MICROBIAL LAB

Rajith Vidanaarachchi, Sen Lin Tang, Saman Halgamuge, 2024, CoPR: Collective Pattern Recognition—a Framework for Microbial Community Activity Analysis, doi: https://doi.org/10.1101/2024.06.30.601456 (bioRxv)

PS Chuang, TH Wang, CY Lu, K Tandon, S Shikina, SL Tang*, 2024, Microbiome heterogeneity in tissues of the coral, Fimbriaphyllia (Euphyllia) ancora, Environmental Microbiology Reports 16 (4), e13310

Benjamin Mason, David C Hayward, Aurelie Moya, Ira Cooke, Alanna Sorenson, Ramona Brunner, Natalia Andrade, Roger Huerlimann, David G Bourne, Patrick Schaeffer, Mila Grinblat, Timothy Ravasi, Nobuo Ueda, Sen-Lin Tang, Eldon E Ball, David J Miller, 2024, Microbiome manipulation by corals and other Cnidaria via quorum quenching, Current Biology, DOI:https://doi.org/10.1016/j.cub.2024.05.073.

Suraphan Panyod, Wei-Kai Wu, Chih-Ting Chang, Naohisa Wada, Han-Chen Ho, et al., 2024, Reassessing the safety of dietary emulsifiers through the lens of gut microbiota,Communications Biology 7 (1), 749  https://doi.org/10.21203/rs.3.rs-2731923/v1

Y Hirose, SL Tang, H Yamashiro, 2024, Arrangement and Development of Spicules in the Coral-killing Sponge, Terpios hoshinota, Zoological Studies 63,

Po-Shun Chuang, Sheng-Ping Yu, Po-Yu Liu, Ming-Tsung Hsu, Yu-Jing Chiou, Chih-Ying Lu, Sen-Lin Tang*, 2024, A gauge of coral physiology: re-examining temporal changes in Endozoicomonas abundance correlated with natural coral bleaching, ISME Communication, ycae001

Hideyuki Yamashiro* and Sen-Lin Tang, 2024, Rediscovery of Seriatopora corals in shallow reefs of Okinawa Island,
Japan, Regional Studies in Marine Science, doi: 10.1016/j.rsma.2023.103352

Ya-Fan Chan, Yu-Hsiang Chen, Sheng-Ping Yu, Hsing-Ju Chen, Yoko Nozawa, and Sen-Lin Tang*, 2024, Reciprocal transplant experiment reveals multiple factors influencing changes in coral microbial communities across climate zones, Science of The Total Environment, 907:167929

Yu-Jing Chiou, Ya-Fan Chan, Sheng-Ping Yu, Chih-Ying Lu, Silver Sung-Yun Hsiao, Pei-Wen Chiang, Ting-Chang Hsu, Po-Yu Liu, Naohisa Wada, Yu Lee, Wann-Nng Jane, Der-Chuen Lee, Yu-Wen Huang, Sen-Lin Tang^*, 2023, Similar but different: characterization of dddD gene mediated dimethylsulfoniopropionate metabolism among Coral-Associated Endozoicomonas dddD-gene mediated DMSP metabolism in Endozoicomonas, Science Advances, 9:
DOI: 10.1126/sciadv.adk1910

PS Chuang, Y Yamada, PY Liu, SL Tang, S Mitarai, 2023, Bacterial Community Shifts during Polyp Bail-Out Induction in Pocillopora Corals, Microbiology Spectrum 11 (4), e00257-23

Hui-Ju Huang†, Sen-Lin Tang†, Yuan-Chih Chang, Hao-Ching Wang, Tze Hann Ng, Rees F. Garmann,Yu-Wen Chen, Jiun-Yan Huang, Ramya Kumar, Sheng-Hsiung Chang, Shang-Rung Wu, Chih-Yu Chao, Kyoko Matoba, Iwasaki Kenji, William M. Gelbart, Tzu-Ping Ko, Hwei-Jiung Wang, Chu-Fang Lo, Li-Li Chen,* and Han-Ching Wang*, 2023, Multiple Nucleocapsid Structural Forms of Shrimp White Spot, Syndrome Virus Suggests a Novel Viral Morphogenetic Pathway, International Journal of Molecular Sciences, 24(8), 7525

Naohisa Wada, Akira Iguchi, Yuta Urabe, Yuki Yoshioka, Natsumi Abe, Kazuki Takase, Shuji Hayashi, Sakiko Kawanabe, Yui Sato, Sen-Lin Tang*, Nobuhiro Mano*, 2023, Microbial mat compositions and localization patterns explain the virulence of black band disease in corals. NJP Biofilms and Microbiomes, 9, 15

Pei-Hsuan Chou, Marian Y Hu, Ying-Jey Guh, Guan-Chung Wu, Shan-Hua Yang, Kshitij Tandon, Yi-Ta Shao, Li-Yih Lin, Chi Chen, Kuang-Yu Tseng, Min-Chen Wang, Cheng-Mao Zhang, Bor-Cheng Han, Ching-Chun Lin, Sen-Lin Tang, Ming-Shiou Jeng, Ching-Fong Chang, Yung-Che Tseng, 2023, Cellular mechanisms underlying extraordinary sulfide tolerance in a crustacean holobiont from hydrothermal vents, Proceedings of the Royal Society B 290 (1990), 20221973

Yu-Jing Chiou, Yu-Hsiang Chen, Pei-Wen Chiang, Hsing-Ju Chen, Sen-Lin Tang*, 2023, High-quality genome sequences of two octocoral-associated bacteria, Endozoicomonas euniceicola EF212T and Endozoicomonas gorgoniicola PS125T, Microbiology Resource Announcements, 12(1):e0087722. doi: 10.1128/mra.00877-22. Epub 2022 Dec 21.

Shikina S, Lin T-C, Chu Y-L, Cheng Y-C, Chang Y-E, Wada N, Tang S-L, Iizuka Y and Chiu Y-L (2023) Culturing reef-building corals on a laboratory dish: a simple experimental platform for stony corals. Front. Mar. Sci. 10:1149495. doi: 10.3389/fmars.2023.1149495

Hideyuki Yamashiro, Naohisa Wada & Sen-Lin Tang, 2023, Succession and Spread of Coral Diseases and Coral-Killing Sponges with Special Reference to Microbes in Southeast Asia and Adjacent Waters, First Online: 25 June 2023

B Enkhee, B Chuluun, B Baatar, S Nyamdorj, SL Tang, B Oyuntsetseg, 2023, Seasonal variation of physico-chemical characteristics in water of meromictic Lake Oigon, Hydrological Research Letters 17 (2), 49-55

Daphne Z. Hoh, Hsin-Han Lee, Naohisa Wada, Wei-An Liu, Min R. Lu, Cheng-Kuo Lai, Huei-Mien Ke, Pei-Feng Sun, Sen-Lin Tang, Wen-Hsin Chung, Ying-Lien Chen, Chia-Lin Chung & Isheng Jason Tsai, 2022, Comparative genomic and transcriptomic analyses of trans-kingdom pathogen Fusarium solani species complex reveal degrees of compartmentalization. BMC Biol 20, 236.

