Principal Investigator: Joseph F. Ryan (University of Florida)
PeerJ~2016~4~Sasson, D.A. and Ryan, J.F.~doi.org/10.7717/peerj.1846~e1846~~~~The sex lives of ctenophores: the influence of light, body size, and self-fertilization on the reproductive output of the sea walnut, Mnemiopsis leidyi~~~~~~2016-09-06 11:53:12.573~
Molecular biology and evolution~2018~~Babonis LS, DeBiasse MB, Francis WR, Christianson LM, Moss AG, Haddock SH, Martindale MQ, Ryan JF.~~~~~~Integrating embryonic development and evolutionary history to characterize tentacle-specific cell types in a ctenophore.~~~~~~2018-10-31 14:27:41.976~
PeerJ~2018~~Hernandez AM, Ryan JF.~~~~~~Horizontally transferred genes in the ctenophore Mnemiopsis leidyi.~~~~~~2018-10-31 14:27:41.980~
BMC ecology~2018~~Sasson DA, Jacquez AA, Ryan JF.~~~~~~The ctenophore Mnemiopsis leidyi regulates egg production via conspecific communication.~~~~~~2018-10-31 14:27:41.983~
BMC evolutionary biology.~2017~~Sasson DA, Ryan JF.~~~~~~A reconstruction of sexual modes throughout animal evolution.~~~~~~2018-10-31 14:27:41.986~
EvoDevo~2019~~Babonis LS, Ryan JF, Enjolras C, Martindale MQ~~~~~~Genomic analysis of the tryptome reveals molecular mechanisms of gland cell evolution~~~~~~2019-11-06 10:12:58.503~
EvoDevo~2019~~Colgan W, Leanza A, Hwang A, DeBiasse MB, Llosa I, Rodrigues D, Adhikari H, Corona GB, Bock S, Carillo-Perez A, Currie M, Darkoa-Larbi S, Dellal D, Gutow H, Hokama P, Kibby E, Linhart N, Moody S, Naganuma A, Nguyen D, Stanton R, Stark S, Tumey C, Velleca~~~~~~Variable levels of drift in tunicate cardiopharyngeal gene regulatory elements~~~~~~2019-11-06 10:12:58.513~
SystematIc Biology~2018~~DeBiasse MB, Ryan JF.~~~~~~Phylotocol: Promoting transparency and overcoming bias in phylogenetics.~~~~~~2019-11-06 10:12:58.543~
Genome Biology and Evolution~2019~11~Pastrana CC, DeBiasse MB, Ryan JF~10.1093/gbe/evz052~1250~~~~Sponges lack ParaHox genes. Genome biology and evolution~~~~~~2019-11-06 10:12:58.566~
Nucleic Acids Research~2019~~Dardaillon J, Dauga D, Simion P, Faure E, Onuma T, DeBiasse M, Louis A, Naville M, Besnardeau L, Reeves W, Wang K, Fagotto M, Guéroult-Bellone M, Fujiwara S, Dumollard R, Veeman M, Volff JN, Roest Crollius H, Douzery E, Ryan J, Davidson B, Nishida H, Dant~~~~~~ANISEED 2019: 4D exploration of genetic data for an extended range of tunicates~~~~~~2020-08-09 14:12:12.723~
Database~2020~2020~Moreland MT, Nguyen AD, Ryan JF, Baxevanis AD.~10.1093/database/baaa029~~~~~The Mnemiopsis Genome Project Portal: integrating new gene expression resources and improving data visualization.~~~~~~2020-08-09 14:12:12.773~
Genome Biology and Evolution~2020~~DeBiasse MB, Colgan WN, Harris Lu, Davidson B, Ryan JF.~10.1093/gbe/evaa060~~~~~Inferring tunicate relationships and the evolution of the tunicate Hox cluster with the genome of Corella inflata. 2020~~~~~~2020-08-09 14:12:12.783~
Nature Communications~2020~~Kenny NJ, Francis WR, Rivera-Vicéns RE, Juravel K, de Mendoza A, Díez-Vives C, Lister R, Bezares-Calderon L, Grombacher L, Roller M, Barlow LD, Camilli S, Ryan JF, Wörheide G, Hill AL, Riesgo A, Leys S.~10.1038/s41467-020-17397-w~~~~~Tracing animal genomic evolution with the chromosomal-level assembly of the freshwater sponge Ephydatia muelleri.~~~~~~2020-08-09 14:12:12.796~
Genome Biology and Evolution~2020~~Ketchum RN, Smith EG, DeBiasse MB, Vaughan GO, McParland D, Leach WB, Al-Mansoori N, Ryan JF, Burt JA, Reitzel AM.~10.1093/gbe/evaa150~~~~~Population genomic analysis of a sea urchin across an extreme environmental gradient~~~~~~2020-08-09 14:12:12.800~
Frontiers in Cell and Developmental Biology~2021~9~Almazan EMP, Ryan JF, Rouhana L~10.3389/fcell.2021.777951~3334~~~~Regeneration of Planarian Auricles and Reestablishment of Chemotactic Ability~~~~~~2021-12-14 11:01:44.420~
