Publications – Fay-Wei Li

Fern genomes elucidate land plant evolution and cyanobacterial symbioses
2018.
Li, Fay-Wei, P. Brouwer, L. Carretero-Paulet, S. Cheng, J. de Vries, P.-M. Delaux, A.N. Eily, N. Kop…
Nature Plants.
4
:
460–472
Genome-wide organellar analyses from the hornwort Leiosporoceros dussii show low frequency of RNA editing and its increase during hornwort diversification
2018.
Villarreal, J.C., Turmel, M., Bourgouin-Couture, M., Laroche, J., Salazar, N., Li, Fay-Wei, Chen, S.…
PLoS ONE.
13
:
e0200491
A worldwide phylogeny of Adiantum (Pteridaceae) reveals remarkable convergent evolution in leaf blade architecture
2018.
Huiet, L., Li, Fay-Wei, Kao, T.-T., Prado, J., Smith, A.R., Schuettpelz, E., Pryer, K.M.
Taxon.
67
:
488–502
Order-level fern plastome phylogenomics: new insights from Hymenophyllales
2018.
Kuo, L.-Y., Qi, X., Ma, H., Li, Fay-Wei
American Journal of Botany.
105
:
1545–1555
Organelle Genome Inheritance in Deparia Ferns (Athyriaceae, Aspleniineae, Polypodiales)
2018.
Kuo, L.-Y., Tang, T.-Y., Li, Fay-Wei, Su, H.-J., Chiou, W.-L., Huang, Y.-M., Wang, C.-N.
Frontiers in Plant Science.
9
:
Admixture, evolution, and variation in reproductive isolation in the Boechera puberula clade
2018.
Schilling, M. P., Gompert, Z., Li, Fay-Wei, Windham, M. D., Wolf, P. G.
BMC Evolutionary Biology.
18
:
10KP: A phylodiverse genome sequencing plan
2018.
Cheng, S., Melkonian, M., Smith, S. A., Brockington, S., Archibald, J. M., Delaux, P. M., Li, Fay-We…
GigaScience.
7
:
1–9
A guide to sequence your favorite plant genomes
2018.
Li, Fay-Wei, Harkess, A.
American Journal of Botany.
6
:
e1030–e1030
The Physcomitrella patens chromosome-scale assembly reveals moss genome structure and evolution
2018.
Lang, D., Ullrich, K. K., Murat, F., Fuchs, J., Jenkins, J., Haas, F. B., Piednoel, M., Gundlach, H.…
The Plant Journal.
93
:
515–533
A novel chloroplast gene reported for flagellate plants
2018.
Song, M., Kuo, L. Y., Huiet, L., Pryer, K. M., Rothfels, C. J., Li, Fay-Wei
American Journal of Botany.
105
:
117–121
Is there foul play in the leaf pocket? The metagenome of floating fern Azolla reveals endophytes that do not fix N2 but may denitrify
2018.
Dijkhuizen, L. W., Brouwer, P., Bolhuis, H., Reichart, G. J., Koppers, N., Huettel, B., Bolger, A. M…
New Phytologist.
217
:
453–466
The phycocyanobilin chromophore of streptophyte algal phytochromes is synthesized by HY2
2017.
Rockwell, N. C., Martin, S. S., Li, Fay-Wei, Mathews, S., Lagarias, J. C.
New Phytologist.
214
:
1145–1157
Hornworts: An Overlooked Window into Carbon-Concentrating Mechanisms
2017.
Li, Fay-Wei, Villarreal, J. C., Szövényi, P.
Trends in Plant Science.
22
:
275–277
Next-generation polyploid phylogenetics: rapid resolution of hybrid polyploid complexes using PacBio single-molecule sequencing
2017.
Rothfels, C. J., Pryer, K. M., Li, Fay-Wei
New Phytologist.
213
:
413–429
Boechera microsatellite website: An online portal for species identification and determination of hybrid parentage
2017.
Li, Fay-Wei, Rushworth, C. A., Beck, J. B., Windham, M. D.
Database : the journal of biological databases and curation.
2017
:
Microbial-type terpene synthase genes occur widely in nonseed land plants, but not in seed plants
2016.
