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Dikow, Rebecca B.
Research Data Scientist
Positions
Co-principal Investigator On
Selected Publications
Article
Feng, Shaohong, Stiller, Josefin, Deng, Yuan, Armstrong, Joel, Fang, Qi, Reeve, Andrew Hart, Xie, Duo, Chen, Guangji, Guo, Chunxue, Faircloth, Brant C., Petersen, Bent, Wang, Zongji, Zhou, Qi, Diekhans, Mark, Chen, Wanjun, Andreu-Sánchez, Sergio, Margaryan, Ashot, Howard, Jason Travis, Parent, Carole, Pacheco, George, Sinding, Mikkel-Holger S., Puetz, Lara, Cavill, Emily, Ribeiro, Ângela M., Eckhart, Leopold et al. 2020. "Dense sampling of bird diversity increases power of comparative genomics ." Nature , 587, (7833) 252–257. https://doi.org/10.1038/s41586-020-2873-9 .
2024
Tsuchiya, Mirian T. N., Dikow, Rebecca B., and Cassin-Sackett, Loren. 2020. "First genome sequence of the Gunnison's prairie dog (Cynomys gunnisoni ), a Keystone species and player in the transmission of sylvatic plague ." Genome Biology and Evolution , 12, (5) 618–625. https://doi.org/10.1093/gbe/evaa069 .
2024
Legeai, Fabrice, Santos, Bernardo F., Robin, Stéphanie, Bretaudeau, Anthony, Dikow, Rebecca B., Lemaitre, Claire, Jouan, Véronique, Ravallec, Marc, Drezen, Jean-Michel, Tagu, Denis, Baudat, Frédéric, Gyapay, Gabor, Zhou, Xin, Liu, Shanlin, Webb, Bruce A., Brady, Seán G., and Volkoff, Anne-Nathalie. 2020. "Genomic architecture of endogenous ichnoviruses reveals distinct evolutionary pathways leading to virus domestication in parasitic wasps ." BMC Biology , 18, (1) Article 89. https://doi.org/10.1186/s12915-020-00822-3 .
2024
Borowiec, Marek L., Dikow, Rebecca B., Frandsen, Paul B., McKeeken, Alexander, Valentini, Gabriele, and White, Alexander E. 2022. "Deep learning as a tool for ecology and evolution ." Methods in Ecology and Evolution , https://doi.org/10.1111/2041-210X.13901 .
2022
Kawahara, Akito Y., Storer, Caroline G., Markee, Amanda, Heckenhauer, Jacqueline, Powell, Ashlyn, Plotkin, David, Hotaling, Scott, Cleland, Timothy P., Dikow, Rebecca B., Dikow, Torsten, Kuranishi, Ryoichi B., Messcher, Rebeccah, Pauls, Steffen U., Stewart, Russell J., Tojo, Koji, and Frandsen, Paul B. 2022. "Long-read HiFi sequencing correctly assembles repetitive heavy fibroin silk genes in new moth and caddisfly genomes ." Gigabyte , 2022 1–14. https://doi.org/10.46471/gigabyte.64 .
2022
Deng, Xi‐Ling, Frandsen, Paul B., Dikow, Rebecca B., Favre, Adrien, Shah, Deep Narayan, Shah, Ram Devi Tachamo, Schneider, Julio V., Heckenhauer, Jacqueline, and Pauls, Steffen U. 2022. "The impact of sequencing depth and relatedness of the reference genome in population genomic studies: A case study with two caddisfly species (Trichoptera, Rhyacophilidae, Himalopsyche ) ." Ecology and Evolution , 12, (12). https://doi.org/10.1002/ece3.9583 .
2022
Roa-Varón, Adela, Dikow, Rebecca B., Carnevale, Giorgio, Tornabene, Luke, Baldwin, Carole C., Li, Chenhong, and Hilton, Eric J. 2021. "Confronting Sources of Systematic Error to Resolve Historically Contentious Relationships: A Case Study Using Gadiform Fishes (Teleostei, Paracanthopterygii, Gadiformes) ." Systematic Biology , 70, (4) 739–755. https://doi.org/10.1093/sysbio/syaa095 .
2021
Arias, Carlos F., Dikow, Rebecca B., McMillan, W. Owen, and De Leon, Luis F. 2021. "De Novo Genome Assembly of the Electric Fish Brachyhypopomus occidentalis (Hypopomidae, Gymnotiformes) ." Genome Biology and Evolution , 13, (10). https://doi.org/10.1093/gbe/evab223 .
