Gene expression mapping of the neuroectoderm across phyla – conservation and divergence of early brain anlagen between insects and vertebrates

Gene expression has been employed for homologizing body regions across bilateria. The molecular comparison of vertebrate and fly brains has led to a number of disputed homology hypotheses. Data from the fly Drosophila melanogaster have recently been complemented by extensive data from the red flour beetle Tribolium castaneum with its more insect-typical development. In this review, we revisit the molecular mapping of the neuroectoderm of insects and vertebrates to reconsider homology hypotheses. We claim that the protocerebrum is non-segmental and homologous to the vertebrate fore- and midbrain. The boundary between antennal and ocular regions correspond to the vertebrate mid-hindbrain boundary while the deutocerebrum represents the anterior-most ganglion with serial homology to the trunk. The insect head placode is shares common embryonic origin with the vertebrate adenohypophyseal placode. Intriguingly, vertebrate eyes develop from a different region compared to the insect compound eyes calling organ homology into question. Finally, we suggest a molecular re-definition of the classic concepts of archi- and prosocerebrum.


Background
All bilaterian animals stem from a common ancestor and their development is based on an astonishingly similar set of genes.Despite this conservation on the genetic level, bilaterian morphological diversity is overwhelming, posing major challenges to homologize body or brain regions between clades.The advent of molecular data and the revised phylogenies have re-opened old discussions and have led to new hypotheses (Martín-Durán and Hejnol, 2021).Seminal work on comparing anterior gene expression and function between mice and flies revealed an astonishing conservation such as the function of the otd/otx genes in anterior brain formation (Acampora et al., 1998;Leuzinger et al., 1998) and a role of eyeless/pax6 in eye formation (Gehring, 1996).Subsequently, an impressive number of additional genetic similarities fostered the conclusion that the development of the anterior part of an animal and its brain relies on a set of conserved genes, which derived from the anterior patterning system of the last common ancestor (De Velasco et al., 2004;de Velasco et al., 2007;Gąsiorowski et al., 2021;Hartenstein and Stollewerk, 2015;Hejnol and Lowe, 2015;Hirth et al., 2003;Lichtneckert and Reichert, 2005;Lowe et al., 2003;Marlow et al., 2014;Martín-Durán and Hejnol, 2021;Martín-Durán et al., 2016;Posnien et al., 2011b;Reichert, 2005;Reichert and Simeone, 1999;Simeone et al., 1992b;Sinigaglia et al., 2013;Tomer et al., 2010).Further, new fossil evidence has been used in combination with developmental data to contribute to our view on brain evolution and homologies of body regions (e.g.Chipman and Erwin, 2017;Lan et al., 2021;Lev et al., 2022;Ortega-Hernández et al., 2017;Scholtz and Edgecombe, 2006;Strausfeld et al., 2022) and similarities of neural connectivity and function of respective brain areas have been used for suggesting homology (e.g.Bridi et al., 2020;Strausfeld and Hirth, 2013).Overall, the genetic similarity based on a common origin of the anterior brains is widely accepted (e.g.Arendt et al., 2008;Hartenstein and Stollewerk, 2015;Hirth, 2010;Nielsen, 1999) while some homology statements may represent oversimplifications and the reduced nervous systems of many clades require explanation (e.g.Hejnol and Lowe, 2015).Several issues have remained controversial because of speciesor clade-specific divergence in both morphology and gene expression patterns.In this review, we revisit current homology hypotheses by integrating information on gene expression patterns from the two holometabolous insect models, that is the vinegar fly Drosophila melanogaster and the red flour beetle Tribolium castaneum.So far, fly data have been mainly used for insect-vertebrate comparisons but comprehensive comparative data have been accumulating for T. castaneum in the past decade.Basing conclusions on both species is important given that beetles show a more conserved mode of head development than the flies with their derived involuted larval head (Klingler and Bucher, 2022;Posnien et al., 2010b;Tautz et al., 1994).Similar expression patterns in both species will be considered conserved traits for holometabolous insects while the ancestral state for insects will have to await the accumulation of respective data in more early branching insects.
