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  • 1
    Online Resource
    Online Resource
    San Diego :Elsevier Science & Technology,
    Keywords: Nuclear receptors (Biochemistry). ; Electronic books.
    Type of Medium: Online Resource
    Pages: 1 online resource (481 pages)
    Edition: 1st ed.
    ISBN: 9780080537801
    Series Statement: Factsbook Series
    DDC: 572.8
    Language: English
    Note: Front Cover -- THE NUCLEAR RECEPTOR: FactsBook -- Copyright Page -- Contents -- Preface -- Abbreviations -- Glossary -- Section I THE INTRODUCTORY CHAPTERS -- Chapter 1. General organization of nuclear receptors -- Chapter 2. DNA recognition by nuclear receptors -- Chapter 3. Ligand binding -- Chapter 4. Molecular mechanisms of transcriptional regulation -- Chapter 5. RXR subordination in heterodimers -- Chapter 6. Antagonist action -- Chapter 7. Nuclear receptors: platforms for multiple signal integration -- Chapter 8. Deregulation in disease and novel therapeutic targets -- Chapter 9. Genes and evolution -- Chapter 10. Conclusions -- Section II THE NUCLEAR RECEPTORS -- TR (NR1A)* -- RAR(NR1B) -- PPAR(NR1C) -- Rev-erb (NR1D, E and G) -- ROR(NR1F) -- EcR(NR1H1) -- LXR(NR1H2 and 3) -- FXR(NR1H4) -- VDR(NR1I11 -- PXR (NR1I2) -- CAR (NR1I3 and 4) -- DHR96, DAF12(NR1J1) -- HNF4 (NR2A) -- RXR (NR2B) -- TR2, TR4 (NR2C and D) -- TLL (NR2E) -- COUP-TF (NR2F) -- ER (NR3A) -- ERR (NR3B) -- GR(NR3C1) -- MR (NR3C2) -- PR (NR3C3) -- AR (NR3C4) -- NGFIB (NR4A) -- SF-1 and FTZ-Fl (NR5A and B) -- GCNF (NR6A) -- Knirps(NR0A1, 2 and 3) -- Odr-7 (NR0A4) -- DAX1, SHP (NROB) -- Index.
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  • 2
    Keywords: Electronic books
    Description / Table of Contents: Anemonefishes, one of the most popular and recognizable of fishes in the world, are much more than film characters, they are also emerging model organisms for studying the biology, ecology and evolution of coral reef fishes.
    Type of Medium: Online Resource
    Pages: 1 online resource (329 pages)
    ISBN: 9781000770964
    DDC: 597/.72
    Language: English
    Note: Description based on publisher supplied metadata and other sources
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  • 3
    ISSN: 1432-1432
    Keywords: Key words: Adaptation — Amino acid properties — Interleukin-2 — Ka:Ks ratio — Mammals — Molecular clock — Nonsynonymous substitution — Positive selection — Protein evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract. Interleukin-2 (IL-2) is a cytokine involved in induction and regulation of the immune response in mammals. There have been numerous reports about the search for IL-2 in species other than mammals, and recently an IL-2-like gene has been isolated in chicken. Using PCR, we searched for IL-2 gene sequences in a wide variety of mammals, including marsupials and monotremes, as well as in birds. Although we can readily amplify IL-2 gene fragments in placental mammals, no amplification was obtained in other species. This is best explained by very high substitution rates. This suggest that strategies to isolate IL-2 homologous genes outside mammals should involve functional assays, as for the chicken gene, and not hybridization-based techniques. Nonsynonymous substitution rates are especially high in ruminants, due to positive selection acting on regions important in term of structure-function. We suggest that, although globally similar, the immune response of various mammals is not identical, mainly at the level of cytokine-mediated regulations.
    Type of Medium: Electronic Resource
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  • 4
    Electronic Resource
    Electronic Resource
    Springer
    Journal of molecular evolution 44 (1997), S. 595 -604 
    ISSN: 1432-1432
    Keywords: Key words: Thyroid hormone receptors — Thyroid hormones — Gene evolution — Transcription factors — Phylogeny — Amphibians — Metamorphosis
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract. Since thyroid hormones play a pivotal role in amphibian metamorphosis we used PCR to amplify DNA fragments corresponding to a portion of the ligand-binding domain of the thyroid hormone receptor (TR) genes in several neotenic amphibians: the obligatory neotenic members of the family Proteidea the mudpuppy Necturus maculosus and Proteus anguinus as well as two members of the facultative neotenic Ambystoma genus: the axolotl Ambystoma mexicanum and the tiger salamander Ambystoma tigrinum. In addition, we looked for TR genes in the genome of an apode Typhlonectes compressicaudus. TR genes were found in all these species including the obligatory neotenic ones. The PCR fragments obtained encompass both the C and E domains and correspond to α and β genes. Their sequences appear to be normal, suggesting that there is no acceleration of evolutionary rates in the TR genes of neotenic amphibians. This result is not surprising for Ambystomatidae, which are known to respond to T3 (3,3′,5-triiodothyronine) but is not in agreement with biochemical and biological data showing that Proteidea cannot respond to thyroid hormones. Interestingly, by RT-PCR analysis we observed a high expression levels of TRα in gills, intestine, and muscles of Necturus as well as in the liver of Ambystoma mexicanum, whereas TRβ expression was only detected in Ambystoma mexicanum but not in Necturus. Such a differential expression pattern of TRα and TRβ may explain the neoteny in Proteidea. The cloning of thyroid-hormone-receptor gene fragments from these species will allow the molecular study of their failure to undergo metamorphosis.
