Dynamic plastid and mitochondrial genomes in Chaetopeltidales (Chlorophyceae) and characterization of a new chlorophyte taxon.
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Robison, T., Nelson, J.M., Hauser, D.A., Lewis, L.A., Li, Fay-Wei
Genome sequence for the blue-flowered Andean shrub Iochroma cyaneum reveals extensive discordance across the berry clade of Solanaceae.
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Powell, A.F., Zhang, J., Hauser, D., Vilela, J.A., Hu, A., Gates, D.J., Mueller, Lukas A., Li, Fay-Wei, Strickler, S.R., Smith, S.D.
The flying spider-monkey tree fern genome provides insights into fern evolution and arborescence.
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Huang, X., Wang, W., Gong, T., Wickell, D., Kuo, L.Y., Zhang, X., Wen, J., Kim, H., Lu, F., Zhao, H., Chen, S., Li, H., Wu, W., Yu, C., Chen, S., Fan, W., Chen, S., Bao, X., Li, L., Zhang, D., Jiang, L., Yan, X., Liao, Z., Zhou, G., Guo, Y., Ralph, J., Sederoff, R.R., Wei, H., Zhu, P., Li, Fay-Wei, Ming, R., Li, Q.
Characterizing Culturable Bacterial Endophytes of Five Lycopodiaceae Species
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Petlewski, A.R., Patterson, A., Li, Fay-Wei
American Fern Journal.
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Accelerating gametophytic growth in the model hornwort Anthoceros agrestis
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Gunadi, A., Li, Fay-Wei, Van Eck, Joyce
Applications in Plant Sciences.
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Step-by-step protocol for the isolation and transient transformation of hornwort protoplasts
2022.
Neubauer, A., Ruaud, S., Waller, M., Frangedakis, E., Li, Fay-Wei, Nötzold, S.I., Wicke, S., Bailly, A., Szövényi, P.
Applications in Plant Sciences.
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Decolonizing botanical genomics
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Li, Fay-Wei
The diversity and community structure of symbiotic cyanobacteria in hornworts inferred from long-read amplicon sequencing
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Nelson, J.M., Hauser, D.A., Li, Fay-Wei
American Journal of Botany.
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Monodopsis and Vischeria Genomes Shed New Light on the Biology of Eustigmatophyte Algae
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Yang, H.-P., Wenzel, M., Hauser, D.A., Nelson, J.M., Xu, X., Eliáš, M., Li, Fay-Wei
Genome Biology and Evolution.
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Underwater CAM photosynthesis elucidated by Isoetes genome.
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Wickell, D., Kuo, L.Y., Yang, H.P., Dhabalia, A.A., Irisarri, I., Dadras, A., de Vries, S., de Vries, J., Huang, Y.M., Li, Z., Barker, M.S., Hartwick, N.T., Michael, T.P., Li, Fay-Wei
An Agrobacterium-mediated stable transformation technique for the hornwort model Anthoceros agrestis
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Frangedakis, E., Waller, M., Nishiyama, T., Tsukaya, H., Xu, X., Yue, Y., Tjahjadi, M., Gunadi, A., Van Eck, Joyce, Li, Fay-Wei, Szövényi, P., Sakakibara, K.
New Phytologist.
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A novel thylakoid-less isolate fills a billion-year gap in the evolution of Cyanobacteria
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Rahmatpour, N., Hauser, D.A., Nelson, J.M., Chen, P.Y., Villarreal, J.C., Ho, M.Y., Li, Fay-Wei
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Charting the genomic landscape of seed-free plants
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Szövényi, P., Gunadi, A., Li, Fay-Wei
The Hornworts: Morphology, evolution and development
2021.
Frangedakis, E., Shimamura, M., Villarreal, J.C., Li, Fay-Wei, Tomaselli, M., Waller, M., Sakakibara, K., Renzaglia, K.S., Szövényi, P.
A step-by-step protocol for meiotic chromosome counts in flowering plants: A powerful and economical technique revisited.
2020.
Windham, M.D., Pryer, K.M., Poindexter, D.B., Li, Fay-Wei, Rothfels, C.J., Beck, J.B.