We focus on the upper part of the brain of insects (supraesophageal ganglion), which is composed of three main components that derive from different developmental units, respectively.The part derived from the intercalary segment is called the tritocerebrum, the ganglion of the antennal segment forms the deutocerebrum and the neuroectoderm anterior to the antenna gives rise to the protocerebrum (Figure 2; Ito et al., 2014;Snodgrass, 1935;Strausfeld, 1976;Weber, 1966;Westheide and Rieger, 1996).While the developmental definitions of these components are unequivocal, it is difficult to morphologically delineate them in the adult brain or to draw a clear line between the supraesophageal ganglion and the subesophageal ganglion.This is due to morphogenetic movements, the morphological fusion of the brain parts and the divergent morphological constellations of the location of the esophagus relative to the brain (Ito et al., 2014).Since most molecular comparisons are based on data from D. melanogaster, which has a very derived anterior development, several controversies remain with respect to the homology of insect and vertebrate brain anlagen.Specifically, the internalization of head and the brain neuroectoderm during a process called head involution (Posnien et al., 2010b;Tautz et al., 1994) casts doubts on the conservation of the underlying genetic mechanisms.In the past decades, the T. castaneum has become an alternative insect model system for studying a more insect-typical development (Brown et al., 2009;Klingler and Bucher, 2022;Tautz et al., 1994).Comprehensive gene expression and gene function data have been gathered regarding the formation of the head and brain, opening the possibility for a comprehensive re-assessment of homologies between vertebrates and insects (Ansari et al., 2018;Coulcher and Telford, 2012;Economou and Telford, 2009;Fu et al., 2012;Kittelmann et al., 2013;Kitzmann et al., 2017;Li et al., 1996;Oberhofer et al., 2014;Posnien and Bucher, 2010a;Posnien et al., 2011a;Posnien et al., 2011b;Schaeper et al., 2010;Schinko et al., 2008;Schroder et al., 2000;Siemanowski et al., 2015;Steinmetz et al., 2010;Yang et al., 2009a;Yang et al., 2009b).
In this review, we synthesize the findings from T. castaneum and D. melanogaster to re-evaluate ongoing discussions on the homologies of insect and vertebrate brains.We base our conclusions on the comparison of expression patterns at the end of neuroectoderm patterning, arguing that this is the phylotypic stage of the brain, where similarities are highest and not yet blurred by subsequent evolutionary diversification.Hence, our homology statements refer to the embryonic anlagen of brain structures from which brain structures develop rather than to homology of the final brain structures.This approach is insightful because the compared stage is similar among clades in that it consists of an essentially two dimensional epithelium that precedes the complex morphogenetic movements and tissue interactions that shape and diversify the developing brain.Vertebrate neural stem cells defined in the neuroectoderm remain in the epithelium of the neural tube while postmitotic neural cells can be migratory.Insect neural stem cells (called neuroblasts) delaminate from the neuroectodermal epithelium.They do not actively migrate but may be displaced passively by morphogenetic movements of adjacent cells and tissues.While we include selected data from other species and clades to support specific hypotheses, we do neither provide a comprehensive review on the plethora of data gained in extant organisms, nor do we discuss the valuable insights gained from the fossil record.
We provide molecular evidence that confirm some previous hypotheses on brain homologies but we also propose reconsidering a number of classic and recent suggestions.First, we argue that the protocerebrum, which emerges from the pre-antennal region, corresponds to the vertebrate fore-and midbrain and that it is of non-segmental origin (i.e.not serial homologous to trunk segments and their ganglia).Second, we argue that the parasegment boundary separating the antennal segment from the pre-antennal region corresponds to the location of the mid-hindbrain boundary (MHB) of vertebrates.To reflect this homology of position and the IHB's function as embryonic signaling center, we suggest calling it the insect head boundary (IHB).Third, we define a region with molecular similarity to the vertebrate adenohypophyseal placodes.Fourth, we summarize key arguments for a segmental nature of the antennal segment, which has recently been questioned.Fifth, we suggest reviving the classic concepts of insect archi-and prosocerebrum as subdivisions of the protocerebrum by adopting molecular definitions by optix/six3 and otd/otx expression, respectively.We speculate about the brain structures that may be derived from these brain parts and the homology of the archicerebrum with the apical organ of other animals.
Within the framework of overall conservation of gene expression in the anterior region, some striking evolutionary divergences become apparent.On the one hand, we argue that the optic lobes, which are innervated by the insect compound eyes, develop from a different region than the vertebrate eyes.This argues against simple homology of these organs but interestingly opens the possibility of homology with the insect ocelli.On the other hand, we show that several genes involved in olfactory system development are expressed in different brain regions in insects and vertebrates, indicating a non-trivial evolutionary history of olfactory organs.Hence, the molecular and cellular similarities found with respect to eyes and olfactory systems may not reflect classic homology but may rather stem from the independent recruitment of homologous cell types or gene regulatory networks from the common ancestor, that is deep homology.

