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ANAgdb currently encompasses 15 publicly available genome assemblies across eleven species and 1 newly assembled genome (Amtr_2024) produced by our group, including Amborella trichopoda, Brasenia schreberi, Cabomba caroliniana, Euryale ferox, Illicium verum, Nuphar advena, Nymphaea colorata, Nymphaea mexicana, Nymphaea thermarum, Schisandra chinensis and Victoria cruziana. These datasets represent all open-access genome assemblies in the ANA-grade.
Genome Information
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ANAgdb now includes a comprehensive collection of 167 RNA-Seq libraries from five ANA-grade species. This collection comprises data from various tissues, in-cluding 14 tissues from Amborella trichopoda, 7 from Brasenia schreberi, 2 from Euryale ferox, 7 from Nymphaea colorata, and 5 from Nymphaea thermarum. For each gene, the FPKM values are provided ...
Transcriptome Information
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ANAgdb has retrieved sRNA-seq datasets for A. trichopoda and N. colorata from public databases. Utilizing the established miRNA identification pipeline cen-tered around miRDeep-P2 (Kuang et al., 2018), we identified 186 miRNAs belong-ing to 109 families in A. trichopoda and 141 miRNAs belonging to 88 families in N. colorata.
miRNA Information
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ANAgdb provides the taxonomic information including 123 scientific names from Amborellales, Nymphaeales, and Austrobaileyales. Authority, reference, and link to Tropicos of each scientific name are also available.
Taxonomy Information
Citation
▶ ANAgdb: a multi-omics and taxonomy database for ANA-grade. Guo, Z.#, Luo, S.#, Wang, Q.#, Yang, Y., Bai, Y., Wei, J., Wang, D., Duan, Y.*, Yang, X.*, and Yang, Y.*. BMC Plant Biology. (2024)
▶ Genome
▷ Amborella trichopoda (Amtr_2024): Guo, Z.#, Guo, J.-F.#, Wei, Z.-Y.#, Zhang, R.-G., McMahan, S., Nie, S., Yan, X.-M., Zhou, S.-S., Yun, Q.-Z., Wu, J.-Y., Ge, J., Yang, Y.*, Xue, J.-Y.*, and Mao, J.-F*. (2025). Near-gapless telomere-to-telomere reference nuclear genome and variable mitochondrial genome of Amborella trichopoda.
▷ Amborella trichopoda: Amborella Genome, P., Albert, V.A., Barbazuk, W.B., dePamphilis, C.W., Der, J.P., Leebens-Mack, J., Ma, H., Palmer, J.D., Rounsley, S., Sankoff, D., et al. (2013). The amborella genome and the evolution of flowering plants. Science 342, 1241089.
▷ Brasenia schreberi: Lu, B., Shi, T., and Chen, J. Chromosome-level genome assembly of watershield (Brasenia schreberi).
▷ Cabomba caroliniana: Chen, L.-Y., Wang, J.-L., Cao, Y., Chen, H., Yuan, T., Zhang, W.-D., Morales-Briones, D.F., Zhao, S.-Y., Tan, N.-H., Huang, C.-H., Wan, T., et al. (2025). The convergent genomic dynamism for aquatic adaptation in vascular plants. Current Biology.
▷ Euryale ferox: Data from NGDC.
▷ Euryale ferox: Yang, Y., Sun, P., Lv, L., Wang, D., Ru, D., Li, Y., Ma, T., Zhang, L., Shen, X., Meng, F., et al. (2020). Prickly waterlily and rigid hornwort genomes shed light on early angiosperm evolution. Nature Plants 6, 215-222.
▷ Illicium verum: Sun, P., Yang, Y., Liu, L., Xi, Z., Lin, H., Feng, L., Ma, J., Hu, H., Bi, G., Jiao, B., et al. (2022). Genome-scale analyses reveal the evolutionary history of aquatic angiosperms. Research Square.
▷ Nuphar advena: Data from NCBI.
▷ Nymphaea colorata: Zhang, L., Chen, F., Zhang, X., Li, Z., Zhao, Y., Lohaus, R., Chang, X., Dong, W., Ho, S.Y.W., Liu, X., et al. (2020). The water lily genome and the early evolution of flowering plants. Nature 577, 79-84.
▷ Nymphaea mexicana: Wen, X., Liang, Y., Shan, H., Chang, X., Song, X., Shen, S., Fu, Y., Chen, D., Chen, F., Li, Y., et al. (2025). The genome of giant waterlily provides insights into the origin of angiosperms, leaf gigantism, and stamen function innovation. iScience.
▷ Nymphaea thermarum: Povilus, R.A., DaCosta, J.M., Grassa, C., Satyaki, P.R.V., Moeglein, M., Jaenisch, J., Xi, Z., Mathews, S., Gehring, M., Davis, C.C., et al. (2020). Water lily (Nymphaea thermarum) genome reveals variable genomic signatures of ancient vascular cambium losses. Proceedings of the National Academy of Sciences 117, 8649-8656.
▷ Schisandra chinensis: Liu, J., Xiong, R., Liu, L., Zhou, T.-P., Xue, J., Sun, D., Gao, R., Chen, S., Xu, R., Xing, Y., et al. (2025). Insights into angiosperm evolution and lineage-specialized lignan biosynthesis from the early-diverging Schisandra genome. Science Advances.
▷ Victoria cruziana: Wen, X., Liang, Y., Shan, H., Chang, X., Song, X., Shen, S., Fu, Y., Chen, D., Chen, F., Li, Y., et al. (2025). The genome of giant waterlily provides insights into the origin of angiosperms, leaf gigantism, and stamen function innovation. iScience.
Transcriptome
ANAgdb now includes a comprehensive collection of 167 RNA-Seq libraries from five ANA-grade species. This collection comprises data from various tissues, in-cluding 14 tissues from Amborella trichopoda, 7 from Brasenia schreberi, 2 from Euryale ferox, 7 from Nymphaea colorata, and 5 from Nymphaea thermarum. For each gene, the FPKM values are provided for individual libraries and tissues, calculated using a combination of HISAT2 (Kim et al., 2019) and StringTie (Pertea et al., 2015).
Transcriptome Information
Tools
