University of Cologne > Biology Department > Dev. Biol. Institute > Panfilio Lab >

Research Group Members Publications Lab News Teaching

Publications

Research Articles | Databases | Commentary and Reports | Public Outreach

For lists of publications search Pubmed for Panfilio-K

, or view at ORCID

.

Automated citation metrics are available through Google Scholar Citations

.

Group members' names are underlined. * Denotes corresponding authorship.

Research articles

[preprint] Larner, W., Thölke da Silva Grego, N., Panfilio, K.A.* Intraspecific microbiome dynamics across the life cycle of the milkweed bug Oncopeltus fasciatus. bioRxiv 2024.10.28.620616

[preprint] Johal, S., Elsayed, R., Panfilio, K.A., Nelson, A.C. Identifying the molecular basis for functional divergence of duplicated SOX factors controlling endoderm formation and left-right patterning in zebrafish. bioRxiv 2024.02.06.579092.

-------------

Mann, K.E., Panfilio, K.A.* 2024. Tissue-level integration overrides gradations of differentiating cell identity in beetle extraembryonic tissue. Cells 13: 1211.

Invited submission, in the special issue "Patterns across Developmental Scales".

Panfilio, K.A.*, Chuva de Sousa Lopes, S.M.* 2022. The extended analogy of extraembryonic development in insects and amniotes. Philos. Trans. R. Soc. Lond. B Biol. Sci. 377: 20210268.

Invited contribution to the theme issue "Extraembryonic tissues: exploring concepts, definitions and functions
across the animal kingdom".

Horn, T., Narov, K.D., Panfilio, K.A.* 2022. Persistent parental RNAi in the beetle Tribolium castaneum involves maternal transmission of long double-stranded RNA. Adv. Genet. 3: 2100064.

September issue cover image caption

.

Featured in "Science in Pictures" (

) and Life Science Research News (

) on
Advanced Science News. Designated as a "top downloaded accessed" article.

Vargas, H.C.M., Panfilio, K.A., Roelofs, D., Rezende, G.L. 2021. Increase in egg resistance to desiccation in springtails correlates with blastodermal cuticle formation: Eco-evolutionary implications for insect terrestrialization. J. Exp. Zool. B Mol. Dev. Evol. 336: 606-619.

In the special issue: "Evolution of eggs, sperm, and fertilization".

Jain, A., Ulman, V., Mukherjee, A., Prakash, M., Cuenca, M.B., Pimpale, L.G., Münster, S., Haase, R., Panfilio, K.A., Jug, F., Grill, S.W., Tomancak, P., and Pavlopoulos, A. 2020. Regionalized tissue fluidization is required for epithelial gap closure during insect gastrulation. Nat. Commun. 11: 5604.

Rotenberg, D., (55 additional authors, including Vargas Jentzsch, I.M. and Panfilio, K.A.), Richards, S. 2020. Genome-enabled insights into the biology of thrips as crop pests. BMC Biol. 18: 142.

Gurska, D., Vargas Jentzsch, I.M., and Panfilio, K.A.* 2020. Unexpected mutual regulation underlies paralogue functional diversification and promotes epithelial tissue maturation in Tribolium. Commun. Biol. 3: 552.

Heger, P., Zheng, W., Rottmann, A., Panfilio, K.A., Wiehe, T. 2020. The genetic factors of bilaterian evolution. eLife 9: e45530.

Sparks, M.E., (55 additional authors, including Panfilio, K.A.), Gundersen-Rindal, D.E. 2020. Brown marmorated stink bug, Halyomorpha halys (Stål), genome: putative underpinnings of polyphagy, insecticide resistance potential and biology of a top worldwide pest. BMC Genomics 21: 227.

Thomas, G.W.C. (77 additional authors, including Panfilio, K.A.), Richards, S. 2020. Gene content evolution in the arthropods. Genome Biol. 21: 15.