Part I: Using the patterned neuroectoderm as unit of comparison across phyla
Embryonic expression patterns have proven useful for aligning and homologizing neuroectodermal regions of protostomes with deuterostomes (Hirth et al., 2003;Posnien et al., 2011a;Reichert and Simeone, 1999;Steinmetz et al., 2010;Steinmetz et al., 2011;Tomer et al., 2010;Urbach, 2007).However, given the highly dynamic expression of developmental genes during development, choosing comparable developmental stages is paramount for meaningful comparisons.According to the hourglass model, morphology and gene expression show a high degree of divergence at the beginning of embryogenesis but later converge toward a conserved developmental stage -the phylotypic stage -before diverging again (Domazet-Lošo and Tautz, 2010;Slack et al., 1993).In insects, the elongated germband stage represents the phylotypic stage -at least with respect to the epidermal development.This stage is very conserved across arthropods with respect to morphology, molecular definition of the parasegment boundaries and the subdivision into larger embryonic regions by the Hox genes.For instance, head segments were homologized across arthropods by studying this stage (Abzhanov and Kaufman, 1999;Damen et al., 1998;Eriksson et al., 2010;Telford and Thomas, 1998).
What stage should be compared with respect to the brain of vertebrates and inseccts?In both clades, neural patterning starts in the setting of an essentially two-dimensional epithelium, the neuroectoderm.At this early stage, the first spatial patterning of the neuroectoderm takes place.Subdivision is started by morphogen signals that initiate regulatory networks, which eventually lead to the differential expression of transcription factors.Thus, the neuroectoderm is subdivided into domains, which develop into different brain structures subsequently.Specifically, in vertebrates, the first spatial patterning occurs during early gastrulation concomitant with the induction of the neural plate.At the end of gastrulation, a basic spatial subdivision of the neural plate is achieved and several neural plate organizers are established, which maintain and further refine the spatial patterns.The morphogen signals emanating from the organizers influence cellular fate and growth in the adjacent tissues.
Importantly for our discussion, the MHB is one of the organizers specified during early neural plate stages (Cavodeassi et al., 2016;Rhinn et al., 2006).The expression of bHLH genes marks the specification of neural progenitors.The first bHLH genes start their expression in the neural plate (Nieber et al., 2009) which is further confirmation that the first phase of spatial patterning is finished by then.
Similarly, in insects, an initially very dynamic phase of spatial patterning occurs within the neuroectodermal head epithelium (Posnien et al., 2011b;Urbach and Technau, 2003b;Urbach and Technau, 2003c).The emerging differential expression of transcription factors represents spatial information, which is then inherited by the neural stem cells, which become specified in the advanced neuroectoderm.Their specification involves the expression of bHLH genes and precedes their delamination from the neuroectoderm.Importantly, when leaving the epithelium, the insect neural stem cells 'inherit' the spatial information generated in the neuroectoderm (i.e. the combinatorial expression of transcription factors) and use this spatial information for assuming different identities.They are thought to obtain no further spatial information after delamination such that spatial pattern formation of the neuroectoderm is likely finalized at that stage (Skeath and Thor, 2003;Technau et al., 2006).The timing of the several waves of stem cell delamination and the expression of the stem cell marker asense indicate that spatial patterning has largely finished in the elongated germ-band stage (i.e. the phylotypic stage mentioned above) (panel II in Figure 1; Posnien et al., 2011b;Urbach and Technau, 2003a;Wheeler et al., 2003).This is corroborated by our expression analyses of 23 head patterning genes (Kittelmann et al., 2013;Kitzmann et al., 2017;Posnien et al., 2011b) where the initially dynamic expression converges on a more stable configuration at the elongated germband stage.Further, even the latest expression of conserved head and brain patterning genes starts shortly before that stage (Figure 1; Posnien et al., 2011b).
In summary, we believe that the late vertebrate neural plate and the insect elongated germband are valid stages for cross-phyla comparisons of brain regionalization.In the following, we will present our conclusions based mainly on comparing gene expression patterns as markers for the regionalization of the early neuroectoderm.We state homology of regions of developmental brain anlagen, which are marked by similar combinations of genes.Although the development of these regions is regulated by orthologous genes, they differ in development, morphogenesis and final morphology.Therefore, our comparison strictly remains on the level of the neuroectoderm and we refrain from homologizing the brain structures that emerge from them, in order to avoid overstatements.In each chapter, we will first present our claim and subsequently provide the underlying evidence and our reasoning.

Part II: Conserved aspects between insect and vertebrate neuroectoderm regionalization
Homology of the pre-antennal region to vertebrate fore-and midbrain The comprehensive comparison of gene expression patterns in the anterior neuroectoderm of flies and beetles provides strong evidence that the insect pre-antennal region is homologous to the embryonic territory in vertebrates that gives rise to the fore-and midbrain.