Wang CW, Michelle Wong JW, Yeh SS, Eric Hsieh Y, Tseng CH, Yang SH, Tang SL, 2022, Soil Bacterial Community May Offer Solutions for Ginger Cultivation. Microbiol Spectr. 13:e0180322. doi: 10.1128/spectrum.01803-22.

125. Parkinson John Everett, Tang Sen-Lin, Denis Vianney, 2022, Editorial: Variance matters: Individual differences and their consequences for natural selection within and among coral holobionts, Frontiers in Ecology and Evolution 10: DOI=10.3389/fevo.2022.977844

Dao Thi Anh Tuyet, Le Minh Hiep, Ha Thi Binh, Le Thanh Huyen, Sen‑Lin Tang, Pei‑Wen Chiang, Do Manh Hao, 2022, A multi‑step nitrifying microbial enrichment to remove ammonia and nitrite in brackish aquaculture systems, Biodegradation, https://doi.org/10.1007/s10532-022-09988-9

Chow SW, Keshavmurthy S, Reimer JD, de Voogd N, Huang H, Wang J, Tang S, Schupp PJ, Tan CH, Liew H, Soong K, Subhan B, Madduppa H, Chen CA. 2022. Population genetics and demography of the coral-killing cyanobacteriosponge, Terpios hoshinota, in the Indo-West Pacific. PeerJ 10:e13451 https://doi.org/10.7717/peerj.13451

Naohisa Wada, Ming-Tsung Hsu, Kshitij Tandon, Sliver Sung-Yun Hsiao, Hsing-Ju Chen, Yu-Hsiang Chen, Pei-Wen Chiang, Sheng-Ping Yu, Chih-Ying Lu, Yu-Jing Chiou, Yung-Chi Tu, Xuejiao Tian, Bi-Chang Chen, Der-Chuen Lee, Hideyuki Yamashiro, David G. Bourne, Sen-Lin Tang*, 2022, High-resolution spatial and genomic characterization of coral-associated microbial aggregates in the coral Stylophora pistillata, Science Advances, 8(27):eabo2431. doi: 10.1126/sciadv.abo2431. Epub 2022 Jul 6.

Shintaro Hara*, Naohisa Wada*, Sliver Sung-Yun Hsiao†, Meng Zhang, Zhihua Bao, Yoshiyuki Iizuka, Der-Chuen Lee, Shusei Sato, Sen-Lin Tang†, Kiwamu Minamisawa†, 2022, In vivo evidence of 13C and 15N isotope–labeled methanotrophic nitrogen-fixing bacterial single cells in rice roots, mBio, https://doi.org/10.1128/mbio.01255-22.

119. Kshitij Tandon#, Yu-Jing Chiou#, Sheng-Ping Yu#, Hernyi Justin Hsieh, Chih-Ying Lu, Ming-Tsung Hsu, Pei-Wen Chiang, Hsing-Ju Chen, Naohisa Wada, Sen-Lin Tang*, 2022, Microbiome Restructuring: Dominant Coral Bacterium Endozoicomonas Species Respond Differentially to Environmental Changes, mSystem, https://doi.org/10.1128/msystems.00359-22 (# equally contribute to the work; * corresponding author)

Po-Yu Liu, Sung-Yin Yang, Chih-Ying Lu, Naohisa Wada, Stéphane De Palmas, Shu-Shuo Yeh, Hideyuki Yamashiro, Sen-Lin Tang, Shan-Hua Yang, 2022, Ocean currents may influence the endolithic bacterial composition in coral skeletons, Frontiers in Marine Science, https://doi.org/10.3389/fmars.2022.850984.

117. Chan Ya-Fan, Chen Chia-Yu, Lu Chih-Ying, Tu Yung-Chi, Tandon Kshitij, Shikina Shinya, Tang Sen-Lin, 2022, A First Insight Into the Heat-Induced Changes in Proteomic Profiles of the Coral Symbiotic Bacterium Endozoicomonas montiporae, Frontiers in Marine Science, DOI=10.3389/fmars.2022.808132

Rocktim Ramen Das, Haruka Wada, Giovanni Diego Masucci, Tanya Singh, Parviz Tavakoli-Kolour , Naohisa Wada, Sen-Lin Tang, Hideyuki Yamashiro, and James Davis Reimer*, 2022, Four-Year Field Survey of Black Band Disease and Skeletal Growth Anomalies in Encrusting Montipora spp. Corals Around Sesoko Island, Okinawa, Diversity, 14(1), 32.

Jih-Terng Wang*, Yi-Ting Wang, Chaolun Allen Chen,, Pei-Jei Meng, Kwee Siong Tew, Pei-Wen Chiang, and Sen-Lin Tang*, 2022, Extra high superoxide dismutase in host tissue is associated with improving bleaching resistance in thermal adapted and Durusdinium trenchii-associating coral, Peer J, 10:e12746 https://doi.org/10.7717/peerj.12746.

Yu-Hsiang Chen, Hsing-Ju Chen, Cheng-Yu Yang, Jia-Ho Shiu, Daphne Z. Hoh, Pei-Wen Chiang, Wenhua Savanna Chow, Chaolun Allen Chen, Tin-Han Shih, Szu-Hsien Lin, Chi-Ming Yang, James Davis Reimer, Euichi Hirose, Budhi Hascaryo Iskandar, Hui Huang, Peter J. Schupp, Chun Hong James Tan, Hideyuki Yamashiro, Ming-Hui Liao, Sen-Lin Tang#, 2021, Prevalence, complete genome, and metabolic potentials of a phylogenetically novel cyanobacterial symbiont in the coral-killing sponge, Terpios hoshinota, Environmental Microbiology, https://doi.org/10.1111/1462-2920.15824.

Yu-Ting Wu, Pei-Wen Chiang, Kshitij Tandon, Denis Yu Rogozin, Andrey G. Degermendzhy, and Sen-Lin Tang*, 2021, Single-cell genomics-based analysis reveals a vital ecological role of Thiocapsa sp. LSW in the meromictic Lake Shunet, Siberia, Microbial Genomics, https://doi.org/10.1099/mgen.0.000712.

Chih-Wei Wang, Yu-Hsiang Yu, Chun-Yao Wu, Ru-Ying Feng, Kshitij Tandon, Ying-Lien Chen*, Sen-Lin Tang*, 2021, Detection of pathogenic and beneficial microbes for roselle wilt disease, Frontiers in Microbiology, https://doi.org/10.3389/fmicb.2021.756100.

