An echinoderm is any member of the phylum Echinodermata. The adults are recognisable by their radial symmetry, and include starfish, brittle stars, sea urchins, sand dollars, and sea cucumbers, as well as the sea lilies or "stone lilies". Adult echinoderms are found on the sea bed at every ocean depth, from the intertidal zone to the abyssal zone. The phylum contains about 7,000 living species, making it the second-largest grouping of deuterostomes, after the chordates. Echinoderms are the largest entirely marine phylum. The first definitive echinoderms appeared near the start of the Cambrian.
Sea urchins are spiny, globular echinoderms in the class Echinoidea. About 950 species of sea urchin are distributed on the seabeds of every ocean and inhabit every depth zone from the intertidal seashore down to 5,000 meters. The spherical, hard shells (tests) of sea urchins are round and covered in spines. Most urchin spines range in length from 3 to 10 cm, with outliers such as the black sea urchin possessing spines as long as 30 cm (12 in). Sea urchins move slowly, crawling with tube feet, and also propel themselves with their spines. Although algae are the primary diet, sea urchins also eat slow-moving (sessile) animals. Predators that eat sea urchins include a wide variety of fish, starfish, crabs, marine mammals, and humans.
Codon usage bias refers to differences in the frequency of occurrence of synonymous codons in coding DNA. A codon is a series of three nucleotides that encodes a specific amino acid residue in a polypeptide chain or for the termination of translation.
Genome projects are scientific endeavours that ultimately aim to determine the complete genome sequence of an organism and to annotate protein-coding genes and other important genome-encoded features. The genome sequence of an organism includes the collective DNA sequences of each chromosome in the organism. For a bacterium containing a single chromosome, a genome project will aim to map the sequence of that chromosome. For the human species, whose genome includes 22 pairs of autosomes and 2 sex chromosomes, a complete genome sequence will involve 46 separate chromosome sequences.
The recombination-activating genes (RAGs) encode parts of a protein complex that plays important roles in the rearrangement and recombination of the genes encoding immunoglobulin and T cell receptor molecules. There are two recombination-activating genes RAG1 and RAG2, whose cellular expression is restricted to lymphocytes during their developmental stages. The enzymes encoded by these genes, RAG-1 and RAG-2, are essential to the generation of mature B cells and T cells, two types of lymphocyte that are crucial components of the adaptive immune system.
Eric Harris Davidson was an American developmental biologist at the California Institute of Technology. Davidson was best known for his pioneering work on the role of gene regulation in evolution, on embryonic specification and for spearheading the effort to sequence the genome of the purple sea urchin, Strongylocentrotus purpuratus. He devoted a large part of his professional career to developing an understanding of embryogenesis at the genetic level. He wrote many academic works describing his work, including a textbook on early animal development.
In genetics, an isochore is a large region of genomic DNA with a high degree of uniformity in GC content; that is, guanine (G) and cytosine (C) bases. The distribution of bases within a genome is non-random: different regions of the genome have different amounts of G-C base pairs, such that regions can be classified and identified by the proportion of G-C base pairs they contain.
Gretchen Hofmann is professor of ecological physiology of marine organisms at the University of California, Santa Barbara. She holds a B.S. from the University of Wyoming, and an M.S. and Ph.D. from the University of Colorado at Boulder in Environmental, Population and Organismal Biology.
Mucolipin-3 also known as TRPML3 is a protein that in humans is encoded by the MCOLN3 gene. It is a member of the small family of the TRPML channels, a subgroup of the large protein family of TRP ion channels.
Deuterostomia or deuterostomes are bilaterian animals typically characterized by their anus forming before their mouth during embryonic development. The three major clades of extant deuterostomes include chordates, echinoderms and hemichordates.
Skeletogenesis is a key morphogenetic event in the embryonic development of vertebrates and is of equal, although transient, importance in the development of the sea urchin, a marine invertebrate. The larval sea urchin does not resemble its adult form, because the sea urchin is an indirect developer, meaning its larva form must undergo metamorphosis to form the juvenile adult. Here, the focus is on skeletogenesis in the sea urchin species Strongylocentrotus purpuratus, as this species has been most thoroughly studied and characterized.
Stereom is a calcium carbonate material that makes up the internal skeletons found in all echinoderms, both living and fossilized forms. It is a sponge-like porous structure which, in a sea urchin may be 50% by volume living cells, and the rest being a matrix of calcite crystals. The size of openings in stereom varies in different species and in different places within the same organism. When an echinoderm becomes a fossil, microscopic examination is used to reveal the structure and such examination is often an important tool to classify the fossil as an echinoderm or related creature.
A compositional domain in genetics is a region of DNA with a distinct guanine (G) and cytosine (C) G-C and C-G content. The homogeneity of compositional domains is compared to that of the chromosome on which they reside. As such, compositional domains can be homogeneous or nonhomogeneous domains. Compositionally homogeneous domains that are sufficiently long are termed isochores or isochoric domains.
A mosaic protein is a protein that is made up of different protein domains, giving the protein multiple functions. These proteins have quaternary structures, as they are made up of multiple tertiary structured protein domains. Protein domains can combine to form different types of proteins, creating a diversity of proteins. These domains are spread throughout the genome because they are mobile, which is why some domains can be found in a variety of proteins, even though they are seemingly unrelated. This also allows the domains to fold independently, and so they don't become deformed and unfolded in a new environment.
Donna R. Maglott is a staff scientist at the National Center for Biotechnology Information known for her research on large-scale genomics projects, including the mouse genome and development of databases required for genomics research.
Fred Huffman Wilt is an American biologist who was elected a Fellow of the American Association for the Advancement of Science. His research currently includes the endoskeletal spicule of sea urchin embryos, and its biomineralization relative to its cellular and molecular foundation.
Echinobase is a Model Organism Database (MOD). It supports the international research community by providing a centralized, integrated web based resource to access the diverse and rich, functional genomics data of echinoderm evolution, development and gene regulatory networks.
Patricia Jean Johnson is a Professor of Microbiology at University of California, Los Angeles (UCLA). She works on the parasite Trichomonas vaginalis, which is responsible for the most prevalent sexually transmitted infections in the United States, Trichomoniasis. She was elected a member of the National Academy of Sciences (NAS) in 2019.
Cytochrome P450, family 27, also known as CYP27, is a Deuterostome cytochrome P450 monooxygenase family found in human genome. This family belongs to Mitochondrial clan CYPs, which is located in the inner membrane of mitochondria(IMM). There are three members in the human genome, CYP27A1, CYP27B1 and CYP27C1, and an ortholog CYP27F1 in sea urchins, Strongylocentrotus purpuratus.