2021
Olsen, Lindsey K., Heckenhauer, Jacqueline, Sproul, John S., Dikow, Rebecca B., González, Vanessa L., Kweskin, Matthew P., Taylor, Adam M., Wilson, Seth B., Stewart, Russell J., Zhou, Xin, Holzenthal, Ralph, Pauls, Steffen U., and Frandsen, Paul B. 2021. "Draft Genome Assemblies and Annotations of Agrypnia vestita Walker, and Hesperophylax magnus Banks Reveal Substantial Repetitive Element Expansion in Tube Case-Making Caddisflies (Insecta: Trichoptera) ." Genome Biology and Evolution , 13, (3). https://doi.org/10.1093/gbe/evab013 .
2021
Li, Xuankun, Ellis, Emily, Plotkin, David, Imada, Yume, Yago, Masaya, Heckenhauer, Jacqueline, Cleland, Timothy P., Dikow, Rebecca B., Dikow, Torsten, Storer, Caroline G., Kawahara, Akito Y., and Frandsen, Paul B. 2021. "First annotated genome of a mandibulate moth, Neomicropteryx cornuta , generated using PacBio HiFi sequencing ." Genome Biology and Evolution , 13, (10). https://doi.org/10.1093/gbe/evab229 .
2021
Tsuchiya, Mirian T. N., Dikow, Rebecca B., Koepfli, Klaus-Peter, Frandsen, Paul B., Rockwood, Larry L., and Maldonado, Jesús E. 2021. "Whole-Genome Sequencing of Procyonids Reveals Distinct Demographic Histories in Kinkajou (Potos flavus ) and Northern Raccoon (Procyon lotor ) ." Genome Biology and Evolution , 13, (1) Article evaa255–Article evaa255. https://doi.org/10.1093/gbe/evaa255 .
2021
Mandel, Jennifer R., Dikow, Rebecca B., Siniscalchi, Carolina M., Thapa, Ramhari, Watson, Linda E., and Funk, Vicki A. 2019. "A fully resolved backbone phylogeny reveals numerous dispersals and explosive diversifications throughout the history of Asteraceae ." Proceedings of the National Academy of Sciences of the United States of America , 116, (28) 14083–14088. https://doi.org/10.1073/pnas.1903871116 .
2019
Jones, Katy E., Fér, Tomáš, Schmickl, Roswitha E., Dikow, Rebecca B., Funk, Vicki A., Herrando‐Moraira, Sonia, Johnston, Paul R., Kilian, Norbert, Siniscalchi, Carolina M., Susanna, Alfonso, Slovák, Marek, Thapa, Ramhari, Watson, Linda E., and Mandel, Jennifer R. 2019. "An empirical assessment of a single family-wide hybrid capture locus set at multiple evolutionary timescales in Asteraceae ." Applications in Plant Sciences , 7, (10) Article e11295. https://doi.org/10.1002/aps3.11295 .
2019
Ohdera, Aki, Ames, Cheryl L., Dikow, Rebecca B., Kayal, Ehsan, Chiodin, Marta, Busby, Ben, La, Sean, Pirro, Stacy, Collins, Allen G., Medina, Mónica, and Ryan, Joseph F. 2019. "Box, stalked, and upside-down? Draft genomes from diverse jellyfish (Cnidaria, Acraspeda) lineages: Alatina alata (Cubozoa), Calvadosia cruxmelitensis (Staurozoa), and Cassiopea xamachana (Scyphozoa) ." GigaScience , 8, (7). https://doi.org/10.1093/gigascience/giz069 .
2019
Ren, Zhumei, von Dohlen, Carol D., Harris, Aj, Dikow, Rebecca B., Su, Xu, and Wen, Jun. 2019. "Congruent phylogenetic relationships of Melaphidina aphids (Aphididae: Eriosomatinae: Fordini) according to nuclear and mitochondrial DNA data with taxonomic implications on generic limits ." PloS One , 14, (2) 1–10. https://doi.org/10.1371/journal.pone.0213181 .
2019
Edelman, Nathaniel B., Frandsen, Paul B., Miyagi, Michael, Clavijo, Bernardo, Davey, John, Dikow, Rebecca B., Garcia-Accinelli, Gonzalo, Van Belleghem, Steven M., Patterson, Nick, Neafsey, Daniel E., Challis, Richard, Kumar, Sujai, Moreira, Gilson R. P., Salazar, Camilo, Chouteau, Mathieu, Counterman, Brian A., Papa, Riccardo, Blaxter, Mark, Reed, Robert D., Dasmahapatra, Kanchon K., Kronforst, Marcus, Joron, Mathieu, Jiggins, Chris D., McMillan, W. Owen, Di Palma, Federica et al. 2019. "Genomic architecture and introgression shape a butterfly radiation ." Science , 366, (6465) 594– . https://doi.org/10.1126/science.aaw2090 .