Shan-Hua Yang, Chi Chen, Yunli Eric Hsieh, Sung-Yin Yang, Hau-Wen Li, Tzu-Yun Ching, Chia-Hui Wang, Ching-Fong Chang, Sen-Lin Tang*, Guan-Chung Wu*, 2021, Bacterial Dynamics in the Accessory Nidamental Gland of Sepioteuthis lessoniana throughout Maturation. Microbes Environ 36: ME21030.

Yu-Hsiang Chen , Pei-Wen Chiang , Denis Rogozin , Andrey Degermendzhy , Hsiu-Hui Chiu, Sen-Lin Tang, 2021, Salvaging high-quality genomes of microbial species from a meromictic lake using a hybrid sequencing approach, Communication Biology, 4, 996 (2021). https://doi.org/10.1038/s42003-021-02510-6

Ching-Yun Huang, Jiang-Shiou Hwang, Hideyuki Yamashiro, Sen-Lin Tang, 2021, Spatial and cross-seasonal patterns of coral diseases in Taiwan’s reefs: High prevalence and regional variation, Diseases of Aquatic Organisms, DOI: https://doi.org/10.3354/dao03624

Hiroki Taninaka, Davide Maggioni, Davide Seveso, Danwei Huang, Abram Townsend, Zoe T Richards, Sen-Lin Tang, Naohisa Wada, Taisei Kikuchi, Hideaki Yuasa, Megumi Kanai, Stéphane De Palmas, Niphon Phongsuwan, Nina Yasuda, 2021, Phylogeography of blue corals (genus Heliopora) across the Indo-West Pacific, Frontiers in Marine Science, DOI=10.3389/fmars.2021.714662

Michael Dyall-Smith, Friedhelm Pfeiffer, Pei-Wen Chiang, and Sen-Lin Tang , 2021, Genome sequence of Hardyhisp2, a gammapleolipovirus infecting Haloarcula hispanica, Microbiology Resource Announcements, 10.1128/MRA.00226-21

Haiwei Luo, Danli Luo, Xiaojun Wang, Xiaoyuan Feng, Mengdan Tian, Sishuo Wang, Sen-Lin Tang, Put Jr Ang, and Aixin Yan, 2021, Population Differentiation of Rhodobacteraceae Along Coral Compartments, ISME J. https://doi.org/10.1038/s41396-021-01009-6

Kshitij Tandon, Min-Tao Wan, Chia-Chin Yang, Shan-Hua Yang, Bayanmunkh Baatar, Chih-Yu Chiu, Jeng-Wei Tsai, Wen-Cheng Liu, Chen Siang Ng and Sen-Lin Tang*, 2021, Aquatic microbial community is partially functionally redundant: insights from an in situ reciprocal transplant experiment, Science of All total Environment, 786: 147433

Siti N. Aini, Sen-Lin Tang, Hideyuki Yamashiro, 2021, Monthly progression rates of the coral-killing sponge Terpios hoshinota in Sesoko Island, Okinawa, Japan, Coral Reefs, 40:973–981

Yu-Hsiang Chen, Shan-Hua Yang, Kshitij Tandon, Chih-Ying Lu, Hsing-Ju Chen, Chao-Jen Shih, Sen-Lin Tang*, 2021, Potential syntrophic relationship between coral-associated Prosthecochloris and its companion sulfate-reducing bacterium unveiled by genomic analysis, Microbial Genomics, doi.org/10.1099/mgen.0.000574

Ching-Hao Teng, Pin-Chieh Wu, Sen-Lin Tang, Yi-Chen Chen, Ming-Fang Cheng, Ping-Chih Huang, Wen-Chien Ko, Jiun-Ling Wang *, 2021, Large spatial survey of colistin-resistant gene mcr-1-carrying E. coli in rivers across Taiwan, Microorganisms, 31;9(4):722

Jaspers, Cornelia, Fraune, Sebastian, Arnold, A. Elizabeth, Miller, David J., Bosch, Thomas C.G., Voolstra, Christian R., Adamska, Maja, Ainsworth, Tracy, Ball, Eldon, Boote, Chlöe, Bourne, David, Butterfield, Nicholas J., Chan, Cheong Xin, Cooke, Ira, Cowman, Peter F., Darling, Aaron, Davy, Simon K., Mohamed, Amin, Fabricius, Katharina, Valero Fortunato, Sofia V., Hernandez Agreda, Alejandra, Hoogenboom, Mia, Moya, Aurelie, Pita, Lucia, Ragan, Mark A., Robbins, Steven J., Andrade Rodriguez, Natalia R., Sakamaki, Kazuhiro, Schoepf, Verena, Seemann, Thorsten, Shinzato, Chuya, Stolarski, Jarosław, Strugnell, Jan, Takahashi, Shunichi, Tang, Sen-Lin, Webster, Nicole N, Whitelaw, Brooke, and Ying, Hua (2019) Resolving structure and function of metaorganisms through a holistic framework combining reductionist and integrative approaches. Zoology, 133. pp. 81-87.

Mike Dyall-Smith* , Friedhelm Pfeiffer, Pei-Wen Chiang and Sen-Lin Tang, 2021, The Novel Halovirus Hardycor1, and the Presence of Active (Induced) Proviruses in Four Haloarchaea, Genes, 12:149

Sung-Yin Yang, Chih-Ying Lu, Sen-Lin Tang, Rocktim Ramen Das, Kazuhiko Sakai, Hideyuki Yamashiro, Shan-Hua Yang, 2020, Effects of ocean acidification on coral endolithic bacterial communities in Isopora palifera and Porites lobata, Frontiers in Marine Science, 7: 603293

Wu WK, Panyod S, Liu PY, Chen CC, Kao HL, Chuang HL, Chen YH, Zou HB, Kuo HC, Kuo CH, Liao BY, Chiu THT, Chung CH, Lin AY, Lee YC, Tang SL, Wang JT, Wu YW, Hsu CC, Sheen LY, Orekhov AN, Wu MS., 2020, Characterization of TMAO productivity from carnitine challenge facilitates personalized nutrition and microbiome signatures discovery. Microbiome 19;8(1):162

Kshitij Tandon#, Bayanmunkh Baatar#, Pei‐Wen Chiang, Narangarvuu Dashdondog, Bolormaa Oyuntsetseg and Sen‐Lin Tang*, 2020, A Large‐Scale Survey of the Bacterial Communities in Lakes of Western Mongolia with Varying Salinity Regimes, Microorganisms, 8(11), 1729   