Seminal work had revealed that a number of genes are active both in the vertebrate neural plate and the fly neuroectoderm.The mouse otx and fly otd proteins are so conserved that they can even rescue each other's function (Acampora et al., 2001;Boncinelli et al., 1993;Finkelstein and Boncinelli, 1994;Leuzinger et al., 1998;Lichtneckert and Reichert, 2005;Reichert and Simeone, 1999).However, in flies, the head (i.e. the brain neuroectoderm) involutes into the body cavity, which is not typical for insects (Snodgrass, 1953) and has hampered comprehensive studies of head patterning.Therefore, we and others have studied anterior patterning in the red flour beetle T. castaneum, an insect species with a more insect-typical mode of head development (Posnien et al., 2010b).Expression patterns of the orthologs of most genes known to be involved in patterning the vertebrate neural plate have been determined (Posnien et al., 2011b;Schinko et al., 2008;Schroder et al., 2000;Steinmetz et al., 2011;Yang et al., 2009a).In this review, we schematically summarize the data from Posnien et al., 2011b for three stages: Before the neural stem cells (neuroblasts, NBs) start delamination (panel I), after most or all of the NBs have delaminated (panel II) and a later stage (panel III) (Figure 1).For comparison, we show the expression of the respective orthologs in a vertebrate neural plate.Note that the data for vertebrates are combined from different species at probably different stages of neural plate patterning -hence, depictions of boundaries and co-expressions are  Posnien et al., 2011b while the vertebrate data were compiled from several species and publications and plotted onto the schematic of a mouse late neural plate (see details below).Hence, expression boundaries are less precise for vertebrates compared to the beetle data.The stages shown for T. castaneum correspond to elongating germband with five trunk stripes of Tc-wingless (I), elongated germband (II), and retracting germband (III) -stage II was used for comparison with vertebrates.The changes of expression patterns reflect pattern formation processes while cell division and/or migration play a minor role if any.(A-C) Twelve genes show a similar arrangement of expression patterns in the anterior neuroectoderm of vertebrates and insects.Some of them are expressed almost exclusively in the anterior brain neuroectoderm in both clades while others show additionally segmental expression in insects.It seems unlikely that such a degree of similarity would arise by convergent evolution especially when considering the genes with an almost exclusive anterior expression.Together with similar findings from other animal clades we take these data as strong confirmation for the homology of the anterior neuroectoderm.However, we do not claim that homology on the level of neuroectoderm patterning will necessarily translate into clear homologies of the specific neural structures that develop from those domains.approximations and less precise compared to the beetle data (see Table S1 in Posnien et al., 2011a for references for the vertebrate genes).
Many brain patterning genes are expressed in similar patterns along the two dimensions of the vertebrate neural plate and insect neuroectoderm (Figure 1A-C) (see part III of this review for discussion of intriguing cases of non-conservation).Especially informative are conserved patterns of genes, which are expressed almost exclusively in the anterior head, because this strongly indicates that early anterior pattern was their ancestral function (optix/six3; tailless/tlx; otd1/otx; earmuff/fez1; scro/ nkx2.1;rx; see Figure 1A, B).Other genes are similar in the brain anlagen but show an additional repetitive expression in the more posterior segments (ey/pax6; slp/bf1; wg/Wnt1; see Figure 1C).Taken together, these data confidently map the anlagen of fore-and midbrain of vertebrates to the pre-antennal region of insects which is in line with previous work in flies (Hirth et al., 2003;Urbach, 2007).
Work with different subsets of these genes in other taxa such as centipede, annelid, hemichordate, invertebrate chordate, and sea urchin confirmed the conservation of an anterior set of patterning genes but will not be discussed here in more detail (Holland and Short, 2008;Holland and Takahashi, 2005;Lowe, 2008;Lowe et al., 2003;Martín-Durán and Hejnol, 2021;Martín-Durán et al., 2016;Range and Wei, 2016;Steinmetz et al., 2011;Tomer et al., 2010).foxQ2 was not included in the scheme despite being one of the highly conserved anterior genes because, intriguingly, it was lost in the lineage leading to amphibians and mammalians (Chevalier et al., 2006;Kitzmann et al., 2017;Marlow et al., 2014;Sinigaglia et al., 2013;Yu et al., 2003).
The insect head boundary -related to the vertebrate mid-hindbrain boundary at the anterior boundary of the antennal segment The IHB -a signaling center related to the MHB We argue that the boundary between the ocular region and the antennal segment of insects corresponds in position to the anlagen of the vertebrate MHB (Figure 1, Figure 2, Figure 3).This resolves conflicting interpretations of fly data, where some have suggested the same position (Urbach, 2007) while others have suggested a location one segment more posterior (Bridi et al., 2020;Hirth et al., 2003;Strausfeld et al., 2022;Figure 4).
