbiome and human diseases.

Award

2013 Taipei International Invention Show &Technomart, Bronze Medal

2013 Research Award, NCU

2012 Patent Exposition, Japan, Gold Medal

2011 Taipei International Invention Show &Technomart, Gold Medal

2011 8th National Innovation Award, Taiwan

2008 Outstanding Research Award, Taiwan Agricultural Chemistry Society

2007、2009、2010、2011 Patent Award, NCU

1999、2001、2001 Outstanding Teacher Award, NCU

Journal editor

Journal of Microbiology, Immunology and Infection

Microbes and Environments

Board member/Service in society

Taiwan Society of Microbial Ecology (Founder and President) (2014-present)

Taiwan Society of Microbial Ecology (Vice President) (2010-2014)

Taiwan Microbiology Society (Board member) (2010-2016)

Ambassador to Taiwan, American Society for Microbiology (2012-2015)

Chair/organizer

2017 9th Asian Symposium on Microbial Ecology, Korea (Symposium co-chair, Session chair)

2016 8thAsian Symposium on Microbial Ecology, Taiwan (Symposium chair, opening remarks)

2015 Cross-Straits Symposium on Environmental Microbiology, Taiwan (Symposium chair, opening remarks)

2013 The5th Taiwan-Korea-Japan International Symposium on Microbial Ecology (Symposium chair, opening remarks)

2010 International Biogas and Biofuel Workshop (Workshop chair, opening remarks)

2010 International Symposium on Microbial Ecology (organizer, chair for keynote speeches)

2004 International Proteomics Conference (Session chair)

International collaboration

Prof. Kazuhiro Kogure (The University of Tokyo, Japan)

Prof. Kyoung Lee (Changwon National University, Korea)

Prof. Marina Sidorenko (Far Eastern Branch of Russian Academy of Sciences, Russia)

Invited seminar (in 5 years)

Pusan National University; Changwon National University, Korea

Australian Nuclear Science and Technology Organization, Australia

Tonghai University; Chung Shan Medical University, Taiwan

University of Tokyo; Tokyo Institute of Technology, Japan

Journal papers (after 2004)

