PEER REVIEWED JOURNAL PUBLICATIONS:

Jackson, D.J., Cerveau, N., Posnien, N. (2024). De novo assembly of transcriptomes and differential gene expression analysis using short-read data from emerging model organisms – a brief guide. Frontiers in Zoology. 21, 17.

Simmons, M., Horbelt, N., Sverko, T., Scoppola, E., Jackson, D.J., Harrington, M.J. (2023). Invasive mussels fashion silk-like byssus via mechanical processing of massive horizontally acquired coiled coils. Proceedings of the National Academy of Sciences of the USA120. e2311901120.

Khurshid, B., Lesniewska, E., Polacchi, L., L'Héronde, M., Jackson, D.J., Motreuil, S., Thomas, J., Bardeau, J.-F., Wolf, S.E., Vielzeuf, D., Perrin, J., Marin, F. (2023). In situ mapping of biomineral skeletal proteins by molecular recognition imaging with antibody-functionalized AFM tips. Acta Biomaterialia. 168(15) 198-209.

Khurshid, B., Jackson, D.J., Engilberge, S., Motreuil, Sébastien, B., Cédric, T., Jérôme, I., Françoise, Harrington, M.J., Crowley, P.B., Vielzeuf, D., Perrin, J., Marin, F. (2022). Molecular characterization of accripin11, a soluble shell protein with an acidic C-terminus, identified in the prismatic layer of the Mediterranean fan mussel Pinna nobilis (Bivalvia, Pteriomorphia). FEBS Open Bio. 13(1) 10-25.

Young, A.P., Beach, G.A., Jackson, D.J., Wyeth, R.C. (2022). Tyrosine hydroxylase messenger RNA corroborates protein localization in the nervous system of the pond snail, Lymnaea stagnalis. Invertebrate Biology. 141(2) e12367.

Schäfer, G.G., Pedrini-Martha, V., Jackson, D.J., Dallinger, R., Lieb, B. (2021). The evolution of hemocyanin genes in Tectipleura: a multitude of conserved introns in highly diverse gastropods. BMC Ecology and Evolution 21:36.

Cerveau, N., Jackson, D.J. (2021). A survey of miRNAs involved in biomineralization and shell repair in the freshwater gastropod Lymnaea stagnalis. Discover Materials. 1:7.

Jackson, D.J. (2021). Mantle modularity underlies the plasticity of the molluscan shell: supporting data from Cepaea nemoralis. Frontiers in Genetics 12:622400.

Young, A., Jackson, D.J., Wyeth, R.C. (2020). A technical guide to RNA fluorescence in situ hybridization. PeerJ. 8:e8806.

Affenzeller, S., Wolkenstein, K., Frauendorf, H., Jackson, D.J. (2020). Challenging the concept that eumelanin is the polymorphic brown banded pigment in Cepaea nemoralis. Scientific Reports. 10. 2442.

Davison, A., McDowell, G.S., Holden, J.M., Johnson, H.F., Wade, C.M., Chiba, S., Jackson, D.J., Levin, M., Blaxter, M.L. (2020). Formin, an opinion. Development. 147.

Affenzeller, S., Wolkenstein, K., Frauendorf, H., Jackson, D.J., (2019). Eumelanin and pheomelanin pigmentation in mollusc shells may be less common than expected: insights from mass spectrometry. Frontiers in Zoology 16:47.

Affenzeller, S., Frauendorf, H., Licha, T., Jackson, D.J., Wolkenstein, K., (2019). Quantitation of eumelanin and pheomelanin markers in diverse biological samples by HPLC-UV-MS following solid-phase extraction. PLoS ONE 14, e0223552.

Young, A.P., Landry, C.F., Jackson, D.J., Wyeth, R.C., (2019). Tissue-specific evaluation of suitable reference genes for RT-qPCR in the pond snail, Lymnaea stagnalis. PeerJ 7:e7888 DOI 10.7717/peerj.7888.

