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研究成果 2006 2019

  • 894 引文
  • 12 h-指數
  • 34 文章
篩選
文章
2019
開啟存取
Clustered Regularly Interspaced Short Palindromic Repeats
polyhydroxybutyrate
Multigene Family
multigene family
Glycerol

A new triterpenoid glucoside from a novel acidic glycosylation of ganoderic acid a via recombinant glycosyltransferase of bacillus subtilis

Chang, T. S., Chiang, C. M., Kao, Y. H., Wu, J. Y., Wu, Y. W. & Wang, T. Y., 九月 24 2019, 於 : Molecules. 24, 19, 3457.

研究成果: 雜誌貢獻文章

開啟存取
Glycosylation
Glycosyltransferases
glucosides
Bacillus
Glucosides
2 引文 (Scopus)

Large circular plasmids from groundwater plasmidomes span multiple incompatibility groups and are enriched in multimetal resistance genes

Kothari, A., Wu, Y. W., Chandonia, J. M., Charrier, M., Rajeev, L., Rocha, A. M., Joyner, D. C., Hazen, T. C., Singer, S. W. & Mukhopadhyay, A., 一月 1 2019, 於 : mBio. 10, 1, e02899-18.

研究成果: 雜誌貢獻文章

開啟存取
Groundwater
Plasmids
Genes
Microbiota
Metals
3 引文 (Scopus)

Metagenomic, phylogenetic, and functional characterization of predominant endolithic green sulfur bacteria in the coral Isopora palifera

Yang, S. H., Tandon, K., Lu, C. Y., Wada, N., Shih, C. J., Hsiao, S. S. Y., Jane, W. N., Lee, T. C., Yang, C. M., Liu, C. T., Denis, V., Wu, Y. T., Wang, L. T., Huang, L., Lee, D. C., Wu, Y. W., Yamashiro, H. & Tang, S. L., 一月 4 2019, 於 : Microbiome. 7, 1, 3.

研究成果: 雜誌貢獻文章

Chlorobi
Metagenomics
Anthozoa
Skeleton
Oxygen
1 引文 (Scopus)

Stout camphor tree genome fills gaps in understanding of flowering plant genome evolution

Chaw, S. M., Liu, Y. C., Wu, Y. W., Wang, H. Y., Lin, C. Y. I., Wu, C. S., Ke, H. M., Chang, L. Y., Hsu, C. Y., Yang, H. T., Sudianto, E., Hsu, M. H., Wu, K. P., Wang, L. N., Leebens-Mack, J. H. & Tsai, I. J., 一月 1 2019, 於 : Nature Plants. 5, 1, p. 63-73 11 p.

研究成果: 雜誌貢獻文章

Laurales
camphor
Cinnamomum
Angiospermae
Magnoliales
2018
7 引文 (Scopus)

A bacterial pioneer produces cellulase complexes that persist through community succession

Kolinko, S., Wu, Y. W., Tachea, F., Denzel, E., Hiras, J., Gabriel, R., Bäcker, N., Chan, L. J. G., Eichorst, S. A., Frey, D., Chen, Q., Azadi, P., Adams, P. D., Pray, T. R., Tanjore, D., Petzold, C. J., Gladden, J. M., Simmons, B. A. & Singer, S. W., 一月 1 2018, 於 : Nature Microbiology. 3, 1, p. 99-107 9 p.

研究成果: 雜誌貢獻文章

Cellulase
Glycoside Hydrolases
Cellulosomes
Microbial Consortia
Metagenomics
4 引文 (Scopus)
Escherichia coli
Escherichia Coli
Learning systems
Machine Learning
Genome
3 引文 (Scopus)

Development and characterization of stable anaerobic thermophilic methanogenic microbiomes fermenting switchgrass at decreasing residence times

Liang, X., Whitham, J. M., Holwerda, E. K., Shao, X., Tian, L., Wu, Y-W., Lombard, V., Henrissat, B., Klingeman, D. M., Yang, Z. K., Podar, M., Richard, T. L., Elkins, J. G., Brown, S. D. & Lynd, L. R., 2018, 於 : Biotechnology for Biofuels. 11, 1

研究成果: 雜誌貢獻文章

Panicum
Microbiota
Carbohydrates
residence time
solubilization
11 引文 (Scopus)

Discovery of enzymes for toluene synthesis from anoxic microbial communities

Beller, H. R., Rodrigues, A. V., Zargar, K., Wu, Y. W., Saini, A. K., Saville, R. M., Pereira, J. H., Adams, P. D., Tringe, S. G., Petzold, C. J. & Keasling, J. D., 五月 1 2018, 於 : Nature Chemical Biology. 14, 5, p. 451-457 7 p.

