Journal
NUCLEIC ACIDS RESEARCH
Volume 48, Issue D1, Pages D668-D675Publisher
OXFORD UNIV PRESS
DOI: 10.1093/nar/gkz955
Keywords
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Categories
Funding
- CNRS [UMR5237]
- Agence Nationale de la Recherche [ANR-13BSV2-0011-01, ANR-10-BINF-0103, ANR-10-LABX-54, ANR-10-IDEX0001-02, ANR-16CE92-0019, ANR-11-INBS-0013, ANR-11-EQPX0029]
- National Science Foundation [1542597, 1656571]
- JSPS KAKENHI [16H06279]
- MEXT KAKENHI [221S0002]
- JSPS [24870019, 26840079, 18K06256, 26650079, 15H04377, 16K14735, 17KT0023, 19H03234]
- Inamori Foundation
- Kato Memorial Research Foundation
- Sumitomo Foundation
- Japan Foundation forApplied Enzymology
- Division Of Integrative Organismal Systems
- Direct For Biological Sciences [1656571] Funding Source: National Science Foundation
- Grants-in-Aid for Scientific Research [24870019, 17KT0023, 26650079, 19H03234, 16K14735, 15H04377, 26840079, 18K06256] Funding Source: KAKEN
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ANISEED (https://www.aniseed.cnrs.fr) is the main model organism database for the worldwide community of scientists working on tunicates, the vertebrate sister-group. Information provided for each species includes functionally-annotated gene and transcriptmodels with orthology relationships within tunicates, and with echinoderms, cephalochordates and vertebrates. Beyond genes the system describes other genetic elements, including repeated elements and cis-regulatory modules. Gene expression profiles for several thousand genes are formalized in both wild-type and experimentally-manipulated conditions, using formal anatomical ontologies. These data can be explored through three complementary types of browsers, each offering a different viewpoint. A developmental browser summarizes the information in a gene- or territory-centric manner. Advanced genomic browsers integrate the genetic features surrounding genes or gene sets within a species. A Genomicus synteny browser explores the conservation of local gene order across deuterostome. This new release covers an extended taxonomic range of 14 species, including for the first time a non-ascidian species, the appendicularian Oiko-pleura dioica. Functional annotations, provided for each species, were enhanced through a combination of manual curation of gene models and the development of an improved orthology detection pipeline. Finally, gene expression profiles and anatomical territories can be explored in 4D online through the newly developed Morphonet morphogenetic browser.
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