We are analyzing https://link.springer.com/article/10.1007/s00427-004-0401-9.

Title:
The Irx gene family in zebrafish: genomic structure, evolution and initial characterization of irx5b | Discover Developmental Biology
Description:
Genes of the iroquois (Iro/Irx) family are highly conserved from Drosophila to mammals and they have been implicated in a number of developmental processes. In flies, the Iro genes participate in patterning events in the early larva and in imaginal disk specification. In vertebrates, the Irx genes regulate developmental events during gastrulation, nervous system regionalization, activation of proneural genes and organ patterning. The Iro genes in Drosophila and the Irx genes of mammals show a clustered organization in the genome. Flies have a single cluster comprising three genes while mammals have two clusters also having three genes each. Moreover, experimental evidence in flies shows that transcriptional regulatory elements are shared among genes within the Iro cluster, suggesting that the same may be true in vertebrates. To date, the genomic organization of the Irx genes in non-mammalian species has not been studied. In this work, we have isolated the irx5b gene from zebrafish, Danio rerio, and have characterized its expression pattern. Furthermore, we have identified the complete set of Irx genes in two fish species, the zebrafish and pufferfish, Takifugu rubripes, and have determined the genomic organization of these genes. Our analysis indicates that early in fish evolutionary history, the Irx gene clusters have been duplicated and that subsequent events have maintained the clustered organization for some of the genes, while others have been lost. In total there are 11 existing Irx genes in zebrafish and 10 in pufferfish. We propose a new nomenclature for the zebrafish Irx genes based on the analysis of their sequences and their genomic relationships.
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Keywords {🔍}

genes, irx, gene, irxb, zebrafish, google, scholar, pubmed, expression, irxa, cas, article, sequence, iroquois, genomic, fish, development, genome, drosophila, ziro, found, hpf, analysis, family, fig, cluster, gómezskarmeta, dev, cdna, clusters, duplication, structure, mammals, vertebrates, sequences, mammalian, detected, search, proteins, neural, vertebrate, mouse, homeobox, conserved, iro, early, pufferfish, duplicated, similar, performed,

Topics {✒️}

de la calle-mustienes conicyt-csic collaboration grant comparative genomics facultad de ciencias universidad de chile full-length irx5b sequence departamento de biología gómez-skarmeta jl extensive genome-wide analysis diez del corral irx5a begin transcription privacy choices/manage cookies radiation hybrid mapping developing fin bud article feijóo chamber-specific gene expression van de peer related subjects electronic supplementary material irx gene products c-irx2 expression reveals duplication event rendering genome-wide duplication genome duplication event iroquois3 homeobox gene newly identified sequences irx3/irx5 gene pairs tale super-class zebrafish genomic library universidad andrés bello neighbor-joining method newly isolated gene zebrafish iroquois homologues cranial placodes—including nervous system regionalization transcriptional regulatory elements wing imaginal discs hours post-fertilization days post-fertilization bootstrap values higher horizontal lines denote fused toes mutant multiple severe defects molecular phylogenetics based phylogeny inference package pbx-class homeoprotein central nervous system gabino sánchez-pérez homeodomain iroquois proteins iroquois homeodomain proteins

Questions {❓}

Duboule D (1998) Vertebrate Hox gene regulation: clustering and/or colinearity?

Schema {🗺️}

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         headline:The Irx gene family in zebrafish: genomic structure, evolution and initial characterization of irx5b
         description:Genes of the iroquois (Iro/Irx) family are highly conserved from Drosophila to mammals and they have been implicated in a number of developmental processes. In flies, the Iro genes participate in patterning events in the early larva and in imaginal disk specification. In vertebrates, the Irx genes regulate developmental events during gastrulation, nervous system regionalization, activation of proneural genes and organ patterning. The Iro genes in Drosophila and the Irx genes of mammals show a clustered organization in the genome. Flies have a single cluster comprising three genes while mammals have two clusters also having three genes each. Moreover, experimental evidence in flies shows that transcriptional regulatory elements are shared among genes within the Iro cluster, suggesting that the same may be true in vertebrates. To date, the genomic organization of the Irx genes in non-mammalian species has not been studied. In this work, we have isolated the irx5b gene from zebrafish, Danio rerio, and have characterized its expression pattern. Furthermore, we have identified the complete set of Irx genes in two fish species, the zebrafish and pufferfish, Takifugu rubripes, and have determined the genomic organization of these genes. Our analysis indicates that early in fish evolutionary history, the Irx gene clusters have been duplicated and that subsequent events have maintained the clustered organization for some of the genes, while others have been lost. In total there are 11 existing Irx genes in zebrafish and 10 in pufferfish. We propose a new nomenclature for the zebrafish Irx genes based on the analysis of their sequences and their genomic relationships.
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            Gene duplication
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            Cell Biology
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      headline:The Irx gene family in zebrafish: genomic structure, evolution and initial characterization of irx5b
      description:Genes of the iroquois (Iro/Irx) family are highly conserved from Drosophila to mammals and they have been implicated in a number of developmental processes. In flies, the Iro genes participate in patterning events in the early larva and in imaginal disk specification. In vertebrates, the Irx genes regulate developmental events during gastrulation, nervous system regionalization, activation of proneural genes and organ patterning. The Iro genes in Drosophila and the Irx genes of mammals show a clustered organization in the genome. Flies have a single cluster comprising three genes while mammals have two clusters also having three genes each. Moreover, experimental evidence in flies shows that transcriptional regulatory elements are shared among genes within the Iro cluster, suggesting that the same may be true in vertebrates. To date, the genomic organization of the Irx genes in non-mammalian species has not been studied. In this work, we have isolated the irx5b gene from zebrafish, Danio rerio, and have characterized its expression pattern. Furthermore, we have identified the complete set of Irx genes in two fish species, the zebrafish and pufferfish, Takifugu rubripes, and have determined the genomic organization of these genes. Our analysis indicates that early in fish evolutionary history, the Irx gene clusters have been duplicated and that subsequent events have maintained the clustered organization for some of the genes, while others have been lost. In total there are 11 existing Irx genes in zebrafish and 10 in pufferfish. We propose a new nomenclature for the zebrafish Irx genes based on the analysis of their sequences and their genomic relationships.
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         Zebrafish
         Development
         Gene duplication
         Teleost
         Developmental Biology
         Evolutionary Biology
         Zoology
         Animal Genetics and Genomics
         Cell Biology
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      name:Centro Andaluz de Biología del Desarrollo, Universidad Pablo de Olavide, Seville, Spain
      name:Millennium Nucleus in Developmental Biology and Departamento de Biología, Facultad de Ciencias, Universidad de Chile, Santiago, Chile

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