研究成果: 雜誌貢獻文章

Toluene
Enzymes
Aromatic Hydrocarbons
Metagenomics
S-Adenosylmethionine
8 引文 (Scopus)
Genome
Genes
Metagenome
16S Ribosomal RNA
Bacterial Genomes
2 引文 (Scopus)

Microbial community structure and functional potential along a hypersaline gradient

Kimbrel, J. A., Ballor, N., Wu, Y-W., David, M. M., Hazen, T. C., Simmons, B. A., Singer, S. W. & Jansson, J. K., 2018, 於 : Frontiers in Microbiology. 9, JUL

研究成果: 雜誌貢獻文章

Salinity
Enzymes
Carbohydrates
Metagenome
Metagenomics

Microbial Functional Responses to Cholesterol Catabolism in Denitrifying Sludge

Wei, S. T-S., Wu, Y-W., Lee, T-H., Huang, Y-S., Yang, C-Y., Chen, Y-L. & Chiang, Y-R., 十一月 13 2018, 於 : mSystems. 3, 5

研究成果: 雜誌貢獻文章

Cholesterol
catabolism
Functional Response
functional response
steroid
2017
106 引文 (Scopus)

Critical Assessment of Metagenome Interpretation-a benchmark of metagenomics software

Sczyrba, A., Hofmann, P., Belmann, P., Koslicki, D., Janssen, S., Dröge, J., Gregor, I., Majda, S., Fiedler, J., Dahms, E., Bremges, A., Fritz, A., Garrido-Oter, R., Jørgensen, T. S., Shapiro, N., Blood, P. D., Gurevich, A., Bai, Y., Turaev, D., DeMaere, M. Z. 及其他47, Chikhi, R., Nagarajan, N., Quince, C., Meyer, F., Balvočiūtė, M., Hansen, L. H., Sørensen, S. J., Chia, B. K. H., Denis, B., Froula, J. L., Wang, Z., Egan, R., Don Kang, D., Cook, J. J., Deltel, C., Beckstette, M., Lemaitre, C., Peterlongo, P., Rizk, G., Lavenier, D., Wu, Y-W., Singer, S. W., Jain, C., Strous, M., Klingenberg, H., Meinicke, P., Barton, M. D., Lingner, T., Lin, H-H., Liao, Y-C., Silva, G. G. Z., Cuevas, D. A., Edwards, R. A., Saha, S., Piro, V. C., Renard, B. Y., Pop, M., Klenk, H-P., Göker, M., Kyrpides, N. C., Woyke, T., Vorholt, J. A., Schulze-Lefert, P., Rubin, E. M., Darling, A. E., Rattei, T. & McHardy, A. C., 十一月 2017, 於 : Nature Methods. 14, 11, p. 1063-1071 9 p.

研究成果: 雜誌貢獻文章

Metagenome
Benchmarking
Metagenomics
Software
Genes
2 引文 (Scopus)

Draft genome sequence of Zobellella denitrificans ZD1 (JCM 13380), a salt-tolerant denitrifying bacterium capable of producing poly(3-hydroxybutyrate)

Wu, Y. W., Shao, Y., Khanipov, K., Golovko, G., Pimenova, M., Fofanov, Y. & Chu, K. H., 一月 1 2017, 於 : Genome Announcements. 5, 36

研究成果: 雜誌貢獻文章

Biopolymers
Base Composition
Taiwan
Ecosystem
Salts
2016
8 引文 (Scopus)

Comparative community proteomics demonstrates the unexpected importance of actinobacterial glycoside hydrolase family 12 protein for crystalline cellulose hydrolysis

Hiras, J., Wu, Y. W., Deng, K., Nicora, C. D., Aldrich, J. T., Frey, D., Kolinko, S., Robinson, E. W., Jacobs, J. M., Adams, P. D., Northen, T. R., Simmons, B. A. & Singer, S. W., 七月 1 2016, 於 : mBio. 7, 4, e01106-16.

