Fugu genome is not a good mammalian model

Nature ◽  
1997 ◽  
Vol 385 (6614) ◽  
pp. 305-306 ◽  
Author(s):  
Jonathan Gilley ◽  
Niall Armes ◽  
Mike Fried
Keyword(s):  
Fugu Genome

scholarly journals Fugu Genome Analysis Provides Evidence for a Whole-Genome Duplication Early During the Evolution of Ray-Finned Fishes

2004 ◽  
Vol 21 (6) ◽  
pp. 1146-1151 ◽  
Author(s):  
Alan Christoffels ◽  
Esther G. L. Koh ◽  
Jer-ming Chia ◽  
Sydney Brenner ◽  
Samuel Aparicio ◽  
...  
Keyword(s):  
Genome Analysis ◽  
Whole Genome Duplication ◽  
Genome Duplication ◽  
Whole Genome ◽  
Fugu Genome

scholarly journals The secretin G-protein-coupled receptor family: teleost receptors

2005 ◽  
Vol 34 (3) ◽  
pp. 753-765 ◽  
Author(s):  
J C R Cardoso ◽  
M S Clark ◽  
F A Viera ◽  
P D Bridge ◽  
A Gilles ◽  
...  
Keyword(s):  
Vasoactive Intestinal Peptide ◽  
G Protein ◽  
Strong Support ◽  
Duplicated Genes ◽  
Related Peptide ◽  
Fugu Genome ◽  
The Family ◽  
Genome Consortium ◽  
G Protein Coupled ◽  
Receptor Family

Twenty-one members of the secretin family (family 2) of G-protein-coupled receptors (GPCRs) were identified via directed cloning and data-mining of the Fugu Genome Consortium database, representing the most comprehensive description of secretin GPCRs in a teleost fish to date. Duplicated genes were identified for many of the family members, namely the receptors for pituitary adenylate cyclase-activating polypeptide (PACAP)/vasoactive intestinal peptide (VIP), calcitonin, calcitonin gene-related peptide (CGRP), growth hormone releasing hormone (GHRH), glucagon receptor/glucagon-like peptide (GLP) and parathyroid hormone-related peptide (PTHrP)/PTH. Mining of other teleost genomes (zebrafish and Tetraodon) revealed that the duplicated genes identified in the Takifugu genome were also present in these fish. Additional database searching of the Escherichia coli, yeast, Drosophila, Caenorhabditis elegans and Ciona genomes revealed that the family 2 of GPCRs were only present in the multicellular organisms. Orthologues of all the human secretin receptors were identified with the exception of secretin itself. Additional database searches in the Fugu Genome Consortium database also failed to reveal a secretin ligand and so it is hypothesised that both the receptor and the ligand evolved after the divergence of teleost/tetrapod lineages. Phylogenetic analysis at both the protein and the DNA level provided strong support for each of the individual receptor family groupings, but weak support between groups, making evolutionary inferences difficult. A more critical analysis of the PACAP/VIP receptor family confirmed previous hypotheses that the vasoactive intestinal peptide receptor (VPAC1R) gene is the ancestral form of the receptor.

Identification and analysis of a novel bmp4 enhancer in Fugu genome

2015 ◽  
Vol 60 (4) ◽  
pp. 540-545 ◽  
Author(s):  
Ying Wang ◽  
Lara D. Hutson ◽  
Yiping Chen ◽  
Guoqiang Guan
Keyword(s):  
Fugu Genome

Characterization of the pufferfish (Fugu) genome as a compact model vertebrate genome

Nature ◽  
1993 ◽  
Vol 366 (6452) ◽  
pp. 265-268 ◽  
Author(s):  
S. Brenner ◽  
G. Elgar ◽  
R. Sanford ◽  
A. Macrae ◽  
B. Venkatesh ◽  
...  
Keyword(s):  
Compact Model ◽  
Vertebrate Genome ◽  
Fugu Genome

scholarly journals Repertoire of Protein Kinases Encoded in the Genome ofTakifugu rubripes

2012 ◽  
Vol 2012 ◽  
pp. 1-12 ◽  
Author(s):  
R. Rakshambikai ◽  
S. Yamunadevi ◽  
K. Anamika ◽  
N. Tyagi ◽  
N. Srinivasan
Keyword(s):  
Protein Kinases ◽  
Mapk Pathway ◽  
Model Organism ◽  
Takifugu Rubripes ◽  
Group Level ◽  
Putative Protein ◽  
Signaling Mechanisms ◽  
Fugu Genome ◽  
Number Of Genes ◽  
Unique Domain