When comparing expression patterns relative to segments, it is important to realize the offset that has been observed between the developmental boundaries of the early embryo and the later morphologically visible segment boundaries.In case of the morphological segments, the posterior boundary of engrailed expression represents the molecular marker.However, the embryologically relevant boundaries are defined by the interface of wingless and hedgehog expression, which coincides with the anterior boundary of engrailed expression.Hence, the early embryonic boundaries are (arrow).(D) Coexpression of dbx and gsc in the stomodeum and an anterior expression of ptx/pitx (anteriormost green dot in II and III) is found in vertebrates and beetles (arrows in III and IV).Other aspects of co-expression (open arrowhead in II) and additional expression domains (e.g.ocular domain in I) have not counterpart.(E) Coexpression and adjacent expression of mirr/irx and ems/emx are found posterior to the insect head boundary (IHB) in insects but anterior to the MHB in vertebrates (compare open arrowheads relative to the arrow which marks the IHB/MHB in I and IV).Hence, the position of these domains is fundamentally different.The canonical hedgehog expression along the midline of the CNS in vertebrates has no correlate in insects, but medial hedgehog expression is found in the stomodeum.(F) The expression of the panplacodal genes eya, so/six1 and six4 at the outer rim of the anterior neuroectoderm in insects and vertebrates adds further molecular similarity of bilaterian anterior patterning.Neuroendocrine tissues are marked in blue (two insect tissues are marked -PI anlagen: 4 and stomatogastric sytem: 3).The eye Anlagen in vertebrates (red) and compound eyes of insects (red hatched area) do not correspond.However, there is an anterior region which expresses many eye patterning genes and from which ocelli are likely to develop (red circle; see text and Figure 3 for more details).The Anlagen of the olfactory placode (yellow circle 3) is located at a different location than the olfactory lobes of the insect brain (yellow circle 2) but has similarity to a region, which we term insect head placode (blue circle 1).See text and Figure 3 for further details and discussion on homology of visual and olfactory systems.(G, H) The parasegment boundary separating the antennal segment from the ocular region (the insect head boundary, IHB) seems to be an important developmental boundary expressing the hedgehog and wingless morphogens (G) and marking the anterior or posterior expression boundaries of a number of patterning genes (H).See Supplementary file 1 for references and explanations with respect to the depiction of expression patterns.The gray dashed lines in the T. castaneum head indicate roughly the location of the IHB, that is the border between the ocular region (future protocerebrum) and the antennal segment (future deutocerebrum) (based on posterior border of hh expression -see text and    Where the data diverge or are not available for T. castaneum, the D. melanogaster pattern is indicated by thin lines (adopted from Urbach, 2007).For each gene, we indicated at what position (vertical red broken lines) or in what region the IHB would be located (horizontal red broken lines) when using only that gene as marker.Considering all the evidence (i.e. the location of all red broken lines) the data place the IHB to an area covering the interface of ocular region and antennal segment (see red box).We find no support for the alternative hypothesis that puts the IHB to the deutocerebral/tritocerebral boundary (Hirth, 2010), that is one segment more posterior (see text for discussion).Ganglia are depicted as segmental structures (see Supplementary file 1 for arguments).The segment boundaries (bold black lines) are offset relative to the embryonic parasegmental units (broken black lines shown for the subesophageal ganglia).For simplicity of the schematic, the parasegment boundaries are not marked in the more anterior segments but they are defined by adjacent non-overlapping wg/hh expression, respectively.We

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propose that the classic concept of protocerebral subdivision into an anterior archicerebrum and posteriorly adjacent prosocerebrum can be re-defined by optix/six3 and otd/otx expression, respectively (green font).The more posterior trunk ganglia are similar to the subesophageal ganglia.Based on six3 and otd expression, we assign the neuroendocrine pars intercerebralis and pars lateralis (PI/PL) to the archicerebrum and the eyes to the prosocerebrum.The mushroom bodies (MB) are likely part of the prosocerebrum while we tentatively assign the central complex (Cx), the ocelli and the insect head placode (plac) to a mixed origin.The data are combined from single and double stainings of different sources (Beermann and Schröder, 2008;Posnien et al., 2011b;Schinko et al., 2008;Steinmetz et al., 2011;Urbach, 2007;Wheeler et al., 2005) such that not all data (e.g. of FGF8, vnd, and msh) are based on a precise mapping at the same stage.Hence, the locations of some expression boundaries are approximations.See Supplementary file 1 for more details on the reasons for the mapping.Expression of genes involved in MHB formation and function in vertebrates (redrawn