Plant science decadal vision 2020-2030: Reimagining the potential of plants for a healthy and sustainable future
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Henkhaus, N., Barlett, M., Gang, D., Grumet, R., Jordon-Thaden, I., Lorence, A., Lyons, E., Miller, S., Murray, S., Nelson, Andrew, Li, Fay-Wei, Sickler, Delanie, Taylor, C., Stern, David
Contrasting bacteriome of the hornwort Leiosporoceros dussii in two nearby sites with emphasis on the hornwort-cyanobacterial symbiosis
2020.
Bouchard, R. Peñaloza-Bojacá, G., Toupin, S., Guadalupe, Y., Gudiño, J., Salazar Allen, N., Li, Fay-Wei, Villarreal, J.C.
Extremely low genetic diversity in the European clade of the model bryophyte Anthoceros agrestis
2020.
Dawes, T.N., Villarreal, J.C., Szövényi, P., Bisang, I., Li, Fay-Wei, Hauser, D.A., Quandt, D., Cargill, D.C., Forrest, L.L.
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Li, Fay-Wei, Nishiyama, T., Waller, M., Frangedakis, E., Keller, J., Li, Z., Fernandez-Poze, N., Barker, M.S., Bennett, T., Blázquez, M.A., Cheng, S., Cuming, A.C., de Vries, J., de Vries, S., Delaux, P.M., Diop, I.S., Harrison, J., Hauser, D., Hernández-Garcia, J., Kirbis, A., Meeks, J.C., Monte, I., Mutte, S.K., Neubauer, A., Quandt, D., Robison, T., Shimamura, M., Rensing, S.A., Villarreal, J.C., Weijers, D., Wicke, S., Wong, G.K.S., Sakakibara, K., Szövényi, P.
An ancestral signalling pathway is conserved in intracellular symbioses-forming plant lineages.
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Radhakrishnan, G.V., Keller. J., Rich, M.K., Vernié, T., Mbadinga Mbadinga, D.L., Vigneron, N., Cottret, L., Clemente, H.S., Libourel, C., Cheema, J., Linde, A.M., Eklund, D.M., Cheng, S., Wong, G.K.S., Lagercrantz, U., Li, Fay-Wei, Oldroyd, G.E.D., Delaux, P.M.
On the evolutionary significance of horizontal gene transfers in plants.
2020.
Wickell, D.A., Li, Fay-Wei
Organellomic data sets confirm a cryptic consensus on (unrooted) land-plant relationships and provide new insights into bryophyte molecular evolution
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Bell, D., Lin, Q., Gerelle, W.K., Joya, S., Chang, Y., Taylor, Z.N., Rothfels, C.J., Larsson, A., Villarreal, J.C., Li, Fay-Wei, Pokorny, L., Szövényi, P., Crandall-Stotler, B., DeGironimo, L., Floyd, S.K., Beerling, D.J., Deyholos, M.K., von Konrat, M., Ellis, S., Shaw, A.J., Chen, T., Wong, G.K.S., Stevenson, D.W., Palmer, J.D., Graham, S.W.
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One thousand plant transcriptomes and the phylogenomics of green plants
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A Roadmap for Fern Genome Sequencing
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Updating Taiwanese pteridophyte checklist: a new phylogenetic classification
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Chang, H.M., Chen, C.W., Huang, Y.M., Li, Fay-Wei, Huang, Y.F., Shao, W., Lu, P.F., Chen, C.W., Chang, Y.H., Chiou, W.L.
Phylogenetic Methods to Study Light Signaling
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Reconstructing trait evolution in plant evo-devo studies.
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Delaux, P.M., Hetherington, A.J., Coudert, Y., Delwiche, C., Dunand, C., Gould, S., Kenrick, P., Li, Fay-Wei, Philippe, H., Rensing, S.A., Rich, M., Strullu-Derrien, C., de Vries, J.
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Large-scale phylogenomic analysis suggests three ancient superclades of the WUSCHEL-RELATED HOMEOBOX transcription factor family in plants.
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Wu, C.C., Li, Fay-Wei, Kramer, E.M.
Complete genomes of symbiotic cyanobacteria clarify the evolution of Vanadium-nitrogenase.