Swart, E. M., Davison, A., Ellers, J., Filangieri, R., Jackson, D.J., Mariën, J., van der Ouderaa, I.B.C., Roelofs, D. and Koene, J. M. (2019). Temporal expression profile of an accessory gland protein that is transferred via seminal fluid of a simultaneous hermaphrodite. Journal of Molluscan Studies. 85: 177-183.

Schäfer, G.G., Pedrini-Martha, V., Schnegg, R., Dallinger, R., Jackson, D.J., Lieb, B. (2019). Hemocyanin genes as indicators of habitat shifts in Panpulmonata? Molecular Phylogenetics and Evolution. 130. 99-103.

Affenzeller, S., Cerveau, N., Jackson, D.J. (2018). Identification and validation of reference genes for qPCR in the terrestrial gastropod Cepaea nemoralis. PLoS One. 13(8).

Casella, L.A., He, S., Griesshaber, E., Fernández-Díaz, L., Harper, E.M., Jackson, D.J., Ziegler, A., Mavromatis, V., Dietzel, M., Eisenhauer, A., Brand, U., Schmahl, W., (2018). Assessment of hydrothermal alteration on micro and nano structures of biocarbonates: quantitative statistical grain-area analysis of diagenetic overprint. Biogeosciences.

Herlitze, I., Marie, B., Marin, F., Jackson, D.J. (2018). Molecular modularity and asymmetry of the molluscan mantle revealed by a gene expression atlas. 2018. GigaScience. 7(6): giy056.

Mann, K., Cerveau, N., Gummich, M., Fritz, M., Mann, M., and Jackson, D.J. (2018). In-depth proteomic analyses of Haliotis laevigata (greenlip abalone) nacre and prismatic organic shell matrix. Proteome Science. 16:11.

Adema, C. M. et al (2017). Whole genome analysis of a schistosomiasis-transmitting freshwater snail. Nature Communications. 8 (Article number 15451).

Jackson, D.J., Reim, L., Randow, C., Cerveau, N., Degnan, B. M. and Fleck, C. (2017). Variation in Orthologous Shell-Forming Proteins Contribute to Molluscan Shell Diversity. Molecular Biology and Evolution. msx232.

Germer, J., Cerveau, N., Jackson, D.J. (2017). The Holo-Transcriptome of a Calcified Early Branching Metazoan. Frontiers in Marine Science. 4:81.

Cerveau, N., Jackson, D.J. (2016). Combining independent de novo assemblies optimizes the coding transcriptome for nonconventional model eukaryotic organisms. BMC Bioinformatics 17:525.

Sleight, V.A., Marie, B., Jackson, D.J., Dyrynda, E.A., Marie, A., Clark, M.S. (2016). An Antarctic molluscan biomineralisation tool-kit. Scientific Reports 6: 36978.

How Animals Fabricate Biominerals (2016). Scientia. 109: 83-86. Public outreach article.

Kocot, K.M., Aguilera, F., McDougall, C., Jackson, D.J., Degnan, B.M. (2016). Sea shell diversity and rapidly evolving secretomes: insights into the evolution of biomineralization. Frontiers in Zoology 13, 23.

Hüning, A. K., Lange, S. M., Ramesh, K., Jacob, D. E., Jackson, D.J., Panknin, U., Gutowska, M. A., Philipp, E. E. R., Rosenstiel, P., Lucassen, M., Melzner, F. (2016). A shell regeneration assay to identify biomineralization candidate genes in mytilid mussels. Marine Genomics. 27: 57-67.

Davison, A., McDowell, G.S., Holden, J.M., Johnson, H.F., Koutsovoulos, G.D., Liu, M.M., Hulpiau, P., Van Roy, F., Wade, C.M., Banerjee, R., Yang, F., Chiba, S., Davey, J.W., Jackson, D.J., Levin, M., Blaxter, M.L. (2016). Formin Is Associated with Left-Right Asymmetry in the Pond Snail and the Frog. Current Biology. 26(5):654-660.

Jackson, D. J., Degnan, B.M. (2016). The importance of Evo-Devo to an integrated understanding of molluscan biomineralisation. Journal of Structural Biology. 196(2):67-74.