Shan-Hua Yang†, Ching-Hung Tseng†, Hsueh-Ping Lo, Pei-Wen Chiang, Hsing-Ju Chen, Jia-Ho Shiu, Hung-Chun Lai, Kshitij Tandon, Naoko Isomura, Takuma Mezaki, Hiromi Yamamoto, Sen-Lin Tang*, 2020, Locality Effect of Coral-associated Bacterial Community in the Kuroshio Current from Taiwan to Japan, Frontiers in Ecology and Evolution, 8:339

Ya-Fan Chan, Pei-Wen Chiang, Kshitij Tandon, Denis Rogozin, Andrey Degermendzhi, Vladimir Zykov and Sen-Lin Tang, 2020, Spatio-temporal changes in the bacterial community of the meromictic Lake Uchum, Siberia, Microbial Ecology, https://doi.org/10.1007/s00248-020-01592-9

Ya Shen, Sheng-Chung Chen, Mei-Chin Lai, Hsing-Hua Huang, Hsiu-Hui Chiu, Sen-Lin Tang, Denis Yu Rogozin, Andrey G. Degermendzhy, 2020, Methanolobus halotolerans sp. nov., isolated from a saline lake Tus in Siberia, IJSEM, https://doi.org/10.1099/ijsem.0.004453

T.Thinesh, R. Meenatchia Anuj, Nishanth Liptona, Rangasamy Anandham, Polpass ArulJose, Sen-Lin Tang, G. Seghal Kirand, Joseph Selvina, 2020, Metagenomic sequencing reveals altered bacterial abundance during coral-sponge interaction: Insights into the invasive process of coral-killing sponge Terpios hoshinota, Microbiological Research, 240:126553

Naohisa Wada, Hideaki Yuasa, Rei Kajitani, Yasuhiro Gotoh, Yoshitoshi Ogura, Dai Yoshimura, Atsushi Toyoda, Sen-Lin Tang, Yukio Higashimura, Hugh Sweatman, Zac Forsman, Omri Bronstein, Gal Eyal, Nalinee Thongtham, Takehiko Itoh, Tetsuya Hayashi, Nina Yasuda, 2020, A universal subcuticular bacterial symbiont of a coral predator, the crown-of-thorns starfish, Microbiome, 8, 123

Jia-Ho Shiu, Sheng-Ping Yu, Chia-Ling Fong, Jiun-Yan Ding, Chih-Jui Tan, Tung-Yung Fan, Sen-Lin Tang *, 2020, Shifting in the Dominant Bacterial Group Endozoicomonas Is Independent of the Dissociation with Coral Symbiont Algae, Frontiers in Microbiology, https://doi.org/10.3389/fmicb.2020.01791

Mike Dyall-Smith, Sen-Lin Tang, Brendan Russ, Pei-Wen Chiang, Friedhelm Pfeiffer *, 2020, Comparative genomics of two new HF1-like haloviruses, Genes, 11(4), 405

Vidanaarachchi, R., Shaw, M., Tang, S. L., & Halgamuge, S. , 2020, IMPARO: Inferring Microbial Interactions through Parameter Optimisation., BMC Molecular and Cell Biology, 2020 (In Press)

Sonny T M Lee, Jiun-Yan Ding, Pei-Wen Chiang, Mike Dyall-Smith, Sen-Lin Tang*, 2020, *Insights into gene regulation of the halovirus His2 infecting Haloarcula hispanica, MicrobiologyOpen, https://doi.org/10.1002/mbo3.1016

Chih-Yu Chiu, John R. Jones, James A. Rusakc, Hao-Chi Lin, Keisuke Nakayama,Timothy K. Kratz, Wen-Cheng Liu, Sen-Lin Tang, Jeng-Wei Tsai, 2020, Terrestrial loads of dissolved organic matter drive interannual carbon flux in subtropical lakes during times of drought, Science of the Total Environment, 717:137052

Kshitij Tandon, Pei-Wen Chiang, Chih-Ying Lu, Shan-Hua Yang, Ya-Fan Chan, Naohisa Wada, Ping-Yun Chen, Hsiao-Yu Chang, Ming-Shean Chou, Wen-Ming Chen, Sen-Lin Tang*, 2020, Dominant coral bacterium Endozoicomonas acroporae metabolizes DMSP, Biorxiv doi: https://doi.org/10.1101/519546, ISME J, 14(5):1290-1303.

Wada N, Ishimochi M, Mastui T, Pollock FJ, Tang S-L, Ainsworth TD, Willis BL, Mano N, Bourne DG., 2019, Characterization of coral-associated microbial aggregates (CAMAs) within tissues of the coral Acropora hyacinthus., Scientific Reports, 9(1):14662

Dyall-Smith, Mike; Sen-Lin Tang; Pfeiffe, Friedhelm, 2019, Haloviruses: the bad, the worse and the surprising. Studia Universitatis Babes-Bolyai, Biologia. Vol. 64 Issue 1, p51-51. 1p.

Chung-Yen Chen, Sen-Lin Tang, Seng-Cho Chou*, 2019, Taxonomy Based Performance Metrics for Evaluating Taxonomic Assignment Method, BMC Bioinformatics, 20:310, doi:10.1186/s12859-019-2896-0

Shan-Hua Yang, Kshitij Tandon, Chih-Ying Lu, Naohisa Wada, Chao-Jen Shih, Silver Sung-Yun Hsiao, Wann-Neng Jane, Tzan-Chain Lee, Chi-Ming Yang, Chi-Te Liu, Vianney Denis, Yu-Ting Wu, Li-Ting Wang, Lina Huang, Der-Chuen Lee, Yu-Wei Wu, Hideyuki Yamashiro and Sen-Lin Tang, 2019, Metagenomic, phylogenetic, and functional characterization of predominant endolithic green sulfur bacteria in the coral Isopora palifera, Microbiome 7:3

Duleepa Jayasundara*; Damayanthi Herath*; Damith Senanayake; Isaam Saeed; Cheng-Yu Yang; Yuan Sun; Bill C Chang; Sen-Lin Tang*; Saman K Halgamuge, 2019, ENVirT: inference of ecological characteristics of viruses from metagenomic data, BMC Bioinformatics, 19:377.

Chen WM, Xie PB, Tang SL, Sheu SY. Coralloluteibacterium stylophorae gen. nov., sp. nov., a new member of the family Lysobacteraceae isolated from the reef-building coral Stylophora sp. Arch Microbiol. 2018 Apr;200(3):473-481. doi: 10.1007/s00203-017-1458-y.