  • Wei-Shan Hsieh, Chia-Chi Kung, Shir-Ly Huang, Shih-Chang Lin and Wei-Hsin Sun. 2017. TDAG8, TRPV1, and ASIC3 involved in establishing hyperalgesic priming in experimental rheumatoid arthritis. Scientific Reports. (In press)
  • Kirschner R., P.-L. Sun, S.-L. Huang, C.-L. Chen, C.-P. Yang. 2017. A case of bilateral otomycosis associated with Aspergillus flavus and A. terreus in Taiwan. Journal de Mycologie Médicale. (In press)
  • Rajendran, R. K., S-L. Huang, C-C. Lin, R. Kirschner. 2017. Biodegradation of the endocrine disrupter 4-tert-octylphenol by the yeast strain Candida rugopelliculosa RRKY5 via phenolic ring hydroxylation and alkyl chain oxidation pathways. Bioresource Technology 226, 55-64
  • Tuan, N. N., C-W. Yeh, P-C. Tsai,, K. Lee, S-L. Huang*. 2016. Transposon mutagenesis identifies genes critical for growth of Pseudomonas nitroreducens TX1 on octylphenolpolyethoxylates. Applied and Environmental Microbiology. 82, 6584-6592
  • Ranjith Kumar Rajendran, Shir-Ly Huang, Chu-Ching Lin, Roland Kirschner. 2016. Aerobic degradation of estrogenic alkylphenols by yeasts isolated from a sewage treatment plant. RSC Advances 6: 82862–82871.
  • Yi-Wen Lin, Chia-Chin Yang, Nguyen Ngoc Tuan, Shir-Ly Huang*. 2016. Diversity of octylphenol polyethoxylate-degrading bacteria: with a special reference to Brevibacterium sp. TX4. International Biodeterioration & Biodegradation 115, 55-63.
  • Yi-Wen Lin, Nguyen Ngoc Tuan, Shir-Ly Huang*. 2016. Metaproteomic analysis of the microbial community present in a thermophilic swine manure digester to allow functional characterization: a case study. International Biodeterioration & Biodegradation 115, 64-73.
  • Ting-Hsiang Lin, Gia-Luen Guo, Wen-Song Hwang, Shir-Ly Huang*. 2016. The addition of hydrolyzed rice straw in xylose fermentation by Pichia stipitis to increase bioethanol production at the pilot-scale. Biomass and Bioenergy 91, 204-209.
  • Shir-Ly Huang*, Nguyen Ngoc Tuan, and Kyoung Lee. 2016. Occurrence, human intake and biodegradation of estrogen-like nonylphenols and octylphenols. Current Drug Metabolism 17, 293-302
  • Sikandar I. Mulla, Anyi Hu, Yuwen Wang, Qian Sun, Shir-Ly Huang*, Han Wang and Chang-Ping Yu*. 2016. Degradation of triclocarban by a triclosan-degrading Sphingomonas strain YL-JM2C. Chemosphere 144, 292-296.
  • Roland Kirschner, Tien Hsu, Nguyen Ngoc Tuan, Chien-Lung Chen and Shir-Ly Huang*. 2015. Characterization of fungal and bacterial components in gut/fecal microbiome. Current Drug Metabolism 16, 272–283.
  • Yi-Lung Lin, Rashmi Madda, Wei-Hsin Sun, Shir-Ly Huang, Shih-Chang Lin. 2014. Interleukin-28 and Human Diseases. Clinical Molecular Medicine 5, 1-2.
  • Nguyen Ngoc Tuan, Kyoung Lee, Ju Beom Kang, and Shir-Ly Huang*. 2014. Characterization of a small cryptic plasmid from Pseudomonas nitroreducens strain TX1. Journal of Microbiology 50, 210-215.
  • Nguyen Ngoc Tuan, Yi-Chia Chang, Chang-Ping Yu, Shir-Ly Huang*. 2014. Multiple approaches to characterize the microbial community in a thermophilic anaerobic digester running on swine manure: a case study. Microbiological Research 169, 717-724.
  • Shir-Ly Huang*, Hsin Chen, Anyi Hu, Nguyen Ngoc Tuan, Chang-Ping Yu. 2014. Draft genome sequence of Pseudomonas nitroreducens strain TX1, which degrades non-ionic surfactants and estrogenic-like alkylphenols. Genome Announcement 2, e01262-13
  • Kyoung Lee, Eun Jin Lim, Keun Soo Kim, Shir-Ly Huang, Yaligara Veeranagouda, Bernd H. A. Rehm. 2014. An alginate-like exopolysaccharide biosynthesis gene cluster involved in biofilm aerial structure formation by Pseudomonas alkylphenoliaApplied Microbiology and Biotechnology 98, 4137-4148
  • Nguyen Ngoc Tuan, Yi Wen Lin, Shir Ly Huang*. 2013. Catabolism of 4-alkylphenols by Acinetobacter sp. OP5: Genetic organization of the oph gene cluster and characterization of alkylcatechol 2, 3-dioxygenase. Bioresource Technology 131, 420-428.
