ZFIN Lab: Mabee Lab

ZFIN ID: ZDB-LAB-001106-1

Mabee Lab

PI/Director:	Mabee, Paula M.
Contact Person:	Mabee, Paula M.
Email:	pmabee@usd.edu
URL:	http://www.usd.edu/biol/faculty/mabee/index.html
Address:	Department of Biology University of South Dakota Vermillion, SD 57069 USA
Country:	United States
Phone:	(605) 624-9283
Fax:	(605) 677-6557
Line Designation:	None assigned

GENOMIC FEATURES ORIGINATING FROM THIS LAB No data available

STATEMENT OF RESEARCH INTERESTS

LAB MEMBERS

Crotwell, Patricia Graduate Student

ZEBRAFISH PUBLICATIONS OF LAB MEMBERS

Fernando, P.C., Mabee, P.M., Zeng, E. (2023) Protein-protein interaction network module changes associated with the vertebrate fin-to-limb transition. Scientific Reports. 13:2259422594

Fernando, P.C., Mabee, P.M., Zeng, E. (2020) Integration of anatomy ontology data with protein-protein interaction networks improves the candidate gene prediction accuracy for anatomical entities. BMC Bioinformatics. 21:442

Edmunds, R.C., Su, B., Balhoff, J.P., Eames, B.F., Dahdul, W.M., Lapp, H., Lundberg, J.G., Vision, T.J., Dunham, R.A., Mabee, P.M., Westerfield, M. (2016) Phenoscape: Identifying candidate genes for evolutionary phenotypes. Molecular Biology and Evolution. 33(1):13-24

Haendel, M.A., Balhoff, J.P., Bastian, F.B., Blackburn, D.C., Blake, J.A., Bradford, Y., Comte, A., Dahdul, W.M., Dececchi, T.A., Druzinsky, R.E., Hayamizu, T.F., Ibrahim, N., Lewis, S.E., Mabee, P.M., Niknejad, A., Robinson-Rechavi, M., Sereno, P.C., Mungall, C.J. (2014) Unification of multi-species vertebrate anatomy ontologies for comparative biology in Uberon. Journal of Biomedical Semantics. 5:21

Mabee, P., Balhoff, J.P., Dahdul, W.M., Lapp, H., Midford, P.E., Vision, T.J., and Westerfield, M. (2012) 500,000 fish phenotypes: The new informatics landscape for evolutionary and developmental biology of the vertebrate skeleton. Zeitschrift fur angewandte Ichthyologie = Journal of applied ichthyology. 28(3):300-305

Dahdul, W.M., Balhoff, J.P., Blackburn, D.C., Diehl, A.D., Haendel, M.A., Hall, B.K., Lapp, H., Lundberg, J.G., Mungall, C.J., Ringwald, M., Segerdell, E., Van Slyke, C.E., Vickaryous, M.K., Westerfield, M., and Mabee, P.M. (2012) A unified anatomy ontology of the vertebrate skeletal system. PLoS One. 7(12):e51070

Dahdul, W.M., Lundberg, J.G., Midford, P.E., Balhoff, J.P., Lapp, H., Vision, T.J., Haendel, M.A., Westerfield, M., and Mabee, P.M. (2010) The teleost anatomy ontology: anatomical representation for the genomics age. Systematic biology. 59(4):369-383

Dahdul, W.M., Balhoff, J.P., Engeman, J., Grande, T., Hilton, E.J., Kothari, C., Lapp, H., Lundberg, J.G., Midford, P.E., Vision, T.J., Westerfield, M., and Mabee, P.M. (2010) Evolutionary characters, phenotypes and ontologies: curating data from the systematic biology literature. PLoS One. 5(5):e10708

Crotwell, P.L., and Mabee, P.M. (2007) Gene expression patterns underlying proximal-distal skeletal segmentation in late-stage zebrafish, Danio rerio. Developmental Dynamics : an official publication of the American Association of Anatomists. 236(11):3111-3128

Mabee, P.M., Arratia, G., Coburn, M., Haendel, M., Hilton, E.J., Lundberg, J.G., Mayden, R.L., Rios, N., and Westerfield, M. (2007) Connecting evolutionary morphology to genomics using ontologies: a case study from Cypriniformes including zebrafish. Journal of experimental zoology. Part B, Molecular and developmental evolution. 308(5):655-668

Mabee, P.M., Ashburner, M., Cronk, Q., Gkoutos, G.V., Haendel, M., Segerdell, E., Mungall, C., and Westerfield, M. (2007) Phenotype ontologies: the bridge between genomics and evolution. Trends in Ecology & Evolution. 22(7):345-350

Mabee, P.M., Haendel, M.A., Arratia, G., Coburn, M.M., Hilton, E.J, Lundberg, J.G, Mayden, R.L. (2006) ZFIN Anatomy Working Group: Skeletal System. Manually curated data.

Crotwell, P.L. (2005) Molecular mechanisms underlying skeletal segmentation in the zebrafish, Danio rerio. Ph.D. Thesis. :195p

Crotwell, P.L., Sommervold, A.R., and Mabee, P.M. (2004) Expression of bmp2a and bmp2b in late-stage zebrafish median fin development. Gene expression patterns : GEP. 5(2):291-296

Fisher, S., and Mabee, P.M. (2004) Skeletogenesis in Zebrafish Danio rerio: Evolutionary and Developmental Aspects. In Fish Development and Genetics - the Zebrafish and Medaka Models. Gong, Z. and Korh, V., Eds. Book series of "Molecular Aspects of Fish and Marine Biology". 2

Bird, N.C. and Mabee, P.M. (2003) Developmental morphology of the axial skeleton of the zebrafish, Danio rerio (Ostariophysi: Cyprinidae). Developmental Dynamics : an official publication of the American Association of Anatomists. 228(3):337-357

Mabee, P.M., Crotwell, P.L., Bird, N.C., and Burke, A.C. (2002) Evolution of median fin modules in the axial skeleton of fishes. The Journal of experimental zoology. 294(2):77-90

Crotwell, P.L., Clark, T.G., and Mabee, P.M. (2001) Gdf5 is expressed in the developing skeleton of median fins of late-stage zebrafish, Danio rerio. Development genes and evolution. 211(11):555-558

Mabee, P.M. and Bird, N.C. (2001) A preliminary description of the anatomy and development of the zebrafish axial skeleton. ZFIN Direct Data Submission.

Mabee, P.M., Olmstead, K.L., and Cubbage, C.C. (2000) An experimental study of intraspecific variation, developmental timing, and heterochrony in fishes. Evolution; international journal of organic evolution. 54(6):2091-2106

Cubbage, C.C. and Mabee, P.M. (1996) Development of the cranium and paired fins in the zebrafish Danio rerio (Ostariophysi cyprindae). Journal of morphology. 229:121-160

Collazo, A., Fraser, S.E., and Mabee, P.M. (1994) A dual embryonic origin for vertebrate mechanoreceptors. Science (New York, N.Y.). 264:426-430