Oct2 transcription factors in fish – a comparative genomic analysis

Lennard, Mara L.; Wilson, Melanie; Miller, Norman W.; Clem, L. William; Warr, Gregory W.; Hikima, Jun-ichi

doi:10.1016/j.fsi.2005.01.011

Cited by 3 publications

(5 citation statements)

References 22 publications

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“…The comparative genomic analysis of the gene encoding the Oct2 transcription factor revealed (as anticipated) that orthologous genes are present throughout the vertebrates and identified an Oct2 gene within three teleost fish species (catfish, zebrafish and Fugu ) (Lennard et al , 2006). These teleost Oct2 genes exhibited a variety of alternatively spliced gene transcripts that all mapped to exons encoding the C‐terminal region of the transcription factor.…”

Section: Comparative Genomics Of the Oct Transcription Factors The Csupporting

confidence: 53%

“…A comparative genomic analysis utilizing these species can be highly informative of both evolutionary history and of structure/function relationships in fish. Comparative genomic analyses of Oct2 and E‐proteins have been previously reported (Hikima et al , 2005 a ; Lennard et al , 2006), and thus in this present review, these prior findings will be briefly summarized and recent developments presented, before more detailed analyses of the Oct1 and BOB.1 genes will be described.…”

Section: Comparative Genomics Of the Oct Transcription Factors The Cmentioning

confidence: 93%

“…Of some interest is the observation that the C‐terminal domain is the region of the Oct2 protein in which much of the transcriptional activation function of the molecule is localized (Ross et al , 1998; Cioffi et al , 2002). Comparison of the genomic analyses to experimental data reported in the catfish revealed that these alternatively spliced transcripts have arisen in a lineage‐specific manner, and that these patterns of alternatively spliced RNA processing are therefore not conserved across the teleost fish that were studied (Lennard et al , 2006). An additional Oct2‐like gene, termed Oct2x, was discovered in the genomes of both the Fugu and zebrafish (Lennard et al , 2006), but it is not known if it encodes a functionally active, expressed Oct2 protein.…”

Section: Comparative Genomics Of the Oct Transcription Factors The Cmentioning

confidence: 99%

“…Since these initial analyses (Hikima et al , 2005 a ; Lennard et al , 2006), additional genomic data have become available for more fish species, permitting novel analyses of Oct1 and BOB.1 genes in the teleost lineage, as well as an expanded and revised analysis of the E‐protein gene family. These results are presented below.…”

Section: Comparative Genomics Of the Oct Transcription Factors The Cmentioning

confidence: 99%

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Comparative genomics of transcription factors driving expression of the immunoglobulin heavy chain locus in teleost fish

Richard

Bengtén

Wilson

et al. 2007

Journal of Fish Biology

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The immunoglobulin heavy chain locus of teleost fish is driven by an enhancer (Eμ3′) that contains, in all species examined, octamer and E‐box motifs (typically μE5). Thus, the transcription factors known (through experiments in fish) or predicted (from knowledge of their mammalian homologues) to be involved in the function of the enhancer are the octamer‐binding (Oct) transcription factors Oct1 and Oct2, their coactivator BOB.1 and the μE5‐binding E‐proteins (E2A, HEB and E2‐2). Comparative genomic analysis of the genes encoding these transcription factors in teleost fish permits some conclusions to be drawn concerning the fate of these genes following the genome‐wide duplication event that occurred in this lineage. Although problems in the assembly of some regions of the zebrafish genome may complicate the analysis, the pattern that emerges from these studies is that Oct1, Oct2, BOB.1 and E2‐2 are all single‐copy genes in teleosts, whereas in the case of E2A and HEB, two copies of each gene are present. The evolutionary conservation of sequences between related genes is variable, but with the highest similarities always being observed in the domains with ligand‐binding function, whether the ligand is a DNA motif or, as in the case of BOB.1, another protein domain. A major challenge that must be faced is the assignment of precise functions to these diverse transcription factors in teleosts; assumptions drawn by inference from their mammalian homologues will likely be misleading.

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Section: Comparative Genomics Of the Oct Transcription Factors The Csupporting

confidence: 53%

Section: Comparative Genomics Of the Oct Transcription Factors The Cmentioning

confidence: 93%

Section: Comparative Genomics Of the Oct Transcription Factors The Cmentioning

confidence: 99%

Section: Comparative Genomics Of the Oct Transcription Factors The Cmentioning

confidence: 99%

See 2 more Smart Citations

Comparative genomics of transcription factors driving expression of the immunoglobulin heavy chain locus in teleost fish

Richard

Bengtén

Wilson

et al. 2007

Journal of Fish Biology

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“…This is consistent with the binding sites of the respective transcription factor homologues being relatively well conserved between fish and mammals. This notion has been corroborated at least in part by the cloning of fish homologues of three Octamer binding transcription factors (Oct1, Oct2a and Oct2b) and three E-box binding proteins (CFEB1, CFEB2 and E2A1) from the channel catfish (Hikima et al, 2005; Lennard et al, 2006; Lennard et al, 2007; Ross et al, 1998). In each case these transcription factors bound nucleotide motifs similar to their mammalian counterparts, and could also reconstitute expression of reporter constructs when co-transfected in otherwise non-permissive cell lines (Hikima et al, 2005; Ross et al, 1998).…”

Section: Resultsmentioning

confidence: 94%

The zebrafish IgH locus contains multiple transcriptional regulatory regions

Danilova

Saunders

Ellestad

et al. 2011

Developmental & Comparative Immunology

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Many fish have, in addition to IgM and IgD, a third isotype called IgZ or IgT. The ζ-chain locus is embedded among the Ig heavy chain V-, D-and J-elements in a manner reminiscent of the TcR δ/ α locus. Isotype selection thus occurs during VDJ recombination, a process that is facilitated by intralocus transcription. Using in silico analyses and enhancer reporter vectors we identified 3 new regions within the zebrafish IgH locus through which transcription can be activated in catfish Bcell lines. Two of these, termed Eζi (Jζ to Cζ1 intronic) and Eζ3′ regions flank the ζ-chain constant domain exons. A third region, Eδ3′, resides downstream of the δ-chain exons. All regions contain predicted binding sites for transcription factors that contribute to B-cell specific transcription in fish and mammals. Each region also has proximal matrix attachment regions, which may further contribute to transcriptional activation and chromatin remodeling. We discuss possible roles for these regions during VDJ recombination.

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