An anatomy ontology to represent biological knowledge in Dictyostelium discoideum

Gaudet, Pascale; Williams, J.; Fey, Petra; Chisholm, Rex L.

doi:10.1186/1471-2164-9-130

Cited by 39 publications

(42 citation statements)

References 85 publications

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“…During development past the mound stage, to form at first a slug and then a culminant, prestalk cells undertake highly coordinated morphogenetic movements before completing their differentiation into vacuolated stalk cells. These different movement patterns are possible because there are multiple prestalk cell subtypes that yield, by their distinct movement patterns and further cellular differentiation, multiple stalk cell types that are located in different parts of the culminant (Figure 3; Gaudet et al 2008; http://dictybase. org/Dicty_Info/dicty_anatomy_ontology.html).…”

Section: Developmental Markers and Prestalk And Stalk Cell Subtypesmentioning

confidence: 99%

“…The fruiting body is an electron microscopy image (copyright by M. J. Grimson and R. L. Blanton) that is false colored to show the position of the prestalk cells (red), upper cup cells (white), and spore cell precursors (blue). (Gaudet et al 2008; http:/ /dictybase.org/Dicty_Info/dicty_ anatomy_ontology.html). The pstA and pstO cells, respectively, occupy the front and rear halves and are identified by their ability to use different parts of the promoter of the ecmA gene.…”

Section: Developmental Markers and Prestalk And Stalk Cell Subtypesmentioning

confidence: 99%

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Dictyostelium Finds New Roles to Model

Williams

2010

Genetics

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Any established or aspiring model organism must justify itself using two criteria: does the model organism offer experimental advantages not offered by competing systems? And will any discoveries made using the model be of wider relevance? This review addresses these issues for the social amoeba Dictyostelium and highlights some of the organisms more recent applications. These cover a remarkably wide gamut, ranging from sociobiological to medical research with much else in between.

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Section: Developmental Markers and Prestalk And Stalk Cell Subtypesmentioning

confidence: 99%

Section: Developmental Markers and Prestalk And Stalk Cell Subtypesmentioning

confidence: 99%

Dictyostelium Finds New Roles to Model

Williams

2010

Genetics

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“…At the slug stage, the differentiated cells are organized along an anterior-posterior axis, with the anterior zone comprised primarily of prestalk cells; the prespore cells dominate the posterior region. We were interested to determine the roles of ZAK1 and ZAK2 in the spatial regulation of gene expression in the two primary prestalk sub-groups, prestalk A (pstA) and prestalk B (pstB) cells, which are distinguished, respectively, by the expression patterns of ecmA and ecmB (Gaudet et al, 2008;Williams, 2006).…”

Section: Zak1 and Zak2 Regulate Distinct Prestalk Subpopulationsmentioning

confidence: 99%

“…However, the prestalk population is not homogeneous; prestalk A (pstA) and prestalk B (pstB) cell populations are identified by the expression of specific genes. During the commitment to terminal differentiation, the prepore and prestalk precursors differentiate into mature spores and stalk cells (Gaudet et al, 2008;Kimmel and Firtel, 2004;Williams, 2006).…”

Section: Introductionmentioning

confidence: 99%

Combinatorial cell-specific regulation of GSK3 directs cell differentiation and polarity in Dictyostelium

et al. 2011

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SUMMARYIn Dictyostelium, the interaction of secreted cAMP with specific cell surface receptors regulates the activation/de-activation of GSK3, which mediates developmental cell patterning. In addition, Dictyostelium cells polarize in response to extracellular cAMP, although a potential role for GSK3 in this pathway has not been investigated. Previously, we had shown that ZAK1 was an activating tyrosine kinase for GSK3 function in Dictyostelium and we now identify ZAK2 as the other tyrosine kinase in the cAMPactivation pathway for GSK3; no additional family members exist. We also now show that tyrosine phosphorylation/activation of GSK3 by ZAK2 and ZAK1 separately regulate GSK3 in distinct differentiated cell populations, and that ZAK2 acts in both autonomous and non-autonomous pathways to regulate these cell-type differentiations. Finally, we demonstrate that efficient polarization of Dictyostelium towards cAMP depends on ZAK1-mediated tyrosine phosphorylation of GSK3. Combinatorial regulation of GSK3 by ZAK kinases in Dictyostelium guides cell polarity, directional cell migration and cell differentiation, pathways that extend the complexity of GSK3 signaling throughout the development of Dictyostelium.

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“…Pattern formation in Dictyostelium occurs by the morphogenetic movements of partially differentiated but uncommitted precursor cells (reviewed by Gaudet et al, 2008;Kay and Thompson, 2009). Primary differentiation is either into prestalk cells, the direct precursors of the stalk and the basal disc, or into prespore cells.…”

Section: Introductionmentioning

confidence: 99%

The Dictyostelium prestalk inducer DIF-1 directs phosphorylation of a bZIP transcription factor

et al. 2013

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DIF-1, a chlorinated hexaphenone produced by developing Dictyostelium cells, induces prestalk differentiation. DimB is a bZIP transcription factor that accumulates in the nucleus upon exposure to DIF-1, where it directly activates transcription of DIF-responsive genes. The signaling steps upstream of DimB and downstream of DIF-1 are entirely unknown. Analysis by mass spectrometry shows that incubation with DIF-1 rapidly stimulates phosphorylation at several sites in DimB. We characterize the most highly responsive site, S590, which is located very close to the C terminus. A point mutation in this site, S590A, does not inhibit DimB nuclear accumulation in response to DIF. However, this seems likely to reflect functional redundancy with other sites; because a panel of chemical variants on the structure of DIF-1 show a correlation between their potencies as inducers of DimB nuclear accumulation and their potencies as inducers of phosphorylation at S590. Furthermore, the S590A mutant is fully active in mutant rescue of a dimB null strain, arguing against an alternative role in transcriptional activation of target genes. We conclude that i) DIF-1 directs phosphorylation at S590, ii) although it is not essential for nuclear accumulation in response to DIF-1 correlative evidence, based upon a panel of DIF-1 related molecules, suggests that this modification may play a redundant role in the process. iii) We also present evidence that the kinase activity, which phosphorylates S590, is non-nuclear and that this signalling pathway is, in part at least, independent of the DIF-regulated STATc activation pathway.

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An anatomy ontology to represent biological knowledge in Dictyostelium discoideum

Cited by 39 publications

References 85 publications

Dictyostelium Finds New Roles to Model

Dictyostelium Finds New Roles to Model

Combinatorial cell-specific regulation of GSK3 directs cell differentiation and polarity in Dictyostelium

The Dictyostelium prestalk inducer DIF-1 directs phosphorylation of a bZIP transcription factor

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