Jia, Q., Li, G., Kollner, T. G., Fu, J., Chen, X., Xiong, W., Crandall-Stotler, B. J., Bowman, J. L.…
Proceedings of the National Academy of Sciences.
113
:
12328–12333
Maidenhair Ferns, Adiantum , are Indeed Monophyletic and Sister to Shoestring Ferns, Vittarioids (Pteridaceae)
2016.
Pryer, K. M., Huiet, L., Li, Fay-Wei, Rothfels, C. J., Schuettpelz, E.
Systematic Botany.
41
:
17–23
Super-resolution ribosome profiling reveals unannotated translation events in Arabidopsis
2016.
Hsu, P. Y., Calviello, L., Wu, H. YL, Li, Fay-Wei, Rothfels, C. J., Ohler, U., Benfey, P. N.
Proceedings of the National Academy of Sciences.
113
:
E7126–E7135
Genes Translocated into the Plastid Inverted Repeat Show Decelerated Substitution Rates and Elevated GC Content
2016.
Li, Fay-Wei, Kuo, L. Y., Pryer, K. M., Rothfels, C. J.
Genome biology and evolution.
8
:
2452–2458
Asplenium pifongiae (Aspleniaceae: Polypodiales), a New Species from Taiwan
2016.
Li, Fay-Wei, Kuo, L. Y., Chang, Y. H., Hsu, T. C., Hung, H. C., Chiou, W. L., Rothfels, C. J., Huang…
Systematic Botany.
41
:
24–31
A community-derived classification for extant lycophytes and ferns
2016.
Schuettpelz, E., Schneider, H., Smith, A. R., Hovenkamp, P., Prado, J., Rouhan, G., Salino, A., Sund…
Journal of Systematics and Evolution.
54
:
563–603
Evolutionary aspects of plant photoreceptors
2016.
Li, Fay-Wei, Mathews, S.
Journal of Plant Research.
129
:
115–122
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
2016.
Stevenson, S. R., Kamisugi, Y., Trinh, C. H., Schmutz, J., Jenkins, J. W., Grimwood, J., Muchero, W.…
The Plant Cell.
28
:
1310–1327
Searching for Diamonds in the Apomictic Rough: A Case Study Involving Boechera lignifera (Brassicaceae)
2015.
Windham, M. D., Beck, J. B., Li, Fay-Wei, Allphin, L., Carman, J. G., Sherwood, D. A., Rushworth, C.…
Systematic Botany.
40
:
1031–1044
The origin and evolution of phototropins
2015.
Li, Fay-Wei, Rothfels, C. J., Melkonian, M., Villarreal, J. C., Stevenson, D. W., Graham, S. W., Won…
Frontiers in Plant Science.
6
:
An Exploration into Fern Genome Space
2015.
Wolf, P. G., Sessa, E. B., Marchant, D. B., Li, Fay-Wei, Rothfels, C. J., Sigel, E. M., Gitzendanner…
Genome biology and evolution.
7
:
2533–2544
The evolutionary history of ferns inferred from 25 low-copy nuclear genes
2015.
Rothfels, C. J., Li, Fay-Wei, Sigel, E. M., Huiet, L., Larsson, A., Burge, D. O., Ruhsam, M., Deyhol…
American Journal of Botany.
102
:
1089–1107
Phytochrome diversity in green plants and the origin of canonical plant phytochromes
2015.
Li, Fay-Wei, Melkonian, M., Rothfels, C. J., Villarreal, J. C., Stevenson, D. W., Graham, S. W., Won…
Nature Communications.
6
:
7852–7852
Between Two Fern Genomes
2014.
Sessa, E. B., Banks, J. A., Barker, M. S., Der, J. P., Duffy, A. M., Graham, S. W., Hasebe, M., Lang…
GigaScience.
3
:
Crowdfunding the Azolla fern genome project: a grassroots approach
2014.
Li, Fay-Wei, Pryer, K. M.
GigaScience.
3
:
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, …
Proceedings of the National Academy of Sciences.
111
:
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
:
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…
PLOS One.
8
:
e76957–e76957
Gaga, a New Fern Genus Segregated from Cheilanthes (Pteridaceae)
2012.
Li, Fay-Wei, Pryer, K. M., Windham, M. D.
Systematic Botany.
37
:
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
:
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
:
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
:
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
:
77–86

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