Molecular Biology and Evolution~2018~~Babonis LS, DeBiasse MB, Francis WR, Christianson LM, Moss AG, Haddock SH, Martindale MQ, Ryan JF~10.1093/molbev/msy171~~~~~Integrating embryonic development and evolutionary history to characterize tentacle-specific cell types in a ctenophore~~~~~~2021-12-14 11:01:44.433~
EvoDevo~2019~~Babonis LS, Ryan JF, Enjolras C, Martindale MQ~10.1186/s13227-019-0138-1~~~~~Genomic analysis of the tryptome reveals molecular mechanisms of gland cell evolution~~~~~~2021-12-14 11:01:44.466~
EvoDevo~2019~~Colgan W, Leanza A, Hwang A, DeBiasse MB, Llosa I, Rodrigues D, Adhikari H, Barreto Corona G, Bock S, Carillo-Perez A, Currie M, Darkoa-Larbi S, Dellal D, Gutow H, Hokama P, Kibby E, Linhart N, Moody S, Naganuma A, Nguyen D, Stanton R, Stark S, Tumey C, V~10.1186/s13227-019-0137-2~~~~~Variable levels of drift in tunicate cardiopharyngeal gene regulatory elements~~~~~~2021-12-14 11:01:44.483~
Nucleic Acids Research~2020~~Dardaillon J, Dauga D, Simion P, Faure E, Onuma TA, DeBiasse MB, Louis A, Nitta KR, Naville M, Besnardeau L, Reeves W, Wang K, Fagotto M, Guéroult-Bellone M, Fujiwara S, Dumollard R, Veeman M, Volff JN, Roest Crollius H, Douzery E, Ryan JF, Davidson B, Ni~10.1093/nar/gkz955~~~~~ANISEED 2019: 4D exploration of genetic data for an extended range of tunicates~~~~~~2021-12-14 11:01:44.503~
Genome Biology and Evolution~2020~~DeBiasse MB, Colgan WN, Harris L, Davidson B, Ryan JF~10.1093/gbe/evaa060~~~~~Inferring tunicate relationships and the evolution of the tunicate Hox cluster with the genome of Corella inflata.~~~~~~2021-12-14 11:01:44.506~
Systematic Biology~2019~~DeBiasse MB, Ryan JF~10.1093/sysbio/syy090~~~~~Phylotocol: Promoting transparency and overcoming bias in phylogenetics~~~~~~2021-12-14 11:01:44.520~
PeerJ~2018~~Hernandez AM, Ryan JF~10.7717/peerj.5067~~~~~Horizontally transferred genes in the ctenophore Mnemiopsis leidyi~~~~~~2021-12-14 11:01:44.540~
Systematic Biology~2021~70~Hernandez AM, Ryan JF~10.1093/sysbio/syab027~1200~~~~Six-state Amino Acid Recoding is not an Effective Strategy to Offset the Effects of Compositional Heterogeneity and Saturation in Phylogenetic Analyses~~~~~~2021-12-14 11:01:44.550~
Systematic Biology~2021~~Hernandez AM, Ryan JF~10.1093/sysbio/syab027~~~~~Six-state amino acid recoding is not an effective strategy to offset the effects of compositional heterogeneity and saturation in phylogenetic analyses~~~~~~2021-12-14 11:01:44.566~
Nature communications~2020~~Kenny NJ, Francis WR, Rivera-Vicéns RE, Juravel K, de Mendoza A, Díez-Vives C, Lister R, Bezares-Calderón LA, Grombacher L, Roller M, Barlow LD, Camilli S, Ryan JF, Wörheide G, Hill AL, Riesgo A, Leys SP~10.1038/s41467-020-17397-w~~~~~Tracing animal genomic evolution with the chromosomal-level assembly of the freshwater sponge Ephydatia muelleri~~~~~~2021-12-14 11:01:44.576~
Genome Biology and Evolution~2021~~Medina-Feliciano JG, Pirro S, Garcia-Arraras JE, Mashanov V, Ryan JF~10.3389/fmars.2021.603410~~~~~Draft Genome of the Sea Cucumber Holothuria glaberrima, a model for the study of regeneration~~~~~~2021-12-14 11:01:44.586~
Database~2020~~Moreland RT, Nguyen AD, Ryan JF, Baxevanis AD~10.1093/database/baaa029~~~~~The Mnemiopsis Genome Project Portal: integrating new gene expression resources and improving data visualization~~~~~~2021-12-14 11:01:44.596~
Genome Biology and Evolution~2019~~Pastrana CC, DeBiasse MB, Ryan JF~10.1093/gbe/evz052~~~~~Sponges lack ParaHox genes~~~~~~2021-12-14 11:01:44.620~
BMC Ecology~2018~~Sasson DA, Jacquez AA, Ryan JF~10.1186/s12898-018-0169-9~~~~~The ctenophore Mnemiopsis leidyi regulates egg production via conspecific communication~~~~~~2021-12-14 11:01:44.630~
BMC Evolutionary Biology~2017~~Sasson DA, Ryan JF~10.1186/s12862-017-1071-3~~~~~A reconstruction of sexual modes throughout animal evolution~~~~~~2021-12-14 11:01:44.640~