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Nelson, J., Hauser, D., Gudiño, J.A., Guadalupe, Y.A., Meeks, J.C., Salazar, N., Villarreal, J.C., Li, Fay-Wei
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NCP activates chloroplast transcription by controlling phytochrome-dependent dual nuclear and plastidial switches
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A first glimpse at genes important to the Azolla–Nostoc symbiosis
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Fern genomes elucidate land plant evolution and cyanobacterial symbioses
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Li, Fay-Wei, P. Brouwer, L. Carretero-Paulet, S. Cheng, J. de Vries, P.-M. Delaux, A.N. Eily, N. Koppers, L.-Y. Kuo, Z. Li, M. Simenc, I. Small, E. Wafula, S. Angarita, M.S. Barker, A. Braeutigam, C. dePamphilis, S. Gould, P.S. Hosmani, Y.-M. Huang, B. Huettel, Y. Kato, X. Liu, S. Maere, R. McDowell, L.A. Mueller, K.G.J. Nierop, S.A. Rensing, T. Robison, C.J. Rothfels, E.M. Sigel, Y. Song, P.R. Timilsina, Y. Van de Peer, H. Wang, P. K.I. Wilhelmsson, P.G. Wolf, X. Xu, J.P. Der, H. Schluepmann, G.K.-S. Wong, and K.M. Pryer
Genome-wide organellar analyses from the hornwort Leiosporoceros dussii show low frequency of RNA editing and its increase during hornwort diversification
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Villarreal, J.C., Turmel, M., Bourgouin-Couture, M., Laroche, J., Salazar, N., Li, Fay-Wei, Chen, S., Renzaglia, K., Lemieux, C.
A worldwide phylogeny of Adiantum (Pteridaceae) reveals remarkable convergent evolution in leaf blade architecture
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Huiet, L., Li, Fay-Wei, Kao, T.-T., Prado, J., Smith, A.R., Schuettpelz, E., Pryer, K.M.
Order-level fern plastome phylogenomics: new insights from Hymenophyllales
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Kuo, L.-Y., Qi, X., Ma, H., Li, Fay-Wei
American Journal of Botany.
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Organelle Genome Inheritance in Deparia Ferns (Athyriaceae, Aspleniineae, Polypodiales)
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Kuo, L.-Y., Tang, T.-Y., Li, Fay-Wei, Su, H.-J., Chiou, W.-L., Huang, Y.-M., Wang, C.-N.
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BMC Evolutionary Biology.
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A guide to sequence your favorite plant genomes
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The Physcomitrella patens chromosome-scale assembly reveals moss genome structure and evolution
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A novel chloroplast gene reported for flagellate plants
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Song, M., Kuo, L. Y., Huiet, L., Pryer, K. M., Rothfels, C. J., Li, Fay-Wei
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Is there foul play in the leaf pocket? The metagenome of floating fern Azolla reveals endophytes that do not fix N2 but may denitrify
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Dijkhuizen, L. W., Brouwer, P., Bolhuis, H., Reichart, G. J., Koppers, N., Huettel, B., Bolger, A. M., Li, Fay-Wei, Cheng, S., Liu, X., Wong, G. KS, Pryer, K., Weber, A., Bräutigam, A., Schluepmann, H.
New Phytologist.
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The phycocyanobilin chromophore of streptophyte algal phytochromes is synthesized by HY2
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Rockwell, N. C., Martin, S. S., Li, Fay-Wei, Mathews, S., Lagarias, J. C.
New Phytologist.
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Hornworts: An Overlooked Window into Carbon-Concentrating Mechanisms
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Next-generation polyploid phylogenetics: rapid resolution of hybrid polyploid complexes using PacBio single-molecule sequencing
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Boechera microsatellite website: An online portal for species identification and determination of hybrid parentage
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Li, Fay-Wei, Rushworth, C. A., Beck, J. B., Windham, M. D.
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Microbial-type terpene synthase genes occur widely in nonseed land plants, but not in seed plants
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Jia, Q., Li, G., Kollner, T. G., Fu, J., Chen, X., Xiong, W., Crandall-Stotler, B. J., Bowman, J. L., Weston, D. J., Zhang, Y., Chen, L., Xie, Y., Li, Fay-Wei, Rothfels, C. J., Larsson, A., Graham, S. W., Stevenson, D. W., Wong, G. KS, Gershenzon, J., Chen, F.
