Dataset: Montastrea cavernosa draft genome

Name: Montastrea cavernosa draft genome
Published: 2022-12-07
Keywords: cryptic speciation, adaptation, seascape genomics, depth, reef, oceans

Final 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

Centroid: latitude: 27.88, longitude: -93.83
Temporal Extent: 2014-01-01 - 2014-12-31

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Citations

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

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Dataset: Montastrea cavernosa draft genome

Final 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

Centroid: latitude: 27.88, longitude: -93.83
Temporal Extent: 2014-01-01 - 2014-12-31

XXX

Views

XX

Downloads

X

Citations

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

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

Dataset: Montastrea cavernosa draft genome

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

XXX

XX

X

Files

Related Datasets

Related Publications

Dataset: Montastrea cavernosa draft genome

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

XXX

XX

X

Files

Related Datasets

Related Publications

Dataset: Montastrea cavernosa draft genome

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

Metadata

XXX

XX

X

Files

Related Datasets

Related Publications

Dataset: Montastrea cavernosa draft genome

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

Metadata

XXX

XX

X

Files

Related Datasets

Related Publications