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The zona limitans intrathalamica (ZLI) is a lineage-restriction compartment and primary developmental boundary in the vertebrate forebrain (which is analogous to the human cerebrum) that serves as a signaling center and a restrictive border between the thalamus (also known as the dorsal thalamus) and the prethalamus (ventral thalamus). Sonic hedgehog (shh) signaling from the ZLI is crucial in the development of the diencephalon, which develops into the thalamus, the pretectum, and the anterior tegmental structures [1]. The ZLI together with the prethalamus and thalamus make up the mid-diencephalic territory (MDT) [2].

File:Labeled cichlid forebrain diagram with shh expression.jpg


Cell lineage restriction boundaries, across which replicating cells cannot migrate, were first discovered in invertebrates, where the expression of various Hox genes in each compartment confer the differentiation of observable segments in the adult body of Drosophila melanogaster. Analogous structures were discovered in the developing vertebrate brain. Rhombomeres, which extend down the embryo from the hindbrain, contain clear boundaries and each express various Hox genes that are necessary for differentiation of structures within the body. More anterior regions of the brain were examined in search of other cell lineage restriction boundaries, and multiple potential boundaries continue to be studied (see Developmental Boundaries) [3].


The importance of these compartments as local signaling centers, areas which chemically influence surrounding tissue, was elucidated by first observing differential expression of Hox genes in various compartments and second by observing mutant D. melanogaster and corresponding phenotypic (physical) changes [3].

The ZLI was first discovered in the chick using explant and lineage-labeling experiments. In the explant experiments, cells in the region that will become the ZLI, the prethalamus, and the thalamus in the chick were removed and placed into separate cultures; the cells continued to grow and retained their identity (the ZLI began transcribing shh, whereas the prethalamus and thalamus did not). Necessity of the ZLI and its corresponding shh expression were evidenced by lack of thalamic and prethalamic genetic markers in culture (see Signaling) [4]. These experiments confirmed the ZLI as a signaling center. In lineage-labeling experiments, cells were genetically marked, so that each time a labeled cell replicated, its progeny were marked as well. Cells that were marked in the developing ZLI and their progeny remained restricted to the zone. These experiments demonstrated the ZLI as a cell-lineage restriction boundary [5].

Not only a boundary, the ZLI is also a compartment with separate cell lineage restriction boundaries both anterior and posterior of a section of shh expression. The importance of the ZLI was once more confirmed by ectopic expression of shh in other regions of the forebrain, known as the prosencephalon during development (both the telencephalon and diencephalon), inducing a ZLI-like region that induces thalamic fate [6].

Developmental BoundariesEdit

During development in both vertebrates and invertebrates, cell lineage restriction boundaries and signaling centers are formed in order to ensure proper differentiation of the body. Chemical signals, like shh from the ZLI, are often released from these boundaries and compartments in a concentration gradient (the chemicals are in much higher concentrations closer to the source) and confer identity to flanking regions. Other genes differentially expressed in these flanking regions aid in ensuring proper differentiation (see Signaling).

File:4 week embryo brain.jpg

Many developmental boundaries have been studied: within the forebrain alone, the confirmed cell lineage restriction boundaries are the pallial-subpallial boundary (PSB) dividing the dorsal and ventral telencephalon, the diencephalon-midbrain boundary (DMB) posterior to the ZLI, and the ZLI. The ZLI, like each rhombomere, serves as an independent compartment that confers the identity of diencephalon in anterior and posterior regions. Other developmental boundaries serve as cell-lineage restriction boundaries but not signaling centers, while others are signaling centers to and from which cells can migrate. Despite discoveries of cell lineage restriction boundaries and compartments in the brain, many of the regions studied have been disproven as segmental boundaries. These areas have potential as signaling centers, which have influence over the development of neighboring tissues [3].

