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

Layden MJ, Rentzsch F, Röttinger E. The rise of the starlet sea anemone Nematostella vectensis as a model system to investigate development and regeneration. Wiley Interdiscip Rev Dev Biol. 2016 Feb 19;. PMID: 26894563

Phanse S, Wan C, Borgeson B, Tu F, Drew K, Clark G, Xiong X, Kagan O, Kwan J, Bezginov A, Chessman K, Pal S, Cromar G, Papoulas O, Ni Z, Boutz DR, Stoilova S, Havugimana PC, Guo X, Malty RH, Sarov M, Greenblatt J, Babu M, Derry WB, Tillier ER, Wallingford JB, Parkinson J, Marcotte EM, Emili A. Proteome-wide dataset supporting the study of ancient metazoan macromolecular complexes. Data Brief. 2016 Mar;6:715-21. PMID: 26870755

Maas AE, Jones IT, Reitzel AM, Tarrant AM. Daily cycle in oxygen consumption by the sea anemone Nematostella vectensis Stephenson. Biol Open. 2016 Jan 15;5(2):161-4. PMID: 26772201

Song X, Du J, Zhu W, Jin P, Ma F. Identification and characterization of an apoptosis-stimulating protein of p53 (ASPP) gene from Branchiostoma belcheri: Insights into evolution of ASPP gene family. Fish Shellfish Immunol. 2016 Feb;49:268-74. PMID: 26747639

Amiel AR, Johnston HT, Nedoncelle K, Warner JF, Ferreira S, Röttinger E. Characterization of Morphological and Cellular Events Underlying Oral Regeneration in the Sea Anemone, Nematostella vectensis. Int J Mol Sci. 2015 Dec 1;16(12):28449-71. PMID: 26633371

Baker EC, Layden MJ, van Rossum DB, Kamel B, Medina M, Simpson E, Jegla T. Functional Characterization of Cnidarian HCN Channels Points to an Early Evolution of Ih. PLoS One. 2015;10(11):e0142730. PMID: 26555239

Kelava I, Rentzsch F, Technau U. Evolution of eumetazoan nervous systems: insights from cnidarians. Philos Trans R Soc Lond B Biol Sci. 2015 Dec 19;370(1684). PMID: 26554048

Richards GS, Rentzsch F. Regulation of Nematostella neural progenitors by SoxB, Notch and bHLH genes. Development. 2015 Oct 1;142(19):3332-42. PMID: 26443634

Technau U, Schwaiger M. Recent advances in genomics and transcriptomics of cnidarians. Mar Genomics. 2015 Dec;24 Pt 2:131-8. PMID: 26421490

Botman D, Jansson F, Röttinger E, Martindale MQ, de Jong J, Kaandorp JA. Analysis of a spatial gene expression database for sea anemone Nematostella vectensis during early development. BMC Syst Biol. 2015 Sep 24;9:63. PMID: 26400098

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