2019
Cortes-Rodriguez, Nandadevi, Campana, Michael G., Berry, Lainie, Faegre, Sarah, Derrickson, Scott R., Ha, Renee Robinette, Dikow, Rebecca B., Rutz, Christian, and Fleischer, Robert C. 2019. "Population Genomics and Structure of the Critically Endangered Mariana Crow (Corvus kubaryi ) ." Genes , 10, (3) 187. https://doi.org/10.3390/genes10030187 .
2019
Hawkins, Melissa T. R., Culligan, Ryan R., Frasier, Cynthia L., Dikow, Rebecca B., Hagenson, Ryan, Lei, Runhua, and Louis, Edward E., Jr. 2018. "Genome sequence and population declines in the critically endangered greater bamboo lemur (Prolemur simus) and implications for conservation ." Bmc Genomics , 19 445–445. https://doi.org/10.1186/s12864-018-4841-4 .
2018
Ren, Zhu-Mei, Harris, Aj, Dikow, Rebecca B., Ma, Enbo, Zhong, Yang, and Wen, Jun. 2017. "Another look at the phylogenetic relationships and intercontinental biogeography of eastern Asian – North American Rhus gall aphids (Hemiptera: Aphididae: Eriosomatinae): Evidence from mitogenome sequences via genome skimming ." Molecular phylogenetics and evolution , 117 102–110. https://doi.org/10.1016/j.ympev.2017.05.017 .
2017
Schuettpelz, Eric, Frandsen, Paul, Dikow, Rebecca B., Brown, Abel, Orli, Sylvia S., Peters, Melinda, Metallo, Adam, Funk, Vicki, and Dorr, Laurence J. 2017. "Applications of deep convolutional neural networks to digitized natural history collections ." Biodiversity Data Journal , 5 e21139. https://doi.org/10.3897/BDJ.5.e21139 .
2017
Wen, Jun, Harris, Aj, Ickert-Bond, Stefanie, Dikow, Rebecca B., Wurdack, Kenneth J., and Zimmer, Elizabeth Anne. 2017. "Developing integrative systematics in the informatics and genomic era, and calling for a global Biodiversity Cyberbank ." Journal of Systematics and Evolution , 55, (4) 308–321. https://doi.org/10.1111/jse.12270 .
2017
Dikow, Rebecca B., Frandsen, Paul B., Turcatel, Mauren, and Dikow, Torsten. 2017. "Genomic and transcriptomic resources for assassin flies including the complete genome sequence of Proctacanthus coquilletti (Insecta: Diptera: Asilidae) and 16 representative transcriptomes ." PeerJ , 5 e2951. https://doi.org/10.7717/peerj.2951 .
2017
Mandel, Jennifer R., Barker, Michael S., Bayer, Randall J., Dikow, Rebecca B., Gao, Tian-Gang, Jones, Katy E., Keeley, Sterling, Kilian, Norbert, Ma, Hong, Siniscalchi, Carolina M., Susanna, Alfonso, Thapa, Ramhari, Watson, Linda, and Funk, Vicki Ann. 2017. "The Compositae Tree of Life in the age of phylogenomics ." Journal of Systematics and Evolution , 55, (4) 405–410. https://doi.org/10.1111/jse.12265 .
2017
Nygaard, Sanne, Hu, Haofu, Li, Cai, Schiott, Morten, Chen, Zhensheng, Yang, Zhikai, Xie, Qiaolin, Ma, Chunyu, Deng, Yuan, Dikow, Rebecca B., Rabeling, Christian, Nash, David R., Wcislo, William T., Brady, Seán Gary, Schultz, Ted R., Zhang, Guojie, and Boomsma, Jacobus J. 2016. "Reciprocal genomic evolution in the ant-fungus agricultural symbiosis ." Nature Communications , 7 e12233. https://doi.org/10.1038/ncomms12233 .
2016
Mandel, Jennifer R., Dikow, Rebecca B., and Funk, Vicki Ann. 2015. "Using phylogenomics to resolve mega-families: An example from Compositae ." Journal of Systematics and Evolution , 53, (5) 391–402. https://doi.org/10.1111/jse.12167 .
2015
Mandel, Jennifer R., Dikow, Rebecca B., Funk, Vicki Ann, Masalia, Rishi R., Staton, S. Evan, Kozik, Alex, Michelmore, Richard W., Rieseberg, Loren H., and Burke, John M. 2014. "A Target Enrichment Method for Gathering Phylogenetic Information from Hundreds of Loci: An Example from the Compositae." Applications in Plant Sciences , 2, (2). https://doi.org/10.3732/apps.1300085 .