    Type of Medium: Electronic Resource
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  • 5
    ISSN: 1432-1432
    Keywords: Key words: HMG box — SOX proteins — Sry — Molecular phylogeny
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract. From a database containing the published HMG protein sequences, we constructed an alignment of the HMG box functional domain based on sequence identity. Due to the large number of sequences (more than 250) and the short size of this domain, several data sets were used. This analysis reveals that the HMG box superfamily can be separated into two clearly defined subfamilies: (i) the SOX/MATA/TCF family, which clusters proteins able to bind to specific DNA sequences; and (ii) the HMG/UBF family, which clusters members which bind non specifically to DNA. The appearance and diversification of these subfamilies largely predate the split between the yeast and the metazoan lineages. Particular emphasis was placed on the analysis of the SOX subfamily. For the first time our analysis clearly identified the SOX subfamily as structured in six groups of genes named SOX5/6, SRY, SOX2/3, SOX14, SOX4/22, and SOX9/18. The validity of these gene clusters is confirmed by their functional characteristics and their sequences outside the HMG box. In sharp contrast, there are only a few robust branching patterns inside the UBF/HMG family, probably because of the much more ancient diversification of this family than the diversification of the SOX family. The only consistent groups that can be detected by our analysis are HMG box 1, vertebrate HMG box 2, insect SSRP, and plant HMG. The various UBF boxes cannot be clustered together and their diversification appears to be extremely ancient, probably before the appearance of metazoans.
    Type of Medium: Electronic Resource
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  • 6
    ISSN: 1432-1777
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Type of Medium: Electronic Resource
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  • 7
    Publication Date: 2022-05-25
    Description: Author Posting. © The Author(s), 2018. This is the author's version of the work. It is posted here under a nonexclusive, irrevocable, paid-up, worldwide license granted to WHOI. It is made available for personal use, not for redistribution. The definitive version was published in Journal of Steroid Biochemistry and Molecular Biology 184 (2018): 11-19, doi:10.1016/j.jsbmb.2018.06.014.
    Description: Steroid hormone receptors are important regulators of development and physiology in bilaterian animals, but the role of steroid signaling in cnidarians has been contentious. Cnidarians produce steroids, including A-ring aromatic steroids with a side-chain, but these are probably made through pathways different than the one used by vertebrates to make their A-ring aromatic steroids. Here we present comparative genomic analyses indicating the presence of a previously undescribed nuclear receptor family within medusozoan cnidarians, that we propose to call NR3E. This family predates the diversification of ERR/ER/SR in bilaterians, indicating that the first NR3 evolved in the common ancestor of the placozoan and cnidarian-bilaterian with lineage-specific loss in the anthozoans, even though multiple species in this lineage have been shown to produce aromatic steroids, whose function remain unclear. We discovered serendipitously that a cytoplasmic factor within epidermal cells of transgenic Hydra vulgaris can trigger the nuclear translocation of heterologously expressed human ERα. This led us to hypothesize that aromatic steroids may also be present in the medusozoan cnidarian lineage, which includes Hydra, and may explain the translocation of human ERα. Docking experiments with paraestrol A, a cnidarian A-ring aromatic steroid, into the ligand-binding pocket of Hydra NR3E indicates that, if an aromatic steroid is indeed the true ligand, which remains to be demonstrated, it would bind to the pocket through a partially distinct mechanism from the manner in which estradiol binds to vertebrate ER.
    Description: KK is supported by grant from Japan Society for the Promotion of Science (JSPS 17K07420). I.M.L.B and Y.C. acknowledge the support and the use of resources of the French Infrastructure for Integrated Structural Biology FRISBI ANR-10-INBS-05 and of Instruct-ERIC. AMR was supported by NIH Award R15GM114740. AMT was supported by an Internal Research and Development Award from the Woods Hole Oceanographic Institution.
    Keywords: A-ring aromatic steroid ; Aromatization ; Steroid receptor ; Cnidarian
    Repository Name: Woods Hole Open Access Server
    Type: Preprint
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  • 8
    Publication Date: 2022-05-26
    Description: © 2008 Nature Publishing Group. This article is distributed under the terms of the Creative Commons Attribution-Noncommercial-Share Alike license. The definitive version was published in Nature Biotechnology 26 (2008): 909-915, doi:10.1038/nbt.1482.
    Description: Plant-parasitic nematodes are major agricultural pests worldwide and novel approaches to control them are sorely needed. We report the draft genome sequence of the root-knot nematode Meloidogyne incognita, a biotrophic parasite of many crops, including tomato, cotton and coffee. Most of the assembled sequence of this asexually reproducing nematode, totaling 86 Mb, exists in pairs of homologous but divergent segments. This suggests that ancient allelic regions in M. incognita are evolving toward effective haploidy, permitting new mechanisms of adaptation. The number and diversity of plant cell wall–degrading enzymes in M. incognita is unprecedented in any animal for which a genome sequence is available, and may derive from multiple horizontal gene transfers from bacterial sources. Our results provide insights into the adaptations required by metazoans to successfully parasitize immunocompetent plants, and open the way for discovering new antiparasitic strategies.
    Description: SCRI laboratory (V.C.B. and J.T.J.) received funding from the Scottish Government. This work benefited from links funded via COST Action 872. G.V.M. and V.L. are supported by ARC, CNRS, EMBO, MENRT and Region Rhone-Alpes. G.V.M., M.R.-R. and V.L. are also funded by the EU Cascade Network of Excellence and the integrated project Crescendo. M.-C.C. is supported by MENRT.
    Repository Name: Woods Hole Open Access Server
    Type: Article
    Format: application/pdf
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  • 9
    Publication Date: 2020-01-02
    Type: Article , PeerReviewed
    Format: text
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