Herndon, N., (43 additional authors, including Gurska, D., Horn, T., Seibert, J., Vargas Jentzsch, I.M., Panfilio, K.A.), Bucher, G. 2020. Enhanced genome assembly and a new official gene set for Tribolium castaneum - from a draft to a reference genome. BMC Genomics 21: 47.

Benton, M.A., Frey, N., Nunes da Fonseca, R., von Levetzow, C., Stappert, D., Hakeemi, M.S., Conrads, K.H., Pechmann, M., Panfilio, K.A., Lynch, J.A., and Roth, S. 2019. Fog signaling has diverse roles in epithelial morphogenesis in insects. eLife 8: e47346.

Wilbrandt, J., Misof, B., Panfilio, K.A., Niehuis, O. 2019. Repertoire-wide gene structure analyses: a case study comparing automatically predicted and manually annotated gene models. BMC Genomics 20: 753.

Panfilio, K.A.*, Vargas Jentzsch, I.M., (81 additional authors, including Horn, T., Koelzer, S., Seibert, J.). 2019. Molecular evolutionary trends and feeding ecology diversification in the Hemiptera, anchored by the milkweed bug genome. Genome Biol. 20: 64.

Featured in university press releases in English (at Warwick:

)
and German (from Cologne:

). Given the bugs' feeding ecology
traits make them very photogenic, this study was also highlighted
as the "Image of the Day" at The Scientist (

Armisén, D., (51 additional authors, including Vargas Jentzsch, I.M. and Panfilio, K.A.), Khila, A. 2018. The genome of the water strider Gerris buenoi reveals expansions of gene repertoires associated with adaptations to life on the water. BMC Genomics 19: 832.

Panfilio, K.A.*, and Angelini, D.R. 2018. By land, air, and sea: hemipteran diversity through the genomic lens.
Curr. Opin. Insect Sci. 25: 106-115.

Invited contribution to the annual themed issue "Insect genomics".

Schoville, S.D., (57 additional authors, including Vargas Jentzsch, I.M. and Panfilio, K.A.), Richards, S. 2018.
A model species for agricultural pest genomics: the genome of the Colorado potato beetle, Leptinotarsa decemlineata (Coleoptera: Chrysomelidae). Sci. Rep. 8: 1931.

McKenna, D.D., (65 additional authors, including Vargas Jentzsch, I.M., and Panfilio, K.A.), Richards, S. 2016. Genome of the Asian longhorned beetle (Anoplophora glabripennis), a globally significant invasive species, reveals key functional and evolutionary innovations at the beetle-plant interface. Genome Biol. 17: 227.

Horn, T., and Panfilio, K.A.* 2016. Novel functions for Dorsocross in epithelial morphogenesis in the beetle Tribolium castaneum. Development 143: 3002-3011.

Benoit, J.B., (79 additional authors, including Vargas Jentzsch, I.M., and Panfilio, K.A.), Richards, S. 2016.
Unique features of the bed bug, a global human ectoparasite, identified through genome sequencing.
Nat. Commun. 7: 10165.

Hilbrant, M., Horn, T., Koelzer, S., and Panfilio, K.A.* 2016. The beetle amnion and serosa functionally interact as apposed epithelia. eLife 5: e13834.

Our "striking image" made the journal's home page (screenshot shown here).
Time-lapse movie featured on the Zeiss Microscopy YouTube channel:

Featured as a "recent breakthrough" and "of special interest" in reviews on
holometabolous insect research (

) and extraembryonic development (

Horn, T., Hilbrant, M., and Panfilio, K.A.* 2015. Evolution of epithelial morphogenesis: phenotypic integration across multiple levels of biological organization. Front. Genet. 6: 303.

Invited contribution to the Research Topic, "Evolution of organismal form: from regulatory interactions to
developmental processes and biological patterns".