Jackson, D. J., Herlitze, I., Hohagen, J. (2016). A whole mount in situ hybridization method for the gastropod mollusc Lymnaea stagnalis. JoVE. 109:e53968.

Klionsky et al. Guidelines for the ue and interpretation of assays for monitoring autophagy (3rd edition). (2016) Autophagy. 12(1): 1-222.

Germer, J., Mann, K., Wörheide, G., Jackson, D. J. (2015). The skeleton forming proteome of an early branching metazoan: a molecular survey of the biomineralization components employed by the coralline sponge Vaceletia sp. PLoS One. 10(11).

Basse, W. C., Gutowska, M. A., & Findeisen, U., Stumpp, M., Dupont, S., Jackson, D.J., Himmerkus, N., Melzner, F., Bleich, M. (2015). A sea urchin Na+ K+ 2Cl-cotransporter is involved in the maintenance of calcification-relevant cytoplasmic cords in Strongylocentrotus droebachiensis larvae. Comparative Biochemistry and Physiology, Part A. 187: 184-192.

Jackson, D.J., Mann, K., Häussermann, V., Schilhabel, M., Lüter, C., Griesshaber, E., Schmahl, W., Wörheide, G. (2015). The Magellania venosa biomineralizing proteome: a window into brachiopod shell evolution. Genome Biology and Evolution. 7(5):1349-1362.

Hohagen, J., Herlitze, I., Jackson, D.J. (2015). An optimised whole mount in situ hybridisation protocol for the mollusc Lymnaea stagnalis. BMC Developmental Biology. 15: 19.

Liu, M., Davey, J.W., Jackson, D.J., Blaxter, M. L. and Davison, A. (2014). A conserved set of maternal genes? Insights from a molluscan transcriptome. Journal of Developmental Biology. 58: 501-511.

Le Roy, N., Jackson, D.J., Marie, B., Ramos-Silva P. and Marin, F. (2014). The evolution of metazoan ?-carbonic anhydrases and their roles in calcium carbonate biomineralization. Frontiers in Zoology, 11:75.

Beimforde C., Feldberg K., Nylinder S., Rikkinen J., Tuovila H., Dörfelt H., Gube M., Jackson, D.J., Reitner J., Seyfullah L. J., Schmidt A.R. (2014). Estimating the Phanerozoic history of the Ascomycota lineages: combining fossil and molecular data. Molecular Phylogenetics and Evolution, 78: 86-398.

Mann, K. and Jackson, D.J. (2014). Characterization of the pigmented shell-forming proteome of the common grove snail Cepaea nemoralis. BMC Genomics, 15: 249.

Dawson, T.F., Boone, A.N., Senatore, A., Piticaru, J., Thiyagalingam, S., Jackson, D.J., Davison, A., Spafford, D. J. (2014). Gene splicing of an invertebrate beta subunit (LCav-beta) in the N-terminal and HOOK domains and its regulation of LCav1 and LCav2 calcium channels. PLoS One, 9(4): e92941.

Gaume B., Denis F., Van Wormhoudt A., Huchette S., Jackson, D.J., Avignon S., Auzoux-Bordenave S. (2014). Characterisation and expression of the biomineralising gene Lustrin A during shell formation of the European abalone Haliotis tuberculata. Comparative Biochemistry and Physiology Part B: Biochemistry and Molecular Biology, 169: 1-8.

Jackson, D.J. and Wörheide, G. (2013). Symbiophagy and biomineralization in the "living fossil" Astrosclera willeyana. Autophagy, 10(3): 1-8.

Hohagen J. and Jackson, D.J. (2013). An ancient process in a modern mollusc: early development of the shell in Lymnaea stagnalis. BMC Developmental Biology, 13:27. *For higher resolution versions of the figures in this paper view the online version, not the pdf.

Marie, B., Jackson, D.J., Ramos-Silva, P., Zanella-Cléon, I., Guichard, N., Marin, F. (2012). The shell-forming proteome of Lottia gigantea reveals both deep conservations and lineage specific novelties. FEBS Journal, 280(1): 214-232.