  • Anna Sokolova, Shir-Ly Huang, Anthony Duff, Elliot Paul Gilbert, Wen-Hsien Li. 2013. Correlation of thermostability and conformational changes of catechol 2, 3-dioxygenases from two disparate micro-organisms. Biophysical Chemistry 180-181, 145-152
  • Kuen Sheng Wang, Jung Hsing Chen, Yu Hsiang Huang, Shir Ly Huang*. 2013. Integrated Taguchi method and response surface methodology to confirm hydrogen production by anaerobic fermentation of cow manure. International Journal of Hydrogen Energy 38, 45-53.
  • Ting Hsiang Lin, Chiung Fang Huang, Gia Luen Guo, Wen Song Hwang, Shir-Ly Huang*. 2012. Pilot-scale ethanol production from rice straw hydrolysates using xylose-fermenting Pichia stipitis. Bioresource Technology 116, 314-319.
  • Nguyen Ngoc Tuan, Hsiao Cheng Hsieh, Yi Wen Lin, and Shir Ly Huang*. 2011. Analysis of bacterial degradation pathways for long-chain alkylphenols involving phenol hydroxylase, alkylphenol monooxygenase and catechol dioxygenase genes. Bioresource Technology 102, 4232-40.
  • Yi-Wen Lin, Gia-Luen Guo, Hsiao-Cheng Hsieh, Shir-Ly Huang*. 2010. Growth of Pseudomonas sp. TX1 on a wide range of octylphenol polyethoxylate concentrations and the formation of dicarboxylated metabolites. Bioresource Technology 101, 2853-2859.
  • Shir-Ly Huang*, Yuan-Chang Hsu, Chun-Ming Wu, Jeffrey W. Lynn and Wen-Hsien Li. 2010. Thermal effect on the activity and structural conformation of catechol 2, 3-dioxygenases from Pseudomonas putida SH1. J. Physical Chemistry. B 114, 987-992.
  • Li-Cheng Wu, Jorng-Tzong Horng, Shir-Ly Huang, Hsien-Da Huang, Baw-Jhiune Liu. 2006. Detection of discriminative sequence motifs in proteins obtained from prokaryotes grown at various temperatures. J. Computational Chemistry 27:798-808.
  • Hsi-Jien Chen, Gia-Luen Guo , Dyi-Hwa Tseng , Chen-Li Cheng , Shir-Ly Huang*. 2006. Growth factors, kinetics and biodegradation mechanism associated with Pseudomonas nitroreducens TX1 grown on octylphenol polyethoxylates. J. Environmental Management 80:279-286.
  • Hsi-Jien Chen, Dyi-Hwa Tseng, Shir-Ly Huang*. 2005. Biodegradation of octylphenol polyethoxylate surfactant Triton X-100 by selected microorganisms. Bioresource Technology 96:1483-1491.
  • Shir-Ly Huang*, Fu-Yung Lin, Chih-Ping Yang.2005. Microcalorimetric studies of the effects on the interactions of human recombinant interferon-α2a. European J. Pharmaceutical Sciences 24:545-552.
  • Jorng-Tzong Horng, Hsien-Da Huang, Shih-Hsien Wang, Ming-You Chen, Shir-Ly Huang, Jenn-Kang Hwang. 2004. Computing motif correlations in proteins. Journal of Computational Chemistry 24:2032-43.
  • Shir-Ly Huang*, Li-Cheng Wu, Han-Kuen Liang, Kuan-Ting Pan, Jorng-Tzong Horng and Ming-Tat Ko. 2004. PGTdb: a database providing growth temperature of prokaryotes. Bioinformatics 20: 276-278.
  • Shir-Ly Huang*, Li-Cheng Wu, Hsien-Da Huang, Han-Kuen Liang, Ming-Tat Ko, Jorng-Tzong Horng. 2004. A probabilistic method to correlate ion-pairs with protein thermostability. Applied Bioinformatics 3:21-29.
  • Shir-Ly Huang*, Chia-Jen Yang, Gia-Luen Guo, and S. H. Chou. 2004. Isolation, identification and properties of bacterial strains degrading octylphenol polyethoxylates. Taiwan Journal of Agricultural Chemistry and Food Science 42: 356-365.
  • Hsi-Jien Chen, S. L. Huang, and Dyi-Hwa Tseng. 2004. Aerobic biotransformation of octylphenol polythoxylates surfactant in soil microcosms. Environmental Technology25: 201-210.
  • Hsien-Da Huang, Jorng-Tzong Horng, Yi-Ming Sun, Ann-Ping Tsou and Shir-Ly Huang. 2004. Identifying transcriptional regulatory sites in the human genome using an integrated system. Nucleic Acids Research 32: 1948-1956.
 