Schmitt-Engel, C., Schultheis, D., Schwirz, J., Ströhlein, N., Troelenberg, N., Majumdar, U., Dao, Van Anh, Grossmann, D., Richter, T., Tech, M., Dönitz, J., Gerischer, L., Theis, M., Schild, I., Trauner, J., Koniszewski, N.D.B., Küster, E., Kittelmann, S., Hu, Y., Lehmann, S., Siemanowski, J., Ulrich, J., Panfilio, K.A., Schröder, R., Morgenstern, B., Stanke, M., Buchhholz, F., Frasch, M., Roth, S., Wimmer, Ernst A., Schoppmeier, M., Klingler, M., and Bucher, G. 2015. The iBeetle large-scale RNAi screen reveals gene functions for insect development and physiology. Nat. Commun. 6: 7822.

Sachs, L., Chen, Y.-T., Drechsler, A., Lynch, J.A., Panfilio, K.A., Lässig, M., Berg, J., and Roth, S. 2015. Dynamic BMP signaling polarized by Toll patterns the dorsoventral axis in a hemimetabolous insect. eLife 4: e05502.

Koelzer, S., Kölsch, Y., and Panfilio, K.A.*. 2014. Visualizing late insect embryogenesis: Extraembryonic and mesodermal enhancer trap expression in the beetle Tribolium castaneum. PLoS ONE 9: e103967.

Time-lapse embryo movie featured on the Zeiss Microscopy YouTube channel:

Panfilio, K.A.*, Oberhofer, G., and Roth, S. 2013. High plasticity in epithelial morphogenesis during insect dorsal closure. Biol. Open. 2: 1108-1118.

Time-lapse embryo movie featured on the Company of Biologists' YouTube channel:

Ewen-Campen, B., Shaner, N., Panfilio, K.A., Suzuki, Y., Roth, S., and Extavour C.G. 2011. The maternal and early embryonic transcriptome of the milkweed bug Oncopeltus fasciatus. BMC Genomics. 12: 61.

Designated as a "highly accessed" article.

Panfilio, K.A.*, and Roth, S. 2010. Epithelial reorganization events during late extraembryonic development in a hemimetabolous insect. Dev. Biol. 340: 100-115.

Panfilio, K.A.* 2009. Late extraembryonic morphogenesis and its zen-RNAi-induced failure in the milkweed bug Oncopeltus fasciatus. Dev. Biol. 333: 297-311.

Panfilio, K.A.* 2008. Extraembryonic development in insects and the acrobatics of blastokinesis. Dev. Biol. 313: 471-491.

Recommended "further reading" in Scott Gilbert's textbook, Developmental Biology, 9th and 10th editions (2010
and 2013).

Panfilio, K. A.*, and Akam, M. 2007. A comparison of Hox3 and Zen protein coding sequences in taxa that span the Hox3/zen divergence. Dev. Genes Evol. 217: 323-329.

Panfilio, K.A.*, Liu, P.Z., Akam, M., and Kaufman, T.C. 2006. Oncopeltus fasciatus zen is essential for serosal tissue function in katatrepsis. Dev. Biol. 292: 226-243.

Holland, L.Z., Panfilio, K.A., Chastain, R., Schubert, M., Holland, N.D. 2005. Nuclear beta-catenin promotes non-neural ectoderm and posterior cell fates in amphioxus embryos. Dev. Dyn. 233: 1430-1443.

Clark, K., Bender, G., Murray, B.P., Panfilio, K., Cook, S., Davis, R., Murnen, K., Tuan, R.S., Gilbert, S.F. 2001. Evidence for the neural crest origin of turtle plastron bones. Genesis 31: 111-117.

Research databases

Sparks, M., Rhodes, A., Martynov, A., Velamuri, A., Benoit, J.B., Pires Paula, D., Nelson, D.R., Friedrich, M., Holmes, C.J., Robertson, H.M., Rhoades, J., Richards, S., Scanlan, J., Panfilio, K.A., Pick, L., Rosendale, A.J., Wells, J.B., Poelchau, M., Gundersen-Rindal, D.E. 2020. Halyomorpha halys Official Gene Set v1.2. Ag Data Commons (Database), https://doi.org/10.15482/USDA.ADC/1518751.