from Urbach, 2007).Given the difference of the gene regulatory networks subdividing insect segments and vertebrate rhombomeres, respectively, we hesitate to claim homology of antennal segment with rhombomere 1 despite the fact that both are devoid of otd and Hox gene expression (see text for discussion on the tripartite brain).More generally, we do not homologize segments and rhombomers.A simplified fate map of the anterior neural plate is shown in the right half in A (for optic and olfactory parts, the positions are outlined in the left half as well).The right half shown in B depicts the expression of the markers of archi-and prosocerebrum six3 and otd (identical to left half) in addition to the approximate position of the anlagen of visual and olfactory neuropils.This molecular mapping shows that brain parts used for olfaction do not derive from the same region of the neuroectoderm in vertebrates and insects (compare yellowish shapes in A with B).Likewise, the larval insect eyes (which will develop into the adult compound eyes) do not derive from a region corresponding to the vertebrate eye anlagen (compare red shapes in A with red shape marked with c in B).Hence, for both olfaction and compound eye, the homology hypothesis is strongly questioned based on the criterion of position.Intriguingly, the ocelli emerge at positions much more similar to the vertebrate situation.This opens the possibility of homology of vertebrate eyes with ocelli (especially the six3 positive anterior ones) but a claim of homology would need further testing.The similarity of gene regulatory networks that have been found between vertebrates and insects may be based on either co-option of networks or on conserved cell types that were assembled independently to form organs with similar function.The patterns are approximations and the exact location of expression domain boundaries or tissue anlagen remain to be determined by dedicated experiments (see details below and in the text).
offset relative to the later morphological boundaries and have been called parasegment boundaries (compare black dotted lines of parasegment boundaries with black lines depicting segment boundaries in Figure 2; Martinez-Arias and Lawrence, 1985).
The region separating antennal from pre-antennal regions shows an early expression similar to parasegment boundaries, that is the adjacent expression of the morphogens wingless and hh.Actually, this is the first parasegment boundary to become visible and remains the most anterior one (Figure 1G).This boundary seems to have an important embryonic signaling function in insects because of the early expression of these two morphogens.A bit later FGF-8 becomes expressed posterior to that boundary adding another morphogen signaling to that region (Figure 2; Beermann and Schröder, 2008;Farzana and Brown, 2008;Nagy and Carroll, 1994;Oberhofer et al., 2014;Posnien et al., 2011b).In line with the hypothesis of an important signaling function in early head and brain patterning, 9 out of 18 genes investigated in Posnien et al., 2011b start to be expressed in stripes parallel to the IHB (otd, tll, lim1/5, gsc, ci, slp, ems, ey) (Posnien et al., 2011b) and later, several genes have either their anterior or posterior expression boundary in that region (Figure 1H).In both clades, the anterior expression of six3/optix is followed by a domain with otx/otd expression while the posterior is marked by the expression of Hox-cluster genes.A region expressing neither otx/otd nor Hox genes is separating these domains.(A) In vertebrates, the mid-hindbrain boundary (MHB) emerges at the interface between otx positive and Hox gene negative cells.Note that the six3 expression limit does not reflect the boundary between fore-and midbrain anlagen.(B) View presented in this paper partially based on Urbach, 2007.Both, the subdivisions of the brain (top row) and the subdivisions of the neuroectoderm (lower row) are shown.In line with classic literature comparing insect and annelid brains, the protocerebrum is suggested to be subdivided into an anterior archicerebrum and a posteriorly adjacent prosocerebrum.We suggest six3/optix and otd to be markers for these regions, respectively.The antennal segment is considered serially homologous to trunk segments.Being the anterior-most segment and being the only segment free of Hox gene expression, it might have distinctive properties.The parasegment boundary separating the non-segmental pre-antennal (or ocular) region from the antennal segment represents the insect head boundary (IHB).Its location matches the one of the MHB of vertebrates (red broken lines).We hesitate to make strong statements of homology between vertebrates and insects for the region posterior to the IHB/MHB anlagen.The data supporting this view are combined from flies and beetles.(C) Alternative view based on Hirth et al., 2003, which was recently updated by Bridi et al., 2020 andStrausfeld et al., 2022.In this view, the antennal region is not a segment -the intercalary segment is the anterior-most serially homologous trunk segment.The region corresponding to the MHB is located at the boundary between antennal region and the intercalary segment.See text for arguments supporting the view shown in B and Supplementary file 1 for discussion on possible reasons for diverging interpretation.