Chia‐Jung Hsieh, Shing Hei Zhan, Chen‐Pan Liao, Sen‐Lin Tang, Liang‐Chi Wang, Tsuyoshi Watanabe, Paul John L Geraldino, Shao‐Lun Liu, 2018, The effects of contemporary selection and dispersal limitation on the community assembly of acidophilic microalgae, Journal of Phycology, doi: 10.1111/jpy.12771>

Yu-Ting Wu, Cheng-Yu Yang, Pei-Wen Chiang, Ching-Hung Tseng, Hsiu-Hui Chiu, Isaam Saeed, Bayanmunkh Baatar, Denis Rogozin, Saman Halgamuge, Andrei Degermendzhi ,Sen-Lin Tang*, 2018, Comprehensive Insights into Composition, Metabolic Potentials, and Interactions among Archaeal, Bacterial, and Viral Assemblages in Meromictic Lake Shunet in Siberia, Frontiers in Microbiology, doi:10.3389/fmicb.2018.01763

Yo-Jin Shiau, Chung-Wen Pai, Jeng-Wei Tsai, Wen-Cheng Liu, Rita S.W. Yam, Shih-Chieh Chang, Sen-Lin Tang, Chih-Yu Chiu*, 2018, Characterization of phosphorus in a toposequence of subtropical perhumid forest soils facing a subalpine lake, Forests, 9, 294.

Yang, S-Y., Chen H.-J., Ho M.-J., Huang Y.-Y., Chow WS, Tang S.-L., Jeng M.-S., Chen CA. 2018, Outbreak of coral-killing cyanobacteriosponge, Terpios hoshinota, in Taiping Island (Itu-Aba), Spratlys, South China Sea, Bulletin of Marine Science, DOI: 10.5343/bms.2018.0023

Jessica Song, Sen-Lin Tang, Elena Ivanova, Aazani Mujahid, and Moritz Müller ,2017, Shotgun metagenomic analysis of microbial communities in the surface waters of the Eastern South China Sea’ Malaysian Journal of Microbiology, Vol 13(4), pp. 350- 362.

Jia-Ho Shiu, Jiun-Yan Ding, Ching-Hung Tseng, Shueh-Ping Lou, Takuma Mezaki, Yu-Ting Wu, Hsiang-Iu Wang and Sen-Lin Tang, 2018, A Newly Designed Primer Revealed High Phylogenetic Diversity of Endozoicomonas in Coral Reefs, Microbes and Environment, 33(2):172-185. doi: 10.1264/jsme2.ME18054

Sheng-Chung Chen; Hsing-Hua Huang; Chieh-Yin Weng; Hsiu-Hui Chiu; Sen-Lin Tang; Denis Yu Rogozin; Andrey G. Degermendzhy, Mei-Chin Lai, 2018, A psychrotolerant methanoarchaeon, Methanolobus psychrotolerans sp. nov., isolated from a saline meromictic lake in Siberia, IJSEM, 68(4):1378-1383

Kshitij Tandon, Shan-Hua Yang, Min-Tao Wan, Chia-Chin Yang, Bayanmunkh Baatar, Chih-Yu Chiu, Jeng-Wei Tsai, Wen-Cheng Liu, and Sen-Lin Tang*, 2018, Bacterial community in water and air of two sub-alpine lakes in Taiwan, Microbes and Environment, 33(2):120-126

Kshitij Tandon, Pei-Wen Chiang, Wen-Ming Chen and Sen-Lin Tang, 2018, Draft Genome Sequence of Endozoicomonas acroporae sp. Acr-14T isolated from Acropora coral, Genome Announcement, 6(6): e01576-17.

Shih-Yi Sheu; Pei-Bei Xie; Der-Shyan Sheu; Sen-Lin Tang; Wen-Ming Chen, 2018, Litoribrevibacter euphylliae sp. nov., isolated from the torch coral Euphyllia glabrescens, IJSEM, 68(1):432-437

Sheu SY, Lin KR, Hsu MY, Sheu DS, Tang SL, Chen WM., 2017,Endozoicomonas acroporae sp. nov., isolated from Acropora coral. Int J Syst Evol Microbiol. 2017 Oct;67(10):3791-3797. doi: 10.1099/ijsem.0.002194

Jia-Ho Shiu, Shashank Keshavmurthy, Pei-Wen Chiang, Hsing-Ju Chen, Shueh-Ping Lou, Ching-Hung Tseng, Hernyi Justin Hsieh, Chaolun Allen Chen, Sen-Lin Tang*, 2017, Dynamics of coral-associated bacterial communities acclimated to temperature stress based on recent thermal history. Scientific Reports, doi:10.1038/s41598-017-14927-3

Bayanmunkh Baatar, Buyan Chuluun, Sen-Lin Tang, Ochirkhuyag Bayanjargal, Bolormaa Oyuntsetseg, 2017, Vertical distribution of physical–chemical features of water and bottom sediments in four saline lakes of the Khangai mountain region, Western Mongolia, Environ Earth Sci (2017) 76:130, DOI 10.1007/s12665-017-6447-6

Bayanmunkh B, Sen-Lin T, Narangarvuu D, Ochirkhuyag B and Bolormaa O, 2017, Physico-Chemical Composition of Saline Lakes of the Gobi Desert Region, Western Mongolia, Journal of Earth Science & Climatic Change, 10.4172/2157-7617.1000388

Damayanthi Heratha, Duleepa Jayasundara, David Ackland, Isaam Saeed, Sen-Lin Tang, Saman Halgamuge, 2017. Assessing species diversity using metavirome data: methods and challenges, Computational and Structure Biotechnology Journal, 15: 447–455.

Seonock Woo, Shan-Hua Yang, Hsing-Ju Chen, Yu-Fang Tseng, Sung-Jin Hwang, Stephane De Palmas, Vianney Denis, Yukimitsu Imahara, Fumihito Iwase, Seungshic Yum, Sen-Lin Tang, 2017, Geographical variations in bacterial communities associated with soft coral Scleronephthya gracillimum, PLOSOne, 12(8): e0183663.

Damayanthi Herath*, Sen-Lin Tang, Kshitij Tandon, David Ackland and Saman Kumara Halgamuge, 2017, CoMet: A workflow using contig coverage and composition for binning a metagenomic sample with high precision, BMC Bioinformatics, https://doi.org/10.1186/s12859-017-1967-3.

Shan-Hua Yang, Ching-Hung Tseng, Chang-Rung Huang, Chung-Pin Chen, Kshitij Tandon, Sonny T. M. Lee, Pei-Wen Chiang, Jia-Ho Shiu, Chaolun Allen Chen, Sen-Lin Tang, 2017, Long term survey is necessary to reveal various shifts of microbial composition in corals, Frontiers in Microbiology, 8:1094. doi: 10.3389/fmicb.2017.01094. eCollection 2017.