Piskurek, O. and Jackson, D.J. (2012). Transposable Elements: From DNA Parasites to Architects of Metazoan Evolution. Genes. 3(3), 409-422.

Jackson, D. J., Degnan S.M., Degnan B.M. (2012). Variation in rates of early development in Haliotis asinina generate competent larvae of different ages. Frontiers in Zoology. 9:2.

Ohradanova, A., Vullo, D., Pastorekova, S., Pastorek, J., Jackson, D. J., Worheide, G., & Supuran, C. T. (2012). Cloning, characterization and sulfonamide inhibition studies of an α-carbonic anhydrase from the living fossil sponge Astrosclera willeyana. Bioorganic & medicinal chemistry. 20(4):1403-1410.

Ohradanova, A., Vullob, D., Pastorekovaa, S., Pastoreka, J. Jackson, D. J., Wörheided, G., Supuran, C. T. (2011). Anion inhibition studies of an α-carbonic anhydrase from the living fossil Astrosclera willeyana. Bioorganic & Medicinal Chemistry Letters. 22(3): 1314-1316.

Jackson, D.J. (2011). The evolution of an early metazoan biomineralization strategy was supported by a horizontal gene transfer. Mobile Genetic Elements. 1(3):1-5.

Jackson, D.J., Macis, L., Reitner, J., Wörheide, G. (2011). A horizontal gene transfer supported the evolution of an early metazoan biomineralization strategy. BMC Evolutionary Biology. 11:238.

Piskurek, O. and Jackson, D.J. (2011). Tracking the ancestry of a deeply conserved eumetazoan SINE domain. Molecular Biology and Evolution. 28(10):2727-2730.

McDougall C., Green K., Jackson, D.J., Degnan B.M. (2011). Ultrastructure of the mantle of the gastropod Haliotis asinina and mechanisms of shell regionalization. Cells Tissues Organs. 194(2-4):103-107.

Jackson, D.J., Meyer, N. P., Seaver, E., Pang, K., McDougall, C., Moy, V. N., Gordon, K. Degnan, B. M., Martindale, M. Q., Burke, R. D., Peterson, K. J. (2010). Developmental expression of COE across the Metazoa supports a conserved role in neuronal cell-type specification and mesodermal development. Development Genes and Evolution. 220:221-234.

Marie B., Marie A., Jackson, D.J., DuBost, L., Degnan, B. M., Milet, C., Marin, F. (2010). Proteomic analysis of the calcified organic matrix of the tropical abalone Haliotis asinina shell. Proteome Science. 8:54.

Srivastava, M. et al. (2010). The Amphimedon queenslandica genome and the evolution of animal complexity. Nature. 466(7307):720-726.

Pick, K.S., Philippe, H., Schreiber, F., Erpenbeck, Jackson, D.J., Wrede P., Wiens M., Alié, A., Morgenstern, B., Manuel, M., Wörheide, G. (2010). Improved phylogenomic taxon sampling noticeably affects non- bilaterian relationships. Molecular Biology and Evolution. 27:1983-1987.

Jackson, D.J., Thiel, V., Wörheide, G. (2010). An evolutionary fast-track to biocalcification. Geobiology. 8:191-196.

Jackson, D.J., McDougall, C., Woodcroft, B., Moase, P., Rose, R. A., Kube, M., Reinhardt, R., Rokhsar, D. S., Montagnani, C., Joubert, C., Piquemal, D., Degnan, B. M. (2009). Parallel evolution of nacre building gene sets in molluscs. Molecular Biology and Evolution. 27(3):591-608.

Philippe, H., Derelle, R., Lopez, P., Pick, K., Borchiellini, C., Boury-Esnault, N., Vacelet, J., Deniel, E., Houliston, E., Quéinnec, E., Da Silva, C., Wincker, P., Le Guyader, H., Leys, L., Jackson, D.J., Schreiber, F., Erpenbeck, D., Morgenstern, B., Wörheide, G., Manuel, M. (2009). Phylogenomics restores traditional views on deep animal relationships. Current Biology. 19(8):1-7.