2014
Callicrate, Taylor, Dikow, Rebecca B., Thomas, James W., Mullikin, James C., Jarvis, Erich D., and Fleischer, Robert C. 2014. "Genomic resources for the endangered Hawaiian honeycreepers." BMC Genomics , 15, (1). https://doi.org/10.1186/1471-2164-15-1098 .
2014
Dikow, Rebecca B. and Smith, William Leo. 2013. "Complete genome sequences provide a case study for the evaluation of gene-tree thinking ." Cladistics , 29, (6) 674–682. https://doi.org/10.1111/cla.12020 .
2013
Dikow, Rebecca B. and Smith, William Leo. 2013. "Genome-level homology and phylogeny of Vibrionaceae (Gammaproteobacteria: Vibrionales) with three new complete genome sequences ." BMC Microbiology , 13 80. https://doi.org/10.1186/1471-2180-13-80 .
2013
Chapter
Wen, Jun, Egan, Ashley N., Dikow, Rebecca B., and Zimmer, Elizabeth Anne. 2015. "Utility of transcriptome sequencing for phylogenetic inference and character evolution ." In Next-generation sequencing in plant systematics . Hörandl, E. and Appelhans, M. S., editors. 51–91. International Association for Plant Taxonomy (IAPT). https://doi.org/10.14630/000003 .
2015
Dataset
Dikow, Rebecca B. 2020. [Dataset] American Women's History Initiative Symposium Project first names . Distributed by The Smithsonian Institution. https://doi.org/10.25573/DATA.13125743.V1 .
2024
Dikow, Rebecca B. 2020. [Dataset] American Women's History Initiative Symposium Project word counts . Distributed by The Smithsonian Institution. https://doi.org/10.25573/DATA.13125734.V1 .
2024
Dikow, Rebecca B. 2020. [Dataset] Augustus and Blast2GO GFF files from: Whole genome sequencing of procyonids reveals distinct demographic histories in kinkajou (Potos flavus) and northern raccoon (Procyon lotor) . Distributed by The Smithsonian Institution. https://doi.org/10.25573/DATA.13239677.V1 .
2024
Dikow, Rebecca. 2020. [Dataset] Cynomys gunnisoni GFF files . Distributed by The Smithsonian Institution. https://doi.org/10.25573/DATA.11529999.V1 .
2024
Dikow, Rebecca. 2020. [Dataset] Cynomys gunnisoni VCF file . Distributed by The Smithsonian Institution. https://doi.org/10.25573/DATA.11529915.V1 .
2024
Dikow, Rebecca B. 2020. [Dataset] Data from AWHI Symposium Funk List Project . Distributed by The Smithsonian Institution. https://doi.org/10.25573/DATA.13125725.V1 .
2024
Dikow, Rebecca. 2020. [Dataset] High resolution JPG images used for masking . Distributed by The Smithsonian Institution. https://doi.org/10.25573/DATA.9922148.V1 .
2024
Dikow, Rebecca. 2020. [Dataset] High resolution ground truth masks . Distributed by The Smithsonian Institution. https://doi.org/10.25573/DATA.9922232.V1 .
2024
Dikow, Rebecca B. 2020. [Dataset] Kinkajou (Potos flavus) Platanus assembly masked using RepeatMasker from: Whole genome sequencing of procyonids reveals distinct demographic histories in kinkajou (Potos flavus) and northern raccoon (Procyon lotor) . Distributed by The Smithsonian Institution. https://doi.org/10.25573/DATA.13239704.V1 .
2024
Dikow, Rebecca B. 2020. [Dataset] Kinkajou (Potos flavus) de novo assembly using ALLPATHS-LG from: Whole genome sequencing of procyonids reveals distinct demographic histories in kinkajou (Potos flavus) and northern raccoon (Procyon lotor) . Distributed by The Smithsonian Institution. https://doi.org/10.25573/DATA.13239698.V1 .
2024
Dikow, Rebecca B. 2020. [Dataset] Kinkajou (Potos flavus) de novo assembly using MaSuRCA from: Whole genome sequencing of procyonids reveals distinct demographic histories in kinkajou (Potos flavus) and northern raccoon (Procyon lotor) . Distributed by The Smithsonian Institution. https://doi.org/10.25573/DATA.13239680.V1 .
2024
Dikow, Rebecca. 2020. [Dataset] Metadata for high resolution masked herbarium images . Distributed by The Smithsonian Institution. https://doi.org/10.25573/DATA.11771004.V1 .
