©2020 Biological and Chemical Oceanography Data Management Office.This project focused on developing molecular tools based on relative gene expression to investigate physiological ecology of Calanus finmarchicus (Calanoida: Copepoda) in the Gulf of Maine. For this project, a custom microarray was developed for this species and tested on field and experimental data. Using RNA-seq technology, a de novo transcriptome was obtained from RNA extracted from different developmental stages of C. finmarchicus from embryo to adult female.
Datasets generated through this project were deposited at NCBI (www.ncbi.nlm.nih.gov) in 5 separate NCBI BioProjects:
Dataset Related References:
Lenz, P.H., Roncalli, V., Hassett, R.P., Wu, L.-S., Cieslak, M.C., Hartline, D.K. and Christie, A.E. (2014) De novo assembly of a transcriptome for Calanus finmarchicus (Crustacea, Copepoda) – the dominant zooplankter of the North Atlantic Ocean. Plos One 9: e885389 DOI: 10.1371/journal.pone.0088589)
Roncalli, V., Cieslak, M.C., Lenz, P.H. Transcriptomic responses of the calanoid copepod Calanus finmarchicus to the saxitoxin producing dinoflagellate Alexandrium fundyense. Scientific Reports 6, Article number: 25708 (2016) doi:10.1038/srep25708.
Roncalli V., Cieslak M.C., Lenz P.H. (2016) Data from: Transcriptomic responses of the calanoid copepod Calanus finmarchicus to the saxitoxin producing dinoflagellate Alexandrium fundyense. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.11978
Roncalli, V., Jungbluth, M.J., Lenz, P.H. (2016). Glutathione S-transferase regulation in Calanus finmarchicus feeding on the toxic dinoflagellate Alexandrium fundyense. PloS One, 11(7): e0159563.
Roncalli, V., Turner, J.T., Kulis, D., Anderson, D.M., Lenz, P.H. (2016). The effect of the toxic dinoflagellate Alexandrium fundyense on the fitness of the calanoid copepod Calanus finmarchicus. Harmful Algae, 51: 56-66
Roncalli, V., Lenz, P.H., Cieslak, M.C., Hartline, D.K. (2017). Complementary mechanisms for neurotoxin resistance in a copepod. Scientific Reports, 2017; 7: 14201, doi: 10.1038/s41598-017-14545-z
Methodology References:
Microarray
Lenz, P.H., Unal, E., Hassett, R.P., Smith, C.M., Bucklin, A., Christie, A.E. and Towle, D.W. (2012) Functional genomics resources for the North Atlantic copepod, Calanus finmarchicus: EST database and physiological microarray. Comparative Biochemistry Physiology Part D, Genomics & Proteomics, 7:110-123
Unal, E., Bucklin, A., Lenz, P.H. and Towle, D.W. (2013) Gene expression of the marine copepod Calanus finmarchicus: Responses to small-scale environmental variation in the Gulf of Maine (NW Atlantic Ocean). Journal of Experimental and Marine Biology and Ecology, 446:76-85
Gene discovery studies using C. finmarchicus transcriptome:
Christie, A.E., Fontanilla, T.M., Nesbit, K.T. and Lenz, P.H. (2013) Prediction of the protein components of a putative Calanus finmarchicus (Crustacea, Copepoda) circadian signaling system using a de novo assembled transcriptome. Comparative Biochemistry and Physiology Part D, Genomics & Proteomics, 8:165-193
Christie, A.E., Roncalli, V., Wu, L.-S., Garrote, C.L., Doak, T. and Lenz, P.H. (2013) Peptidergic signaling in Calanus finmarchicus (Crustacea: Copepoda): in silico identification of putative peptide hormones and their receptors using a de novo assembled transcriptome. General and Comparative Endocrinology, 187:117-135
Christie, A.E., Roncalli, V., Batta Lona, P., McCoole, M.D., King, B.L., Bucklin, A., Hartline, D.K. and Lenz, P.H. (2013) In silico characterization of the insect diapause-associated protein couch potato (CPO) in Calanus finmarchicus (Crustacea: Copepoda). Comparative Biochemistry and Physiology. Part D, Genomics & Proteomics, 8:45-57.
Christie, A.E., Fontanilla, T.M., Roncalli, V., Cieslak, M.C. and Lenz, P.H. (2014) Diffusible gas transmitter signaling in the copepod crustacean Calanus finmarchicus: Identification of the biosynthetic enzymes of nitric oxide (NO), carbon monoxide (CO) and hydrogen sulfide (H2S) using a de novo assembled transcriptome. General and Comparative Endocrinology 202: 76-86
Christie, A.E., Fontanilla, T.M., Roncalli, V., Cieslak, M.C. and Lenz, P.H. (2014) Identification and developmental expression of the enzymes responsible for dopamine, histamine, octopamine and serotonin biosynthesis in the copepod crustacean Calanus finmarchicus. General and Comparative Endocrinology 195: 28-39.
Roncalli, V., Cieslak, M.C., Passamaneck, Y., Christie, A.E., & Lenz, P.H. (2015). Glutathione S-Transferase (GST) Gene diversity in the crustacean Calanus finmarchicus - contributors to cellular detoxification. PloS One, 10(5): e012332.
Lenz, P. H., Christie, A. E. (2017) Links to a microarray and transcriptome for C. finmarchicus in the Gulf of Maine from 2008-2011 (CFINTRANSCRIPT project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version ) Version Date 2017-12-06 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/528312 [access date]
Terms of Use
This dataset is licensed under Creative Commons Attribution 4.0.
If you wish to use this dataset, it is highly recommended that you contact the original principal investigators (PI). Should the relevant PI be unavailable, please contact BCO-DMO (info@bco-dmo.org) for additional guidance. For general guidance please see the BCO-DMO Terms of Use document.