Duleepa Jayasundara1*, Sen-Lin Tang, Saman K. Halgamuge, 2017, Human body to water reservoirs: Estimating viral population characteristics using high-throughput sequencing. Big data analyitics in Metagenomics, in press

Jia-Ho Shiu, Sen-Lin Tang, 2017. The Bacteria Endozoicomonas: Community dynamics, diversity, genomes and potential impacts on corals in Zhiyong Li [eds.] Symbiotic Microbiomes of Coral Reef Sponges and Corals, Springer, Netherlands. (in press)

Shan-Hua Yang, Sen-Lin Tang, 2017. Endolithic microbes in coral skeletons: algae or bacteria? in Zhiyong Li [eds.] Symbiotic Microbiomes of Coral Reef Sponges and Corals, Springer, Netherlands. (in press)

Lee, S. T.M.*, S. K. Davy, S.-L. Tang*, P. S Kench, 2017, “Water flow buffers shifts in bacterial community structure in heat-stressed Acropora muricata”, Scientific Reports, in press.

Shih-Yi Sheu, Li-Ping Liu, Sen-Lin Tang, and Wen-Ming Chen*, 2016, Thalassotalea euphylliae sp. nov., isolated from the torch coral Euphyllia glabrescens, IJSEM, doi: 10.1099/ijsem.0.001466.

Jeng-Wei Tsai,* Timothy K. Kratz, James A. Rusak, Wan-Yu Shih, Wen-Cheng Liu, Sen-Lin Tang, and Chih-Yu Chiu, 2016, Absence of winter and spring monsoon changes water level and rapidly shifts metabolism in a subtropical lake, Inland Water, doi: 10.5268/IW-6.2.844

Shan-Hua Yang, Pei-Wen Chiang, Tin-Chang Hsu, Shuh-Ji Kao, Sen-Lin Tang, 2016, Bacterial Community Associated with Organs of Shallow Hydrothermal Vent Crab Xenograpsus testudinatus near Kuishan Island, Taiwan, PLOS ONE, DOI: 10.1371/journal.pone.0150597

Sonny T.M. Lee,Simon K. Davy,Sen-Lin Tang*,Paul S Kench, 2016, Mucus sugar content shapes the bacterial community structure in thermally stressed Acropora muricata, Frontier in Microbiology, doi: 10.3389/fmicb.2016.00371 (* Corresponding author)

Bayanmunkh Baatar, Pei-Wen Chiang, Denis Yu Rogozin, Yu-Ting Wu, Ching-Hung Tseng, Cheng-Yu Yang, Hsiu-Hui Chiu, Bolormaa Oyuntsetseg, Andrey G. Degermendzhy and Sen-Lin Tang*, 2016, Bacterial Communities of Three Saline Meromictic Lakes in Central Asia, PLOS ONE, DOI: 10.1371/journal.pone.0150847

Jiun-Yan Ding,Jia-Ho Shiu,Wen-Ming Chen,Yin-Ru Chiang,Sen-Lin Tang*, 2016, Genomic insight into the host-endosymbiont relationship of Endozoicomonas montiporae CL-33 with its coral host, Frontier in Microbiology, doi: 10.3389/fmicb.2016.00251

Shan-Hua Yang, Sonny T. M. Lee, Chang-Rung Huang, Ching-Hung Tseng, Pei-Wen Chiang, Chung-Pin Chen, Hsing-Ju Chen, and Sen-Lin Tang1*. 2016. Prevalence of potential nitrogen-fixing, green sulphur bacteria in the skeleton of reef-building coral Isopora palifera, Limnology and Ocanography, doi: 10.1002/lno.10277.

Lan-Feng Fan, Hsing-Ju Chen, Hwey-Lian Hsieh, Hsing-Juh Lin, Sen-Lin Tang, 2016,Comparing abundance, composition and environmental influences on prokaryotic ammonia oxidizers in two subtropical constructed wetlands, Ecological Engineering, doi:10.1016/j.ecoleng.2016.01.034

50. Ching-Hung Tseng, Jaw-Town Lin, Hsiu-Jon Ho, Zi-Lun Lai, Chang-Bi Wang, Sen-Lin Tang*, and Chun-Ying Wu*, 2016, Gastric microbiota and predicted gene functions are altered after subtotal gastrectomy in patients with gastric cancer, Scientific Report, doi:10.1038/srep20701

Fu-Chun Yang, Yi-Lung Chen, Sen-Lin Tang, Chang-Ping Yu, Po-Hsiang Wang, Wael Ismail, Chia-Hsiang Wang, Jiun-Yan Ding, Cheng-Yu Yang, Chia-Ying Yang, and Yin-Ru Chiang*, 2016, Integrated multi-omics analyses reveal the biochemical mechanisms and phylogenetic relevance of anaerobic androgen biodegradation in the environment. ISME J., doi: 10.1038/ismej.2015.255.

Sonny Lee, Simon Davy, Sen-Lin Tang*, Tung-Yung Fan, Paul Kench, 2016, Successive shifts in the microbial community of the surface mucus layer and tissues of the coral Acropora muricata under thermal stress. FEMS Microbial Ecology, doi: 10.1093/femsec/fiv142. (*corresponding author)

Kuei-Han Lin, Ben-Yang Liao, Hao-Wei Chang, Shiao-Wei Huang, Ting-Yan Chang, Cheng-Yu Yang, Yu-Bin Wang, Yu-Teh Kirk Lin, Yu-Wei Wu, Sen-Lin Tang*, Hon-Tsen Yu*, 2015, Metabolic characteristics of dominant microbes and key rare species from an acidic hot spring in Taiwan revealed by metagenomics, BMC Genomics, 16(1):1029. doi: 10.1186/s12864-015-2230-9.

Duleepa Jayasundara, I. Saeed, B.C. Chang, S.-L. Tang and S.K. Halgamuge, 2015, Accurate reconstruction of viral quasispecies spectra through improved estimation of strain richness, BMC Bioinformatics, doi:10.1186/1471-2105-16-S18-S3

Chia-Jung Hsieh, Shing Hei Zhan,Yiching Lin, Sen-Lin Tang, and Shao-Lun Liu, 2015, Analysis of rbcL sequences reveals the global biodiversity, community structure, and biogeographical pattern of thermoacidophilic red algae (Cyanidiales), J. Phycology, doi: 10.1111/jpy.12310-14-236

Ching-Hung Tseng, Pei-Wen Chiang, Hung-Chun Lai, Fuh-Kwo Shiah, Ting-Chang Hsu, Yi-Lung Chen, Liang-Saw Wen, Chun-Mao Tseng, Wung-Yang Shieh, Isaam Saeed, Saman Halgamuge, Sen-Lin Tang, 2015, Prokaryotic assemblages and metagenomes in pelagic zones of the South China Sea, BMC Genomics, 16:219 doi:10.1186/s12864-015-1434-3 (With a Flag "Highly accessed")