2024
Dikow, Rebecca B. 2020. [Dataset] Nucmer alignments and coordinate files used to generate dotplots from: Whole genome sequencing of procyonids reveals distinct demographic histories in kinkajou (Potos flavus) and northern raccoon (Procyon lotor) . Distributed by The Smithsonian Institution. https://doi.org/10.25573/DATA.13239713.V1 .
2024
Dikow, Rebecca B. 2020. [Dataset] PSMC plot . https://doi.org/10.25573/DATA.13154156.V1 .
2024
Dikow, Rebecca B. 2020. [Dataset] Pseudochromosome Ragout assemblies and ago files from: Whole genome sequencing of procyonids reveals distinct demographic histories in kinkajou (Potos flavus) and northern raccoon (Procyon lotor) . Distributed by The Smithsonian Institution. https://doi.org/10.25573/DATA.13239710.V1 .
2024
Dikow, Rebecca B. 2020. [Dataset] Raccoon (Procyon lotor) Platanus assembly masked using RepeatMasker from: Whole genome sequencing of procyonids reveals distinct demographic histories in kinkajou (Potos flavus) and northern raccoon (Procyon lotor) . Distributed by The Smithsonian Institution. https://doi.org/10.25573/DATA.13239707.V1 .
2024
Dikow, Rebecca B. 2020. [Dataset] Raccoon (Procyon lotor) de novo assembly using ALLPATHS-LG from: Whole genome sequencing of procyonids reveals distinct demographic histories in kinkajou (Potos flavus) and northern raccoon (Procyon lotor) . Distributed by The Smithsonian Institution. https://doi.org/10.25573/DATA.13239701.V1 .
2024
Dikow, Rebecca B. 2020. [Dataset] Raccoon (Procyon lotor) de novo assembly using MaSuRCA from: Whole genome sequencing of procyonids reveals distinct demographic histories in kinkajou (Potos flavus) and northern raccoon (Procyon lotor)Untitled Item . Distributed by The Smithsonian Institution. https://doi.org/10.25573/DATA.13239686.V1 .
2024
Dikow, Rebecca B. 2020. [Dataset] VCF files from: Whole genome sequencing of procyonids reveals distinct demographic histories in kinkajou (Potos flavus) and northern raccoon (Procyon lotor) . Distributed by The Smithsonian Institution. https://doi.org/10.25573/DATA.13239518.V1 .
2024
Dikow, Rebecca B. 2022. [Dataset] Smithsonian Annual Report PDFs . Distributed by Office of the Chief Information Officer. https://doi.org/10.25573/DATA.21136198.V1 .
2022
Dikow, Rebecca B. 2022. [Dataset] Smithsonian Annual Reports JPGs . Distributed by Office of the Chief Information Officer. https://doi.org/10.25573/DATA.21136354.V1 .
2022
Dikow, Rebecca B. and Trizna, Michael. 2022. [Dataset] Smithsonian Annual Reports Text files v2 . Distributed by Office of the Chief Information Officer. https://doi.org/10.25573/DATA.21210338.V2 .
2022
Dikow, Rebecca B. 2022. [Dataset] Smithsonian Annual Reports txt files . Distributed by Office of the Chief Information Officer. https://doi.org/10.25573/DATA.21136252.V1 .
2022
Cortes-Rodriguez, Maria Nandadevi, Campana, Michael G., Berry, Lainie, Faegre, Sarah, Derrickson, Scott R., Ha, Renee Robinette, Dikow, Rebecca B., Rutz, Christian, and Fleischer, Robert C. 2021. [Dataset] Mariana Crow (Corvus kubaryi) genome assembly and annotation . Distributed by The Smithsonian Institution. https://doi.org/10.25573/DATA.13531016.V1 .
2021
Report
Edelman, Nathaniel B., Frandsen, Paul B., Miyagi, Michael, Clavijo, Bernardo, Davey, John, Dikow, Rebecca, García-Accinelli, Gonzalo, Van Belleghem, Steven, Patterson, Nick, Neafsey, Daniel E., Challis, Richard, Kumar, Sujai, Moreira, Gilson, Salazar, Camilo, Chouteau, Mathieu, Counterman, Brian, Papa, Riccardo, Blaxter, Mark, Reed, Robert D., Dasmahapatra, Kanchon, Kronforst, Marcus, Joron, Mathieu, Jiggins, Chris D., McMillan, W. O., Di Palma, Federica et al. 2018. Genomic architecture and introgression shape a butterfly radiation 2018