研究成果: 雜誌貢獻文章

Glycoside Hydrolases
Cellulose
Proteomics
Hydrolysis
Proteins
18 引文 (Scopus)

Identification and resolution of microdiversity through metagenomic sequencing of parallel consortia

Nelson, W. C., Maezato, Y., Wu, Y. W., Romine, M. F. & Lindemann, S. R., 2016, 於 : Applied and Environmental Microbiology. 82, 1, p. 255-267 13 p.

研究成果: 雜誌貢獻文章

Metagenomics
genome
Halomonas
Genome
Population
3 引文 (Scopus)

Ionic Liquids Impact the Bioenergy Feedstock-Degrading Microbiome and Transcription of Enzymes Relevant to Polysaccharide Hydrolysis

Wu, Y-W., Higgins, B., Yu, C., Reddy, A. P., Ceballos, S., Joh, L. D., Simmons, B. A., Singer, S. W. & VanderGheynst, J. S., 十二月 17 2016, 於 : mSystems. 1, 6

研究成果: 雜誌貢獻文章

Ionic Liquid
Ionic Liquids
Polysaccharides
Microbiota
bioenergy
20 引文 (Scopus)

Refining the phylum Chlorobi by resolving the phylogeny and metabolic potential of the representative of a deeply branching, uncultivated lineage

Hiras, J., Wu, Y. W., Eichorst, S. A., Simmons, B. A. & Singer, S. W., 四月 1 2016, 於 : ISME Journal. 10, 4, p. 833-845 13 p.

研究成果: 雜誌貢獻文章

Chlorobi
Bacteroidetes
refining
Phylogeny
branching
2 引文 (Scopus)

Transcriptomic analysis of the highly efficient oil-degrading bacterium Acinetobacter venetianus RAG-1 reveals genes important in dodecane uptake and utilization

Kothari, A., Charrier, M., Wu, Y. W., Malfatti, S., Zhou, C. E., Singer, S. W., Dugan, L. & Mukhopadhyay, A., 2016, 於 : FEMS Microbiology Letters. 363, 20, fnw224.

研究成果: 雜誌貢獻文章

RAG-1 Genes
Acinetobacter
Oils
Bacteria
Alkanes
2015
3 引文 (Scopus)

Genomic Analysis of Xylose Metabolism in Members of the Deinoccocus-Thermus Phylum from Thermophilic Biomass-Deconstructing Bacterial Consortia

Wu, Y. W., Joshua, C., Eichorst, S. A., Gladden, J. M., Simmons, B. A. & Singer, S. W., 三月 12 2015, 於 : Bioenergy Research. 8, 3, p. 1031-1038 8 p.

研究成果: 雜誌貢獻文章

Thermus thermophilus
Thermus
Xylose
xylose
Metabolism
149 引文 (Scopus)

MaxBin 2.0: An automated binning algorithm to recover genomes from multiple metagenomic datasets

Wu, Y. W., Simmons, B. A. & Singer, S. W., 九月 15 2015, 於 : Bioinformatics. 32, 4, p. 605-607 3 p.

研究成果: 雜誌貢獻文章

Metagenomics
Binning
Metagenome
Genome
Genes
6 引文 (Scopus)

Metabolic characteristics of dominant microbes and key rare species from an acidic hot spring in Taiwan revealed by metagenomics

Lin, K. H., Liao, B. Y., Chang, H. W., Huang, S. W., Chang, T. Y., Yang, C. Y., Wang, Y. B., Lin, Y. T. K., Wu, Y. W., Tang, S. L. & Yu, H. T., 十二月 3 2015, 於 : BMC Genomics. 16, 1, 1029.

研究成果: 雜誌貢獻文章

Hot Springs
Metagenomics
Taiwan
Carbon
Microbial Interactions
2014
168 引文 (Scopus)

MaxBin: An automated binning method to recover individual genomes from metagenomes using an expectation-maximization algorithm

Wu, Y. W., Tang, Y. H., Tringe, S. G., Simmons, B. A. & Singer, S. W., 三月 4 2014, 於 : Microbiome. 2, 1, 26.