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Maidenhair Ferns, Adiantum , are Indeed Monophyletic and Sister to Shoestring Ferns, Vittarioids (Pteridaceae)
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Super-resolution ribosome profiling reveals unannotated translation events in Arabidopsis
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Genes Translocated into the Plastid Inverted Repeat Show Decelerated Substitution Rates and Elevated GC Content
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Asplenium pifongiae (Aspleniaceae: Polypodiales), a New Species from Taiwan
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A community-derived classification for extant lycophytes and ferns
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Evolutionary aspects of plant photoreceptors
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Genetic Analysis of Physcomitrella patens Identifies ABSCISIC ACID NON-RESPONSIVE, a Regulator of ABA Responses Unique to Basal Land Plants and Required for Desiccation Tolerance
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Searching for Diamonds in the Apomictic Rough: A Case Study Involving Boechera lignifera (Brassicaceae)
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The origin and evolution of phototropins
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Crowdfunding the Azolla fern genome project: a grassroots approach
2014.
Li, Fay-Wei, Pryer, K. M.
Horizontal transfer of an adaptive chimeric photoreceptor from bryophytes to ferns
2014.
Li, Fay-Wei, Villarreal, J. C., Kelly, S., Rothfels, C. J., Melkonian, M., Frangedakis, E., Ruhsam, M., Sigel, E. M., Der, J. P., Pittermann, J., Burge, D. O., Pokorny, L., Larsson, A., Chen, T., Weststrand, S., Thomas, P., Carpenter, E., Zhang, Y., Tian, Z., Chen, L., Yan, Z., Zhu, Y., Sun, X., Wang, J., Stevenson, D. W., Crandall-Stotler, B. J., Shaw, A. J., Deyholos, M. K., Soltis, D. E., Graham, S. W., Windham, M. D., Langdale, J. A., Wong, G. KS, Mathews, S., Pryer, K. M.
Proceedings of the National Academy of Sciences.
111
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6672–6677
The Hybrid Origin of Adiantum meishanianum (Pteridaceae): A Rare and Endemic Species in Taiwan
2014.
Zhang, W. Y., Kuo, L. Y., Li, Fay-Wei, Wang, C. N., Chiou, W. L.
Systematic Botany.
39
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1034–1041
Transcriptome-Mining for Single-Copy Nuclear Markers in Ferns
2013.
Rothfels, C. J., Larsson, A., Li, Fay-Wei, Sigel, E. M., Huiet, L., Burge, D. O., Ruhsam, M., Graham, S. W., Stevenson, D. W., Wong, G. KS, Korall, P., Pryer, K. M.
PLOS One.
8
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e76957–e76957
Gaga, a New Fern Genus Segregated from Cheilanthes (Pteridaceae)
2012.
Li, Fay-Wei, Pryer, K. M., Windham, M. D.
Systematic Botany.
37
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845–860
First insights into fern matK phylogeny
2011.
Kuo, L. Y., Li, Fay-Wei, Chiou, W. L., Wang, C. N.
Molecular Phylogenetics and Evolution.
59
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556–566
rbcL and matK Earn Two Thumbs Up as the Core DNA Barcode for Ferns
2011.
Li, Fay-Wei, Kuo, L. Y., Rothfels, C. J., Ebihara, A., Chiou, W. L., Windham, M. D., Pryer, K. M.
PLOS One.
6
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e26597–e26597
Tissue-direct PCR, a rapid and extraction-free method for barcoding of ferns
2010.
Li, Fay-Wei, KUO, L. Y., HUANG, Y. M., CHIOU, W. L., WANG, C. N.
Molecular Ecology Resources.
10
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92–95
Identifying a mysterious aquatic fern gametophyte
2009.
Li, Fay-Wei, Tan, B. C., Buchbender, V., Moran, R. C., Rouhan, G., Wang, C. N., Quandt, D.
Plant Systematics and Evolution.
281
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77–86
