Dataset: Montastrea cavernosa draft genome

ValidatedFinal no updates expectedDOI: 10.26008/1912/bco-dmo.875253.1Version 1 (2022-12-07)Dataset Type:Other Field Results

Principal Investigator, Contact: Mikhail V. Matz (University of Texas at Austin)

BCO-DMO Data Manager: Karen Soenen (Woods Hole Oceanographic Institution)

Project: Barriers to cross-shelf coral connectivity in the Florida Keys (KeysCoralPopgen)

Abstract

Draft de novo genome assembly of M. cavernosa specimen collected from the West Bank of the Flower Garden Banks National Marine Sanctuary (27.88° N, 93.83° W) in 2014.

Cite Dataset

Data is published in Rippe et al., 2021.

Data can also be downloaded at https://matzlab.weebly.com/data--code.html. Direct link to archive: https://www.dropbox.com/s/yfqefzntt896xfz/Mcavernosa_genome.tgz. 

Draft genome stands for not full-length chromosome assembly.

Related Datasets

No Related Datasets

Related Publications

Results
Rippe, J. P., Dixon, G., Fuller, Z. L., Liao, Y., & Matz, M. (2021). Environmental specialization and cryptic genetic divergence in two massive coral species from the Florida Keys Reef Tract. Molecular Ecology, 30(14), 3468–3484. Portico. https://doi.org/10.1111/mec.15931
Methods
Boetzer, M., & Pirovano, W. (2014). SSPACE-LongRead: scaffolding bacterial draft genomes using long read sequence information. BMC Bioinformatics, 15(1). https://doi.org/10.1186/1471-2105-15-211
Methods
Bryant, D. M., Johnson, K., DiTommaso, T., Tickle, T., Couger, M. B., Payzin-Dogru, D., Lee, T. J., Leigh, N. D., Kuo, T.-H., Davis, F. G., Bateman, J., Bryant, S., Guzikowski, A. R., Tsai, S. L., Coyne, S., Ye, W. W., Freeman, R. M., Peshkin, L., Tabin, C. J., … Whited, J. L. (2017). A Tissue-Mapped Axolotl De Novo Transcriptome Enables Identification of Limb Regeneration Factors. Cell Reports, 18(3), 762–776. https://doi.org/10.1016/j.celrep.2016.12.063
Methods
Campbell, M. S., Law, M., Holt, C., Stein, J. C., Moghe, G. D., Hufnagel, D. E., Lei, J., Achawanantakun, R., Jiao, D., Lawrence, C. J., Ware, D., Shiu, S.-H., Childs, K. L., Sun, Y., Jiang, N., & Yandell, M. (2013). MAKER-P: A Tool Kit for the Rapid Creation, Management, and Quality Control of Plant Genome Annotations    . Plant Physiology, 164(2), 513–524. https://doi.org/10.1104/pp.113.230144
Methods
English, A. C., Richards, S., Han, Y., Wang, M., Vee, V., Qu, J., Qin, X., Muzny, D. M., Reid, J. G., Worley, K. C., & Gibbs, R. A. (2012). Mind the Gap: Upgrading Genomes with Pacific Biosciences RS Long-Read Sequencing Technology. PLoS ONE, 7(11), e47768. https://doi.org/10.1371/journal.pone.0047768

Matz, M. (2022) Montastrea cavernosa draft genome. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2022-12-07 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.875253.1 [access date]

Terms of Use

This dataset is licensed under Creative Commons Attribution 4.0.


If you wish to use this dataset, it is highly recommended that you contact the original principal investigators (PI). Should the relevant PI be unavailable, please contact BCO-DMO (info@bco-dmo.org) for additional guidance. For general guidance please see the BCO-DMO Terms of Use document.

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Funded by the U.S. National Science Foundation