These boundaries have great influence over other regions of the brain: the placement of the ZLI not only affects the size of adjacent regions but also the size of the telencephalon. A posterior shift in the ZLI allows more cells to be allocated to the telencephalon. The same is true for other developmental boundaries in the brain and throughout the body: shifts in boundaries responsible for allocating a certain amount of tissue to a certain function result in drastic changes in the adult structure. These boundaries are of crucial importance for proper differentiation.

Prosomeric ModelEdit

The prosomeric model is based on the rhombomeric model, which describes each rhombomere as a neuromere. Continuing with the pattern of naming, in 1993 Luis Puelles and John Rubenstein suggested a model for the development of the forebrain based on prosomeres. Prosomeres are lateral domains developed through differential gene expression necessary for proper differentiation of primary structures in the forebrain, “consisting of the diencephalon, hypothalamus, retina and telencephalon[7]. Each prosomere is further divided into longitudinal subcompartments, which have not yet been as well characterized. The prosomeres correspond with the structures of the developed forebrain structures, from most caudal to most rostral structures. Like many other regions of the vertebrate brain studied, not all of the boundaries of prosomeres are lineage restriction boundaries, and not all are signaling centers.

Further explanation of the ZLI as well as other genetic and morphological findings have resulted in slight changes to the prosomeric model in 2003 by Puelles and Rubenstein. The current prosomeric model lists p1 through p6, where p1, p2, and p3 correspond to the pretectum, thalamus, and prethalamus, respectively; p4, p5, and p6 collectively refer to the telencephalon and hypothalamus, though the exact divisions are unclear. Elucidation of the ZLI as both a cell lineage restriction boundary and as a signaling center led to minor changes in the classification of structures within p2 and p3 [7].

Shown below in the prosomeric model as revised in 1994 by Rubenstein et al, the prosomeres p1 through p6 help to pattern the forebrain, and the ZLI is marked by the spike of shh expression between p2 and p3. Other gene expression patterns (see Signaling) are shown in the model. The rhombomeres are designated r1 through r8 [8].

File:Rubenstein et al 1994 Prosomeric Model.png


Initial Axis PatterningEdit

After gastrulation, the embryo is completely undifferentiated and requires many different cues to initiate proper differentiation of the body. The top (roof plate, on the dorsal side of the embryo) and bottom (floor plate, on the ventral side) play a crucial role in these first steps: each acts through global signaling (signaling throughout the entire embryo) for dorsoventral neural patterning. After completion of the development of the dorsoventral axis, more local signaling occurs in the developing brain: developmental boundaries such as the midbrain-hindbrain boundary (MHB), rhombomeres, and the ZLI aid in anteroposterior organization [4].

Emergence of Shh ExpressionEdit

Shortly after the beginning of dorsoventral patterning, shh is expressed along the basal plate (the bottom) of the embryo, which functions in “ventralization of the neural tube, promotion of growth and proliferation, and formation of the hypothalamus[9]. As the embryo continues to develop, shh expression characteristic of the ZLI extends dorsally to form a wedge that eventually narrows to a strip at approximately 22 somites (the number of developed rhombomeres) or less than one day in zebrafish. Although shh expression extends dorsally from the basal plate, the ZLI is capable of forming even without the basal plate or mesodermal tissue. Shh cooperates with dlx2 and fezl anteriorly and irx3 and dbx1a posteriorly (genes expressed vary among different organisms), which are genes that are expressed in the prethalamus and thalamus, respectively [2].

The ZLI is also characterized by a lack of lunatic fringe (lfng), which is observable even before shh expression is observed in the forming ZLI. This indicates that cells are fated for ZLI formation before induction by shh (n.b. shh signals from the ZLI and is characteristic of the compartment during and after formation). Lfng is expressed very early (soon after gastrulation) in the region that will become the ZLI, but shortly thereafter expression recedes through migration of lfng-expressing cells to form the lfng-free wedge characteristic of the developing ZLI. Shh expression does not extend dorsally until a few hours later [4].