Patent

R.O.C patents:  593173, I 240001, I258505,I 265173, I 368736, I502199, I 533871, I 533869

US patents: US 8,603,785 B2, US7,527,964, US7,405,067B2, US7,332,325B2,US7,115,411B2, US9,192,602, US9,284,281

Japan patents: 特許第4601394號, 特許第4522798號, 特許第4454471號, 特許第3967741號

Student award

2017

1. Po -Chun Tsai and Shir-Ly Huang. 2017. Characterization of a chemoreceptor, PctC, on the growth and chemotactic responses to Triton X-100 in Pseudomonas nitroreducens TX1. The 9th Asian Symposium on Microbial Ecology. Apr. 26-28. Busan, Korea [Outstanding Student Poster Award]

2015

1. Ranjith Kumar Rajendran, Roland Kirschner, Shir-Ly Huang, Chu-Ching Lin. Isolation of octylphenol degrading filamentous fungi from the environment and their biodegradation potential. 2015中華民國真菌學年會. Nov. 5-8. Taichung, Taiwan. [壁報論文獎第三名]

2. Ranjith Kumar Rajendran, Roland Kirschner, Shir-Ly Huang, Chu-Ching Lin. Isolation and characterization of 4-tert-octylphenol degrading yeasts isolated from wastewater treatment plant. 2015. Cross Strait Symposium on Environmental Microbiology. Nov. 5-8. Taichung, Taiwan.  [壁報論文獎佳作]

3. Po-Chun Tsai, Nguyen Ngoc Tuan, Chen-Wei Yeh, Kyoung Lee, and Shir-Ly Huang*. 2015. Identification of genes involved in the catabolism and stress response to octylphenol polyethoxylates (Triton X-100) in Pseudomonas nitroreducens TX1 by transposon mutagenesis. The 7th Japan-Taiwan-Korea International Symposium on Microbial Ecology. Oct. 17-20. Tsuchiura, Japan. [最佳壁報論文獎]

2014

1. Nu Ri Kwon, Da Yeon Kim, Hyo Sung Jung, Jung Min Oh, Ki Tae Park, Shir-Ly Huang, and Kyoung Lee. 2014 Comparative transcriptome analysis of an alkylphenol polyethoxylate degrader Pseudomonas nitroreducens TX1 Grown on succinate and Triton X-100. 2014 International Meeting of the Federation of Korean Microbiological Societies. Oct. 30-31. Kintex, Korea.  [第一名壁報論文獎]

2. 林駿晏、黃雪莉*. 2014. 非離子性界面活性劑對於格蘭氏陰性菌之型態與生化影響. 第17屆中國環境微生物學學術研討會. Nov. 7-10. 成都,中國 [海報獎]

3. Yung Chun Hsu, Wei-Lin, Shir-Ly Huang*. 2014. Isolation and preliminary characterization of five bacterial isolates on the transformation of natural estrogens and an oral contraceptive drug. 前瞻微生物生態學研討會 Sep. 4-5. Taipei, Taiwan.  [最佳壁報論文獎]

2013

1. Chun-Yen Lin, Hiroshi Xavier Chiura, Eiko Ikemoto, Kazuhiro Kogure, Shir-Ly Huang*. 2013. Microscopic observation and fatty acid profiling of log-phased Pseudomonas nitroreducens TX1 grown solely on non-ionic surfactant. The 5th Taiwan-Korea-Japan International Symposium on Microbial Ecology. Sept 30-Oct 2. Taoyuan, Taiwan. [最佳壁報論文獎]

2. Yi-Shiuan Li, Shih-Chang Lin, Shir-Ly Huang*. 2013. Discovery of protein biomarkers in plasma from active systemic lupus erythematosus patients by gel-based proteomics. The 22nd International Rheumatology Symposium. The 22nd International Rheumatology Symposium. April 18-20. Kyoto, Japan  [邀請口頭報告與 travel award]

2011

1. 林怡雯、莊岡恩、王鯤生、黃雪莉*. 2011. Metaproteomic Study of Thermophilic Anaerobic Digester for Biogas Production. 第二十屆第二次台灣微生物學會年會Dec. 18. Tainan, Taiwan.   [口頭報告論文獎第一名]

2. 胡菽蕓、阮玉俊、林怡雯、林育琦、陳冠菱、黃雪莉*. 2011. 細菌分解雌激素及類雌激素化合物. 第十四次中國環境微生物學術研討會. Nov. 25-28. Xiamen, China.  [優秀海報一等獎]

3. 林怡雯、李怡萱、莊岡恩、王鯤生、黃雪莉*. 2011. 沼氣生產菌群之多源蛋白質體學. 第十四次中國環境微生物學術研討會. Nov. 25-28. Xiamen, China.   [優秀海報三等獎]

2010

1. 江沂庭、劉婷婷、黃雪莉*. 2010. Proteomic analysis of the exproteome of thermophilic archaeon Sulfolobus acidocaldarius DSM639. 第二十屆第一次台灣微生物學會年會Dec. 12. Taipei, Taiwan.  [第一名壁報論文獎]

2. 周聖炘、蘇昱禎、林怡雯、黃明哲、郭家倫、黃雪莉*. 2010.草食動物糞便木質纖維酵素菌株之分離與篩選. International Symposium on Microbial Ecology. Sep. 29-30. Keelung, Taiwan. P32  [第二名壁報論文獎]

2009

1. 林育琦、謝孝正、黃雪莉. 2009. The degradation of octylphenol environmental hormone by bacteria in the environment. 環境細菌對環境荷爾蒙辛基苯酚的分解. 第十九屆台灣微生物學會年會Dec. 13. Taipei, Taiwan.  [第三名壁報論文獎]