Lin, Yu-Te; Whitman, William; Coleman, David; Shi, Shiang-Yun; Tang, Sen-Lin; Chiu, Chih-Yu, 2015, Changes of soil bacterial communities in bamboo plantations at different elevations, FEMS Microbial Ecology, 91(5), doi: 10.1093/femsec/fiv033

Chu-Wen Yang, Sen-Lin Tang, Ling-Yun Chen, Bea-Ven Chang,2014 Removal of nonylphenol by earthworms and bacterial community change, International International Biodeterioration & Biodegradation, 96: 9e17

41. Duleepa Jayasundara, I. Saeed, Suhinthan Maheswararajah, B.C. Chang, S-L. Tang, Saman K. Halgamuge, 2015, ViQuaS: An improved reconstruction pipeline for viral quasispecies spectra generated by next-generation sequencing, Bioinformatics, doi: 10.1093/bioinformatics/btu754

Ching-Hung Tseng and Sen-Lin Tang*, 2014, Marine Microbial Metagenomics: From Individual to the Environment, Int. J. Mol. Sci. 15:8878-8892; doi:10.3390/ijms15058878

Jiun-Yan Ding, Pei-Wen Chiang, Mei-Jhu Hong, Mike Dyall-Smith, Sen-Lin Tang*, 2014, Complete Genome Sequence of the Extremely Halophilic Archaeon Haloarcula hispanica Strain N601, doi: 10.1128/genomeA.00178-14 Genome Announc. 2014 vol. 2 no. 2 e00178-14

Hsiu-Hui Chiu, Denis Yu. Rogozin, Ssu-Po Huang, Andrei G. Degermendzhy, Wung Yang Shieh, and Sen-Lin Tang*, 2014, Aliidiomarina shirensis sp. nov., a halophilic bacterium isolated from Shira Lake in Khakasia, southern Siberia, and a proposal to transfer Idiomarina maris to the genus Aliidiomarina, Int J Syst Evol Microbiol, 64:1334-1339

Yu-Te Lin,Sen-Lin Tang, Chuang-Wen Pai,William B. Whitman,David C. Coleman, Chih-Yu Chiu, 2014, Changes in the Soil Bacterial Communities in a Cedar Plantation Invaded by Moso Bamboo, Microbial Ecology, DOI 10.1007/s00248-013-0291-3

Ching-Hung Tseng, Pei-Wen Chiang, Fuh-Kwo Shiah, Yi-Lung Chen, Jia-Rong Liou, Ting-Chang Hsu, Suhinthan Maheswararajah, Isaam Saeed, Saman Halgamuge and Sen-Lin Tang, 2013, Microbial and viral metagenomes of a subtropical freshwater reservoir subject to climatic disturbances, ISME J. doi:10.1038/ismej.2013.118

35. Wang, P. H., Leu, Y. L., Ismail, W., Tang, S. L., Tsai, C. Y., Chen, H. J., Kao, A. T., and *Chiang, Y. R., 2013, “The anaerobic and aerobic cleavage of the steroid core ring structure by Steroidobacter denitrificans. ”, JOURNAL OF LIPID RESEARCH, 54:1493-1504.

Tseng, CH, Tang SL, Chan CK, Hsu AL, and Halgamuge SK: Binning sequences using very sparse labels within a metagenome. In: Nelson K. (Ed.) 2013, Encyclopedia of Metagenomics: SpringerReference (www.springerreference.com). Springer-Verlag Berlin Heidelberg

Kate Porter, Sen-Lin Tang, Chung-Pin Chen, Pei-Wen Chiang, Mei-Jhu Hong, and Mike Dyall-Smith,2013, PH1: an Archaeovirus of Haloarcula hispanica Related to SH1 and HHIV-2, Archaea, vol. 2013, doi:10.1155/2013/456318.

Silk Yu Lin, Wung Yang Shieh, Jwo-Sheng Chen, Sen-Lin Tang*, 2013 Complete Genome Sequence of Simiduia agarivorans SA1T, a marine bacterium able to degrade a variety of polysaccharides, Genome Announcements, vol. 1 no. 1 e00039-12

Hsiu-Hui Chiu, Andreas Mette, Jia-Ho Hsu, and Sen-Lin Tang*, 2013, Bacterial Distribution in the Epidermis and Mucus of the Coral Euphyllia glabrescens by CARD-FISH, Zoological Studies, 51(8), 1332-1342.

Cheng, T.-W. , Y.-H. Chang, S.-L. Tang, C.-H. Tseng, P.-W. Chiang, K.-T. Chang, C.-H. Sun, Y.-G. Chen, H.-C. Kuo, C.-H. Wang, P.-H. Chu, S.-R. Song, P.-L. Wang, and L.-H. Lin, 2012, Metabolic stratification driven by surface and subsurface interactions in a terrestrial mud volcano, ISME Journal, doi: 10.1038/ismej.2012.61.

I. Saeed*, S-L. Tang*, S.K. Halgamuge, 2012, “Unsupervised discovery of microbial population structure within metagenomes using nucleotide base composition”, Nucleic Acids Research, 40(5):e34. doi: 10.1093/nar/gkr1204

28. Ching-Hung Tseng, Chon-Kit Kenneth Chan, Arthur L. Hsu, Saman K. Halgamuge, Sen-Lin Tang*, 2011, Binning metagenomic sequences using Seeded GSOM, Edited by Frans J. de Bruijn, Handbook of Molecular Microbial Ecology I, Metagenomics and Complementary Approaches, Wiley-Blackwell, pp369-378.

Lan-Feng Fan, Sen-Lin Tang*, Chang-Po Chen and Hwey-Lian Hsieh*, 2011, Diversity and Composition of Sulfate- and Sulfite-Reducing Prokaryotes as Affected by Marine-Freshwater Gradient and Sulfate Availability, Microbial Ecology, DOI: 10.1007/s00248-011-9912-x (* corresponding authors)

Shurong Zheng, Richard A. Johnson, Yi-Feng Chang, Kunio Shimizu, Chia-Chang Wang, Sen-Lin Tang, and Grace S. Shieh 2011, Modeling And Comparing the Organization of Circular Genomes, Bioinformatics, doi: 10.1093/bioinformatics/btr049

Sen-Lin Tang#*, Mei-Jhu Hong#, Ming-Hui Liao, Wann-Neng Jane, Pei-Wen Chiang, Chung-Bin Chen, and Chaolun Allen Chen (2011) Bacteria associated with an encrusting sponge (Terpios hoshinota) and the corals partially covered by the sponge. Environmental Microbiology, doi:10.1111/j.1462-2920.2010.02418.x .(# the first author, * corresponding author)

J.-T. Wang, P.-J Meng, E. Sampayo, S.-L. Tang, C. A. Chen (2011) Photosystem II breakdown induced by reactive oxygen species (ROS) in the freshly-isolated Symbiodinium of Montipora (Scleractinia; Acropordiae) Marine Ecology Progress Series. doi:10.3354/meps08913