The factors influencing the formation and location of the ZLI are widely studied but still disputed. Differences between different animal models further complicate elucidation of the pathways, specifically between chicks/ mammalian models and zebrafish. Wnt (the family wingless) genes are crucial for the development of the ZLI both directly and indirectly in all animal systems. Along with the role of Wnt genes in patterning the anteroposterior axis through gradient polarization, Wnt8b is expressed within the ZLI itself and may help guide dorsal movement of shh expression [10]. The Wnt polarization gradient has been linked to induction of ZLI-patterning genes irx3 and six3, which border the ZLI posteriorly and anteriorly, respectively. However, these genes have been shown to be non-essential for ZLI formation in zebrafish and have been reevaluated in other models [2].

Specification of the ZLI may also involve the ventral tissues of the embryo: the prechordal and epichordal plates, or neuroepithelial tissue (see figure). Interactions between these tissues may be responsible for the recession of expression of lfng which allows dorsal movement shh expression [11]. The specific prechrodal and epichordal plates, characterized by expression of six3 and irx3, respectively, may influence positioning of the ZLI more so than the genes themselves [4]. The prechrodal plate ventrally borders the telencephalon, with the epichrodal plate posterior to it. Studies of the formation of the ZLI performed in zebrafish have revealed the significance of otx2 and irx1 in ZLI positioning. Otx2 expression characterizes the developing optic tectum, which is responsible for sight processing. Expression extends anteriorly and ends sharply at the ZLI, with high expression along the line where shh is expressed [12]. Before the ZLI is formed, otx2 is expressed ubiquitously throughout the forebrain, and begins to recede to the position of the putative ZLI. Experiments where otx2 expression was repressed showed no dorsal movement of shh expression and no ZLI formation [2]. Irx1, which is analogous to irx3 in birds and mammals, is expressed posterior to the ZLI. Studies have suggested that while otx2 positively restricts the ZLI anteriorly (shh cannot be expressed where otx2 is not), irx1 negatively restricts the ZLI posteriorly [2]. Other genes crucial for differentiation in the brain, including Fgf genes responsible for patterning of the midbrain-hindbrain boundary (MHB), have been implicated in positioning of the ZLI [10].

Studies on the role of shh signaling in the ZLI were difficult to study for many years, because mutants lacking expression have many developmental deficits including lack of a diencephalon [13]. Explant and lineage-labeling experiments previously described aided in elucidation of the role of shh and other genes in differentiation of these tissues.

Differentiation After ZLI DegradationEdit

After differentiation of the progenitor cells (at a precise stage yet to be fully determined), the ZLI and its lineage restriction disappears, allowing cells to migrate across the former boundary and the dorsal and ventral thalami to merge into one functional unit, as shown by replication-incompetent retroviral experiments that marked cells and showed their migration throughout the diencephalon [10].


After establishment of the ZLI, shh has been shown to induce expression of thalamic and prethalamic markers, gbx2 and dlx2/ nkx2.1, respectively. This differential induction most likely is due to the expression of genes such as irx3 in the thalamus: ectopic expression experiments showed that if irx3, which is normally expressed in the developing thalamus, is expressed anterior to the ZLI, then the developing prethalamus will change identity [11]. Note that these genes which help confer shh competence help to pattern the ZLI.

Signaling from the ZLI cooperating with thalamic and prethalamic markers ensures the migration of post-mitotic (neural progenitor) cells to the mantle zone where the cells assemble into nuclei characteristic of the thalamus. These nuclei are the mechanism of the relay of information from the thalamus to the cortex. The thalamus itself is highly diverse, with each nucleus having distinct morphologies and physiologies according to the region of the brain to which it is connected. These differences are thought to originate in differential gene expression in the thalamus and prethalamus, which allows for a single structure with multiple different and separate functions once the two have merged and completed growth and differentiation [10].

From Vieira et al, 2005, the image below shows an overview of expression of some genes in the forebrain and midbrain, many of which are influenced by signaling from the ZLI. The telencephalon is marked by "T," the prethalamus by "PTh," and the thalamus by "Th" [11].

File:Vieira et al Signaling from the ZLI.png


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