StellaBase: Nematostella vectensis Genomics and Transcriptomics Database





New and Noteworthy

Welcome to StellaBase v2.0

Updates relative to StellaBase v1:
(1) A new layout.
(2) An updated BLAST search tool from NCBI.
(3) Implementation of JBrowse for visualizing the alignment of reads or contigs to an assembly.
(4) Addition of 82 new searchable transcriptome assemblies representing 27.2 billion nucleotides of new RNA sequencing data from 3 different geographically isolated populations
(5) A new reference transcriptome assembly that encompasses the previously published ESTs as well as 3.6 billion nucleotides of next generation sequencing data from regenerating adults
Please Contribute: StellaBase is pleased to host transcriptome and genome assemblies from researchers in the Nematostella community. At regular intervals, as new transcriptome assemblies are submitted, a new all-inclusive reference transcriptome will be compiled.
Contact John Finnerty at jrf3@bu.edu with your comments, suggestions, and/or data.

Please Cite: Lubinski TJ, Granger BR, Stefanik DJ, Friedman LE, McAnulty SJ, Schweiker RM, Finnerty JR (2014) A revised StellaBase enables comparative transcriptomic studies on multiple populations, life stages, and environmental conditions in the model cnidarian, Nematostella vectensis. (in review)

About Nematostella vectensis

The starlet sea anemone Nematostella vectensis is a small cnidarian that burrows in the soft sediment of estuarine habitats. Its native range extends along the Atlantic coast of North America, with populations described from Nova Scotia to Louisiana. Introduced populations are known from southeast England and several sites on the west coast of the United States. In the 1992, Hand and Uhlinger advocated Nematostella as a model system for laboratory studies of development. In 1997, the first molecular study of Nematostella was published by Finnerty and Martindale. In 2007, the genome was sequenced by the Joint Genome Institute, and a profusion of papers using Nematostella to study molecular and genomic evolution ensued. More recently, there has been an increasing emphasis on leveraging Nematostella's abundant genetic and phenotypic diversity for microevolutionary studies of stress response and ecotoxicology. See entries for "Nematostella" on PubMed Central and Google Scholar

Nematostella Vectensis in the Latest Literature

Hashimshony T, Feder M, Levin M, Hall BK, Yanai I. Spatiotemporal transcriptomics reveals the evolutionary history of the endoderm germ layer. Nature. 2014 Dec 10;. PMID: 25487147

Leclère L, Rentzsch F. RGM Regulates BMP-Mediated Secondary Axis Formation in the Sea Anemone Nematostella vectensis. Cell Rep. 2014 Dec 3;. PMID: 25482565

Sinigaglia C, Busengdal H, Lerner A, Oliveri P, Rentzsch F. Molecular characterization of the apical organ of the anthozoan Nematostella vectensis. Dev Biol. 2014 Dec 3;. PMID: 25478911

Tarrant AM, Gilmore TD, Reitzel AM, Levy O, Technau U, Martindale MQ. Current directions and future perspectives from the third Nematostella research conference. Zoology (Jena). 2014 Sep 28;. PMID: 25450665

DuBuc TQ, Dattoli A, Babonis LS, Salinas-Saavedra M, Röttinger E, Martindale MQ, Postma M. In vivo imaging of Nematostella vectensis embryogenesis and late development using fluorescent probes. BMC Cell Biol. 2014 Nov 30;15(1):44. PMID: 25433655

Ikmi A, McKinney SA, Delventhal KM, Gibson MC. TALEN and CRISPR/Cas9-mediated genome editing in the early-branching metazoan Nematostella vectensis. Nat Commun. 2014 Nov 24;5:5486. PMID: 25417547

Richards GS, Rentzsch F. Transgenic analysis of a SoxB gene reveals neural progenitor cells in the cnidarian Nematostella vectensis. Development. 2014 Dec 15;141(24):4681-9. PMID: 25395455

Ruiz-Ramos DV, Baums IB. Microsatellite abundance across the Anthozoa and Hydrozoa in the phylum Cnidaria. BMC Genomics. 2014 Oct 27;15:939. PMID: 25346285

Nicosia A, Maggio T, Mazzola S, Gianguzza F, Cuttitta A, Costa S. Characterization of small HSPs from Anemonia viridis reveals insights into molecular evolution of alpha crystallin genes among cnidarians. PLoS One. 2014;9(9):e105908. PMID: 25251681

Peres R, Reitzel AM, Passamaneck Y, Afeche SC, Cipolla-Neto J, Marques AC, Martindale MQ. Developmental and light-entrained expression of melatonin and its relationship to the circadian clock in the sea anemone Nematostella vectensis. Evodevo. 2014;5:26. PMID: 25243057

Nematostella vectensis Genomics & Transcriptomics Database
Created by: Tristan Lubinski, Brian Granger, Jim Sullivan,
Joe Ryan, Adam Reitzel, Rachel Schweiker, and Sarah McAnulty
Comments, Suggestions, or Questions?
     Contact me at CnidTeam@gmail.com