Vargas Jentzsch, I.M., Hughes, D.S.T., Poelchau, M.F., The O. fasciatus curation community (44 additional authors), Richards, S., and Panfilio, K.A.* 2020. Oncopeltus fasciatus Official Gene Set v1.2. Ag Data Commons (Database), https://doi.org/10.15482/USDA.ADC/1518752.

Vargas Jentzsch, I.M., Kovacova, V., Stueber, K., Koelzer, S., and Panfilio, K.A.* 2019. Oncopeltus fasciatus hybrid genome assembly 1.0. Ag Data Commons (Database), http://dx.doi.org/10.15482/USDA.ADC/1503405.

Vargas Jentzsch, I.M., Hughes, D.S.T., Poelchau, M.F., The O. fasciatus curation community (44 additional authors), Richards, S., and Panfilio, K.A.* 2015. Oncopeltus fasciatus Official Gene Set v1.1. Ag Data Commons (Database), http://dx.doi.org/10.15482/usda.adc/1173142.

Hughes, D.S.T., Koelzer, S., Panfilio, K.A., and Richards, S. 2015. Oncopeltus fasciatus genome annotations v0.5.3. Ag Data Commons (Database), http://dx.doi.org/10.15482/usda.adc/1173237.

Murali, S.C., The i5k genome assembly team (29 additional authors), Han, Y., Richards, S., Worley, K., Muzny, D., Gibbs, R., Koelzer, S., and Panfilio, K.A.* 2015. Oncopeltus fasciatus genome assembly 1.0. Ag Data Commons (Database), http://dx.doi.org/10.15482/usda.adc/1173238.

Benoit, J.B., (57 additional authors, including Panfilio, K.A.), Richards, S. 2015. Cimex lectularius official gene set v1.1. Ag Data Commons (Database), http://dx.doi.org/10.15482/USDA.ADC/1196762.

Commentary and reports

Panfilio, K.A.* 2022. Plasticity in patterning and gestation at the eco-evo-devo interface. Dev. Genes Evol. 232: 49-50.

Editorial on the Review Article, "Germline specification and axis determination in viviparous and oviparous pea aphids: conserved and divergent features".

Panfilio, K.A.* 2019. Genetics and mechanics combine to guide the embryonic gut. Nature 572: 446-447.

News and Views on the Article, "Genetic induction and mechanochemical propagation of a morphogenetic wave".

Panfilio, K.A.*, and Roth, S.* 2013. Development: Getting into the groove, or evolving off the rails? Curr. Biol. 23: R1101-R1103.

Dispatch on the Report "A genetic network conferring canalization to a bistable patterning system in Drosophila".

Chipman, A., Extavour, C., Khila, A., Panfilio, K., Popadic, A., Suzuki, Y. 2012. Oncopeltus fasciatus and Gerris buenoi: two complementary hemipterans for integrative biology research. Genome sequencing white paper.

Roth, S.*, and Panfilio, K.A.* 2012. Development. Making waves for segments. Science 336: 306-307.

Perspective piece on the Report "A segmentation clock with two-segment periodicity in insects".

Lynch, J.A., Panfilio, K.A., da Fonseca, R.N. 2009. As Tribolium matures as a model insect, coleopteran community congregates in Cologne. Dev. Genes Evol. 219: 531-533.
Meeting report from co-organizing the biennial European regional Tribolium beetle meeting.

Public outreach: interviews on the web

Radio interview and audio podcast on how diverse insects' feeding ecologies are reflected in their genomes, based our milkweed bug genome paper, for German National Radio (Deutschlandfunk), daily research news program Forschung Aktuell: "Die Vorlieben der Seidenpflanzen-Wanzen" ("The Preferences of Milkweed Bugs"), April 2019.

Video interview on doing science and the nature of research discoveries, Significant Details Project: "Mama, ich habe ein Insekt umgestülpt" ("Mom, I turned an insect inside out"), May 2013. Recommended via Google+.

Audio interview on the field of evo-devo biology, Brains Matter Podcast: "Hox genes and evolutionary developmental genetics", Dec. 2009.

Page last updated 28 October 2024, K. Panfilio