研究成果: 雜誌貢獻文章

Metagenome
Metagenomics
Genome
Myxococcales
Microbial Consortia
2013
4 引文 (Scopus)

The gain and loss of chromosomal integron systems in the Treponema species

Wu, Y. W., Doak, T. G. & Ye, Y., 2013, 於 : BMC Evolutionary Biology. 13, 1, 16.

研究成果: 雜誌貢獻文章

Treponema
Treponema phagedenis
pathogen
sexually transmitted disease
phylogenetics
2012
75 引文 (Scopus)

Diverse CRISPRs evolving in human microbiomes

Rho, M., Wu, Y. W., Tang, H., Doak, T. G. & Ye, Y., 六月 2012, 於 : PLoS Genetics. 8, 6, e1002441.

研究成果: 雜誌貢獻文章

Clustered Regularly Interspaced Short Palindromic Repeats
Microbiota
mouth
loci
immune system
11 引文 (Scopus)
Integrons
Stomatognathic Diseases
Spirochaetales
Treponema
mouth
9 引文 (Scopus)

Stitching gene fragments with a network matching algorithm improves gene assembly for metagenomics

Wu, Y. W., Rho, M., Doak, T. G. & Ye, Y., 九月 2012, 於 : Bioinformatics. 28, 18, bts388.

研究成果: 雜誌貢獻文章

Metagenomics
Stitching
Network Algorithms
Matching Algorithm
Fragment
2011
79 引文 (Scopus)

A novel abundance-based algorithm for binning metagenomic sequences using l-tuples

Wu, Y. W. & Ye, Y., 三月 1 2011, 於 : Journal of Computational Biology. 18, 3, p. 523-534 12 p.

研究成果: 雜誌貢獻文章

Metagenomics
Binning
Bins
Genome
Genes
2010
16 引文 (Scopus)

Editing site analysis in a gymnosperm mitochondrial genome reveals similarities with angiosperm mitochondrial genomes

Salmans, M. L., Chaw, S. M., Lin, C. P., Shih, A. C. C., Wu, Y. W. & Mulligan, R. M., 十月 2010, 於 : Current Genetics. 56, 5, p. 439-446 8 p.

研究成果: 雜誌貢獻文章

Gymnosperms
Angiosperms
Mitochondrial Genome
Cycas
Nucleotides
2008
90 引文 (Scopus)

The mitochondrial genome of the gymnosperm Cycas taitungensis contains a novel family of short interspersed elements, Bpu sequences, and abundant RNA editing sites

Chaw, S. M., Chun-Chieh Shih, A., Wang, D., Wu, Y. W., Liu, S. M. & Chou, T. Y., 三月 2008, 於 : Molecular Biology and Evolution. 25, 3, p. 603-615 13 p.

研究成果: 雜誌貢獻文章

Cycas
Gymnosperms
RNA Editing
RNA editing
Mitochondrial Genome
2007
19 引文 (Scopus)

Phylo-mLogo: An interactive and hierarchical multiple-logo visualization tool for alignment of many sequences

Shih, A. C. C., Lee, D. T., Peng, C. L. & Wu, Y. W., 2007, 於 : BMC Bioinformatics. 8, 63.

研究成果: 雜誌貢獻文章

Sequence Alignment
Alignment
Visualization
Position-Specific Scoring Matrices
Viruses
50 引文 (Scopus)

Transfer of chloroplast genomic DNA to mitochondrial genome occurred at least 300 MYA

Wang, D., Wu, Y. W., Shih, A. C. C., Wu, C. S., Wang, Y. N. & Chaw, S. M., 九月 2007, 於 : Molecular Biology and Evolution. 24, 9, p. 2040-2048 9 p.

研究成果: 雜誌貢獻文章

Chloroplast DNA
Mitochondrial Genome
Gymnosperms
gymnosperm
Mitochondrial DNA
2006
14 引文 (Scopus)

SinicView: A visualization environment for comparisons of multiple nucleotide sequence alignment tools

Shih, A. C. C., Lee, D. T., Lin, L., Peng, C. L., Chen, S. H., Wu, Y. W., Wong, C. Y., Chou, M. Y., Shiao, T. C. & Hsieh, M. F., 三月 2 2006, 於 : BMC Bioinformatics. 7, 103.

研究成果: 雜誌貢獻文章

Sequence Alignment
Nucleotides
Sequence Analysis
Alignment
Visualization