Chung-Pin Chen, Ching-Hung Tseng, Chaolun A. Chen, Sen-Lin Tang, 2011, The dynamics of microbial parternships in the coral Isopora palifera, ISME Journal, 2011 Apr;5(4):728-40

Sen-Lin Tang, Bill CH Chang and Saman K Halgamuge, 2010, Gene functionality’s influence on the second codon: a large-scale survey of second codon composition in three domains, Genomics, doi:10.1016/j.ygeno.2010.04.001. (*Cover story of the journal issue)

Lin YT, Huang YJ, Tang SL, Whitman WB, Coleman DC, Chiu CY., 2010, Bacterial Community Diversity in Undisturbed Perhumid Montane Forest Soils in Taiwan. Microbial Ecology, doi 10.1007/s00248-009-9574-0

Mei-Jhu Hong, Yi-Ting Yu, Chao-Lun A. Chen, Pei-Wen Chiang, and Sen-Lin Tang , 2009, Influence of species specificity and other factors on bacteria associated with Stylophora pistillata in Taiwan. Applied and Environmental Microbiology, doi:10.1128/AEM.01418-09 (The sequence dataset can be downloaded from the webpage: http://biodiv.sinica.edu.tw/~sltang/pages/research_detail.php?title=rt&cate=&rp=1&id=20100912113552)

Katri M Hallamaa, Sen-Lin Tang, Nino Ficorilli and Glenn F Browning, 2008, Differential expression of lipoprotein genes in Mycoplasma pneumoniae after contact with an epithelial lung carcinoma cell line, and under oxidative and acid stress, BMC Microbiology 8:124

Jason Li, S. K. Halgamuge, Bill C. H. Chang, Sen-Lin Tang, 2008, Genome classification by gene distribution: an overlapping subspace clustering approach, BMC Evolutionary Biology, 8:116, doi:10.1186/1471-2148-8-116.

Chon-Kit Kenneth Chan , Arthur L. Hsu , Saman K. Halgamuge and Sen-Lin Tang, 2008, Binning sequences using very sparse labels within a metagenome, BMC Bioinformatics, 9:215, doi:10.1186/1471-2105-9-215.

Yu-Hsiang Lin, Bill C. H. Chang, Pei-Wen Chiang, and Sen-Lin Tang, 2008, Questionable 16S ribosomal RNA gene annotations are frequent in completed microbial genomes, Gene, 416:44-47.

Chon-Kit Kenneth Chan, Arthur L. Hsu, Sen-Lin Tang and Saman K. Halgamuge. 2008, Using Growing Self-Organising Maps to Improve the Binning Process in Environmental Whole Genome Shotgun Sequencing, Journal of Biomedicine and Biotechnology , 2008:513701.

Sen-Lin Tang, Bill CH Chang, Hsiang-Fu Yu, and Ming-Hsin An, 2007, Diversity of halovarchaeal viruses of Australia hypersaline environments: A review. The proceedings of International Symposium on Soil Biodiversity and Ecology, Taiwan, p81-90.

13. Ming-Hui Liao, Sen-Lin Tang, Chia-Ming Hsu, Kou-Chang Wen, Henry Wu, Wen-Ming Chen, Jih-Temg Wang, Pei-Jie Meng, Wen-Hong Twan, Chang-Feng Dai, Keryea Soong, and Chaolun Allen Chen, The “ Black Disease” of reef-building corals at Green Island, Taiwan – Outbreak of a cyanobacteriospong, Terpios hoshinota (Suberitidae; Hadromerida), 2007, Zoological Studies, 46: 520.

Li, J., Halgamuge, S. K. and Kells, C. I., Tang, S. L,2007, Gene function prediction based on genomic context clustering and discriminative learning: An application to bacteriophages BMC Bioinformatics, 8(Suppl 4):S6.

Hallamaa, K., Browning, G. and Tang, S. L., 2006, Analysis of lipoprotein multigene families in Mycoplasma pneumoniae strain M129. Journal of Bacteriology, 188:5393-5399.

Chang, B., Halgamuge, S. and Tang, S.-L., 2006, Analysis of SD sequences in completed prokaryotic genomes: Non SD-led genes are as common as SD-led genes. Gene 373:90-99.

Johannes Reinhard, Chon-Kit Kenneth Chan, Saman Halgamuge, Sen-Lin Tang and Rudolf Kruse, Region Identification on a Trained Growing Self-Organizing Map for Sequence Separation between Different Phylogenetic Genomes", BIOINFO 2005, Proceedings of the 2005 International Joint Conference of InCoB, AASBi and KSBI, pp124-129

Tang, S.-L., Fisher, C., Ngui, K., Nuttall, S.D., and Dyall-Smith, M. L. 2004 Genome sequences of the Head-Tailed haloviruses HF1 and HF2 (Chapter 17), Halophilies Microoganisms (A. Ventosa Ed.), Springer-Verlag Berlin Heidelberg, chpt 11, p177-191.

Tang, S.-L., S. Nuttall, and M. Dyall-Smith., 2004, Haloviruses HF1and HF2: genomic organizations and an unusual recombination. J. Bacteriology, 186:2810-2817.

Dyall-Smith, M., S.-L. Tang, and C. Bath, 2003, Haloarchaeal viruses: how diverse are they?, Research in Microbiology, 154: 309-313.

Hsu, A., S.-L. Tang, and S. Halgamuge, 2003. An unsupervised dynamic self-organizing map approach to class discovery and marker gene identification in microarray data. Bioinformatics. 19:2131-2140.

Tang, S.-L., C. Fisher, K. Ngui, S. Nuttall and M. Dyall-Smith, 2002. HF2: a lytic, tailed haloarchaeal virus with a mosaic genome. Molecular Microbiology. 44: 283-296.

J. Filee, P. Forterre, S.-L. Tang and J. Laurent. 2002. Evolution of DNA polymerase families: evidence for multiple gene exchange between cellular and viral protein. Journal of Molecular Evolution. 54:763-773.

Keith Tolley, Deborah Maddocks, Shan Gyles, Zoe Siclair, Sen-Lin Tang, Mike Dyall-Smith,David Hough and Michael Danson. 2000. 2-Oxoacid dehygrogenase mutlienzyme complexes in the halophilic Archaea: Gene sequence and protein predictions. Microbiology. 146:1061-1069.

Valery Y. Tarasov, Michael G. Pyatibratov, Sen-Lin Tang, Michael Dyall-Smith and Oleg V. Fedorov. 2000. Role of flagellins from A and B loci in flagella formation of Halobacterium salinarum. Molecular Microbiology. 35: 69-78.