Forebrain / midbrain Hindbrain
Indeed, the activation of some of those genes was shown to depend on wingless and/or hedgehog signaling (tailless; eyeless/pax6; twin of eyelss; sloppy paired1/brain factor; goosecoid) while this was not found for others (Tc-lim1, otd1, and ems) (Oberhofer et al., 2014).Because that study focused on a very early stage, the germ rudiment (Figure 1G) later effects on target gene expression may have been missed.Taken together, the region homologous to the MHB has important embryonic signaling function.Apart from the fact that MHB and IHB are signaling centers at a homologous position we do not claim that the specific functions are the same.Hence, the known functions of the MHB such as the patterning dopaminergic neurons in the midbrain will likely not be found at the IHB.To indicate homology of location of the anlagen but likely divergence in signaling function, we suggest calling the area the insect head boundary (Figure 2).Our mapping of the IHB based on the homology of fore-and midbrain anlagen to pre-antennal regions (see above) aligns with the view from Urbach, who analyzed fly data at comparable neuroectodermal stages (Figure 4B; Urbach, 2007).An alternative hypothesis based on fly data puts the MHB homolog one segment more posteriorly to the antennal/intercalary parasegment boundary (Figure 4C; Bridi et al., 2020;Hirth, 2010;Hirth et al., 2003).The location of the IHB strongly influences hypotheses on homologies between vertebrate and insect brains and some recent conclusions were based on the latter model (Bridi et al., 2020;Strausfeld et al., 2022).Therefore, we will discuss the data from flies and beetles in more detail to justify our diverging view on the matter.
Flies: Is the IHB located at the anterior or the posterior of the antennal segment?
In their seminal study in flies, Hirth et al. found that in insects like in vertebrates, the anterior part of the central nervous system is marked by expression of otd/otx orthologs, the posterior part by Hox gene expression and in between there is an intervening zone (IZ) devoid of either marker.Based on this, they suggested that the tripartite organization described in vertebrate brain was ancestral in all bilaterians.This pattern of gene expression has been confirmed for many animal taxa and likely represents the ancestral urbilaterian state (Castro et al., 2006;Hirth, 2010;Hirth et al., 2003;Holland and Short, 2008;Pani et al., 2012;Smith et al., 2018;Steinmetz et al., 2011;Steinmetz et al., 2011;Urbach, 2007;Wollesen et al., 2015).It should be noted that several early branching ecdysozoans lack a tripartite morphology such that the tripartite organization may also have evolved independently (Hejnol and Lowe, 2015).In vertebrates, the MHB emerges in the anterior IZ.It is specified at the developmental boundary defined by adjacent non-overlapping expression of otx and gbx (Rhinn et al., 2005) and influences patterning of the adjacent regions, that is the posterior midbrain and the anterior hindbrain.Pax2/5/8 genes mark the MHB and the first rhombomere of the hindbrain represents large part of the IZ because it is free of Hox gene expression (Kiecker and Lumsden, 2005; see Figure 2B).Using otd, gbx, and Pax2/5/8 as markers at the embryonic stage 13/14, Hirth et al. mapped the IHB to the deutocerebral/tritocerebral boundary (i.e. the antennal/ intercalary segment boundary; see Figure 2; Hirth et al., 2003).
Urbach re-analyzed the expression of these genes and included a number of additional MHB markers.He used the late neuroectoderm for his investigation (see reasoning above) (Urbach, 2007) to map the region homologous to the MHB (i.e.what we call IHB) to the boundary between antennal and ocular segments, that is one segment more anterior than the previous suggestion but in line with our suggestion (Figure 2, see above).Besides adjacent otd and unpg/gbx expression, wingless and buttonhead were used as markers that have their anterior-most segmental stripe-like expression around the ocular/antennal boundary.It should be noted that the respective engrailed domain deviates from the expectation in that it does not form a stripe but is reduced to a 'head spot' (Brown et al., 1994;Patel et al., 1989).However, stripe like expression at the IHB of other arthropods indicates that this is an insect-specific deviation (Damen, 2002;Patel et al., 1989).Further, the expression of columnar genes (i.e.genes that are expressed along the body axis and are involved in animal neural patterning) reflects the findings from vertebrates: Vertebrate Nkx2.2 is expressed along the body axis but in the MHB region this stripe is interrupted.Similarly, its fly ortholog ventral nerve cord defective (vnd) shows ventral expression domains in all segments except for the antennal segment.Vertebrate msx has its anterior expression boundary at the MHB and its fly ortholog msh is expressed up to the pre-antennal/antennal boundary.Hence, the location of the IHB at the ocular/antennal boundary is backed by data from several genes belonging to two independent patterning systems -the dorso-ventral and the anterior-posterior patterning systems.In vertebrates, FGF8 expression marks the region posterior to the MHB.In flies however, the respective orthologs pyramus and thisbe seem not to be expressed in that region (Urbach, 2007).The main differences to the previous work is that Urbach et al. studied an earlier developmental stage (i.e. the phylotypic stage), he used more genes to map the MHB homolog and his re-analysis of shaven/Pax2 expression led to a different conclusion with respect to its expression in the brain.In Supplementary file 1, we discuss in more detail these reasons for the divergent interpretations.