Takifugu rubripesis teleost fish widely used in comparative genomics to understand the human system better due to its similarities both in number of genes and structure of genes. In this work we survey the fugu genome, and, using sensitive computational approaches, we identify the repertoire of putative protein kinases and classify them into groups and subfamilies. The fugu genome encodes 519 protein kinase-like sequences and this number of putative protein kinases is comparable closely to that of human. However, in spite of its similarities to human kinases at the group level, there are differences at the subfamily level as noted in the case of KIS and DYRK subfamilies which contribute to differences which are specific to the adaptation of the organism. Also, certain unique domain combination of galectin domain and YkA domain suggests alternate mechanisms for immune response and binding to lipoproteins. Lastly, an overall similarity with the MAPK pathway of humans suggests its importance to understand signaling mechanisms in humans. Overall the fugu serves as a good model organism to understand roles of human kinases as far as kinases such as LRRK and IRAK and their associated pathways are concerned.

scholarly journals Fugu genome rough draft completed

2001 ◽  
Vol 2 ◽  
pp. spotlight-20011030-02
Author(s):  
Tudor Toma
Keyword(s):  
Fugu Genome ◽  
Rough Draft

scholarly journals How good a model is the Fugu genome?

Nature ◽  
1997 ◽  
Vol 387 (6629) ◽  
pp. 140-140 ◽  
Author(s):  
Samuel Aparicio ◽  
Sydney Brenner
Keyword(s):  
Fugu Genome

Differential expression of Na+-Cl− cotransporter and Na+-K+-Cl− cotransporter 2 in the distal nephrons of euryhaline and seawater pufferfishes

2011 ◽  
Vol 300 (2) ◽  
pp. R284-R297 ◽  
Author(s):  
Akira Kato ◽  
Takayuki Muro ◽  
Yuuri Kimura ◽  
Shanshan Li ◽  
Zinia Islam ◽  
...  
Keyword(s):  
Expression Profiles ◽  
Collecting Duct ◽  
Takifugu Rubripes ◽  
Thick Ascending Limb ◽  
Apical Surface ◽  
Distal Nephron ◽  
Fugu Genome ◽  
Collecting Ducts ◽  
Distal Tubules ◽  
High Concentrations

The process of NaCl reabsorption in the distal nephron allows freshwater fishes to excrete hypotonic urine and seawater fishes to excrete urine containing high concentrations of divalent ions; the relevant transporters, however, have not yet been identified. In the mammalian distal nephron, NaCl absorption is mediated by Na+-K+-Cl− cotransporter 2 (NKCC2, Slc12a1) in the thick ascending limb, Na+-Cl− cotransporter (NCC, Slc12a3) in the distal convoluted tubule, and epithelial sodium channel (ENaC) in the collecting duct. In this study, we compared the expression profiles of these proteins in the kidneys of euryhaline and seawater pufferfishes. Mining the fugu genome identified one NKCC2 gene and one NCC gene, but no ENaC gene. RT-PCR and in situ hybridization analyses demonstrated that NKCC2 was highly expressed in the distal tubules and NCC was highly expressed in the collecting ducts of euryhaline pufferfish (mefugu, Takifugu obscurus ). On the other hand, the kidney of seawater pufferfish (torafugu, Takifugu rubripes ), which lacked distal tubules, expressed very low levels of NCC, and, in the collecting ducts, high levels of NKCC2. Acclimation of mefugu to seawater resulted in a 2.7× decrease in NCC expression, whereas NKCC2 expression was not markedly affected. Additionally, internalization of NCC from the apical surface of the collecting ducts was observed. These results suggest that NaCl reabsorption in the distal nephron of the fish kidney is mediated by NCC and NKCC2 in freshwater and by NKCC2 in seawater.

scholarly journals Fugu genome does not contain mitochondrial pseudogenes

Genomics ◽  
2006 ◽  
Vol 87 (2) ◽  
pp. 307-310 ◽  
Author(s):  
Byrappa Venkatesh ◽  
Nidhi Dandona ◽  
Sydney Brenner
Keyword(s):  
Fugu Genome

scholarly journals Data mining the p53 pathway in the Fugu genome: evidence for strong conservation of the apoptotic pathway

Oncogene ◽  
2003 ◽  
Vol 22 (32) ◽  
pp. 5082-5090 ◽  
Author(s):  
Morgane Le Bras ◽  
Karim Bensaad ◽  
Thierry Soussi
Keyword(s):  
Data Mining ◽  
Apoptotic Pathway ◽  
P53 Pathway ◽  
Fugu Genome
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