Marie, B., Le Roy, N., Marie, A., DuBost, L., Milet, C., Bedouet, L., Becchi, M., Zanella-Cleon, I., Jackson, D.J., Degnan, B.M., Luquet, G., Marin, F. (2009). Nacre evolution: a proteomic approach. Materials Research Society Symposia Proceedings: 1187: 1187-KK01-03.

Williams, E.A., Degnan, B.M., Gunter, H. Jackson, D.J., Woodcroft, B.J. Degnan, S.M. (2009). Widespread transcriptional changes pre-empt the critical pelagic-benthic transition in the vetigastropod Haliotis asinina. Molecular Ecology: 18:1006-1025.

Jackson, D.J., Wörheide, G., Degnan, B.M. (2007). Dynamic expression of ancient and novel molluscan shell genes during ecological transitions. BMC Evolutionary Biology 7:160.

Jackson, D.J., Macis, L., Reitner, J., Degnan, B.M., Wörheide, G. (2007). Sponge paleogenomics reveals an ancient role for carbonic anhydrase in skeletogenesis. Science 316: 1893-1895.

Jackson, D.J.., McDougall, C., Green, K., Simpson, F., Wörheide, G., Degnan, B.M. (2006). A rapidly evolving secretome builds and patterns a sea shell. BMC Biology 4:40.

Jackson, D.J. and Degnan, B.M. (2006). Expressed sequence tag analysis of genes expressed during development of the tropical abalone Haliotis asinina. Journal of Shellfish Research 25(1):225-231.

Rice, T., McGraw, E., O’Brien, E.K., Reverter, T., Jackson, D.J. and Degnan, B.M. (2006). Parasitic castration by the digenian trematode Allopodocotyle sp. alters gene expression in the brain of the host mollusc Haliotis asinina. FEBS letters 580:3769-3774.

Klaus, S., Jackson, D.J., Degnan, B.M., Lieb, B. (2005). Developmental expression of two Haliotis asinina hemocyanin isoforms. Differentiation 73:341-349.

Jackson, D.J., Ellemor, N., Degnan, B.M. (2005). Correlating gene expression with larval competence, and the effect of age and parentage on metamorphosis in the tropical abalone Haliotis asinina. Marine Biology 147(3):681-697.

Jackson, D.J., Leys, S. P., Hinman, V. F., Woods, R., Lavin, M. F., and Degnan, B. M. (2002). Ecological regulation of development: induction of marine invertebrate metamorphosis. International Journal of Developmental Biology. 46:679-686.

Jackson, D.J.., Williams, K., and Degnan, B. M. (2001). Suitability of Australian formulated diets for the aquaculture of the tropical abalone Haliotis asinina Linnaeus. Journal of Shellfish Research. 20:627-636.

Jackson, D.J., and Macmillan, D. L. (2000). Tailflick escape behavior in larval and juvenile lobsters (Homarus americanus) and crayfish (Cherax destructor). Biological Bulletin. 198:307-318.

Drummond, J., Jackson, D.J., and Macmillan, D. L. (1998). The result of evolutionary limb loss on the complement of motor neurons in a crayfish limb nerve revealed by serial homology. Marine and Freshwater Behaviour and Physiology. 31:123-132.


BOOK CHAPTERS

Jackson, D.J.. Origins of the Metazoa (2010). Encyclopedia of Geobiology. Eds. Reitner, J., Thiel, V. Springer.

Wörheide, G., Jackson, D.J. (2010). The evolution of animal biocalcification. Encyclopedia of Geobiology. Eds. Joachim Reitner, Volker Thiel. Springer.

Wörheide, G., Macis, L., Jackson, D.J. & Reitner, J. Characterization of Matrix Proteins in the Coralline Demosponge Astrosclera willeyana Lister 1900. Proceedings of the 9th International Symposium on Biomineralization, Pucon, Chile, December 2007.

MEDIA AND PATENTS