2. 林怡雯、楊嘉蓁、黃雪莉. 2009. Property and diversity of bacteria in the degradation of octylphenol polyethoxylates in Taiwan. 台灣辛基苯酚聚氧乙基醇分解菌之特性及其多樣性. 第十九屆台灣微生物學會年會Dec. 13. Taipei, Taiwan.  [第一名壁報論文獎]

2008

1. 陳珮欣、黃雪莉. 2008. 以蛋白質體學研究嗜超高溫古生菌Aeropyrum pernix K1分泌蛋白體. Annual meeting of Taiwan Agricultural Chemistry Society. June 30. Taipei, Taiwan.  [傑出壁報論文獎]

2007

1. Wang, Da-Chen, Bao-Hing Chan and Shir-Ly Huang. 2007. Purification and characterization of octylphenol polyethoxylates transformation enzyme from Pseudomonas nitroreducens TX1. The 40th Annual Meeting of The Taiwan Society of Microbiology. Dec. 16. Taipei, Taiwan. [第一名壁報論文獎]

2. Chung, Yi-Ching, Ai-Lun Tseng and Shir-Ly Huang. 2007. Properties of alcohol dehydrogenase from Pseudomonas putida TX2 in the transformation of alkylphenol polyethoxylates. The 40th Annual Meeting of The Taiwan Society of Microbiology. Dec. 16. Taipei, Taiwan.  [第二名壁報論文獎]

3. Huang, Zhang-Yan, Hsing-Chan Wu, Che-Cheng Hsu and Shir-Ly Huang. 2007. Mining microbial proteomes for thermostable biocatalysts. Plant Protemics Symposium. May 17, 2007. TaiChung, Taiwan.  [第二名壁報論文獎]

2004

1. Chiu, F. F., B. C. Hsu, G. L. Guo, and S. L. Huang. 2004. “A proteomics study of metabolism of octylphenol polyethoxylates by Pseudomonas nitroreducens TX1”. The 38th Annual meeting of The Chinese Society of Microbiology. Taipei, Taiwan.  [第一名壁報論文獎]

2. Hung, G. C., C. H. Chen, and S. L. Huang. 2004. “An oxygen consumption enzyme up-regulated by Pseudomonas nitroreducens TX1 grown on a non-ionic surfactant: biochemical and gene studies”. The 38th Annual meeting of The Chinese Society of Microbiology. Taipei, Taiwan.  [第二名壁報論文獎]

2003

1. Hsu, B. C. and S. L. Huang. 2003. “The functional proteomics of the degradation of octylphenol polyethoxylates by Pseudomonas nitroreducens TX1”. The 37th Annual meeting of The Chinese Society of Microbiology. Taichung, Taiwan.  [第一名壁報論文獎]

2. Hsieh, H. C., C. Y. Liao, G. L. Guo, and S. L. Huang. 2003. “Isolation and characterization of a bacterial strain able to degrade alkylphenol polyethoxylates and alkylphenols”. The 37th Annual meeting of The Chinese Society of Microbiology. Taichung, Taiwan.  [第二名壁報論文獎]

3. Chen, H. J., S. L. Huang, D. H. Tseng, G. L. Guo, and H. C. Hsieh. 2003. “The study on biodegradability of Triton X-100 in soil microcosms”. The 1st Conference on Soil and Groundwater Technology. Taichung, Taiwan.  [傑出壁報論文獎]

2002

1. Cheng, C. L., H. J. Chen, L. N. Chen, D. H. Tseng, and S. L. Huang. 2002. “Degradation of Triton X-100 in a microcosm: the roles of exogenous degrader and bacterial community”. The 36th Annual meeting of The Chinese Society of Microbiology. Taipei, Taiwan. [第一名壁報論文獎]

2000

1. Lian, F. J. and S. L. Huang. 2000. “A proteome analysis of the degradation of aromatic compounds by Pseudomonas putida SH1”. Abstract of the 34th Annual Meeting of the Chinese Society of Microbiology. p. 85. [第一名壁報論文獎]

1999

1. 曾迪華、李欣怡、郭家倫、游庶海、黃雪莉. 1999. 冷卻水系統之微生物鑑定與控制方法之探討。 第四屆水再生及再利用研討會論文集. pp. 29-46. [壁報論文競賽優勝獎]

 

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