Beetle data confirm the location of the IHB at the anterior boundary of the antennal segment Data from T. castaneum confirm and complement the results from Urbach (Figure 2; Birkan et al., 2011;Nie et al., 2001;Posnien and Bucher, 2010a;Posnien et al., 2011b;Schinko et al., 2008).The antennal segment represents the IZ, which is devoid of both, otd and Hox gene expression (Figure 2).Assuming a similar position at the anterior of the IZ one would place the IHB to the anterior antennal segment.In contrast to flies, the single FGF-8 ortholog in T. castaneum is expressed as expected from vertebrate data in the developing antennal segment and has its anterior border a bit posterior to the ocular/antennal boundary (Beermann and Schröder, 2008;Posnien et al., 2011b).Beetle engrailed expression is a more unequivocal marker then it is in flies because in the latter there are additional idiosyncratic expression domains anterior to the pre-antennal/antennal boundary, which had been interpreted as additional segment boundaries (Schmidt-Ott and Technau, 1992) until data from more insects showed that this is not a conserved pattern.The segmental expression of wingless and buttonhead is similar to D. melanogaster including non-segment-like aspects of expression in the pre-antennal region (Brown et al., 1994;Nagy and Carroll, 1994;Schinko et al., 2008).The columnar genes seem to accord as well (Wheeler et al., 2005) but a more exact mapping of their expression in the head region would be desirable to strengthen that claim.To our knowledge, the expression of PoxN has not been published for T. castaneum such that we cannot test the findings from D. melanogaster (see above).
Taken together, data from fly and beetle neuroectoderm place the IHB at the interface of ocular region and antennal segment (see red box in Figure 2A) although the exact mapping would vary depending on the genes used for the comparison (red dashed lines in Figure 2).In our view, the protocerebrum corresponds to the vertebrate fore-and midbrain and the deutocerebrum relates to anterior Hox-free part of the vertebrate hindbrain, which is represented by rhombomere 1 in vertebrates (Kiecker and Lumsden, 2005).However, we do not want to homologize the antennal segment with rhombomere 1 apart from the fact that both emerge from a Hox-free neuroectodermal region.We hypothesize that the IHB separates protocerebrum from deutocerebrum.Of note, otd expression seems not to extend into the antennal segment in T. castaneum, the hemipteran Oncopeltus fasciatus (Birkan et al., 2011), while this seems to be the case in flies (Figure 2).

The insect head placode and its evolutionary connection to the vertebrate cranial placodes
We propose that a region in the anterior insect head termed the insect head placode shares an evolutionary origin with the vertebrate cranial placodes.This claim is based on a careful study of coexpression of a number of orthologs of vertebrate panplacodal markers and the finding that these genes mark a morphologically distinguishable structure at a similar anterior-median position.These data are summarized here but extensively presented in Posnien et al., 2011a.The vertebrate cranial placodes contribute to a variety of cell types of the neuroendocrine system, and of sensory neurons of the olfactory, visual, and acoustic systems.They develop from non-neural ectoderm surrounding the anterior neural plate (Figure 3A; Baker and Bronner-Fraser, 2001;Brugmann and Moody, 2005;Grocott et al., 2012;Litsiou et al., 2005;Schlosser, 2010;Schlosser, 2014).The adenohypophyseal and olfactory placodes are the anterior-most placodes (Figure 3A), followed posteriorly by the lens, trigeminal, otic, and other placodes (Brugmann and Moody, 2005;Streit, 2007).Nearly, all placodal cells and their anlagen are marked by the expression of six1 (sine oculis), six4, and eyes absent, which have been termed panplacodal markers (Ghanbari et al., 2001;Pandur and Moody, 2000;Schlosser, 2014;Schlosser and Ahrens, 2004).It has long been assumed that cranial placodes are vertebrate inventions (Gans and Northcutt, 1983) but an earlier evolutionary origin has been discussed as well and scenarios for the evolution of the vertebrate-specific placodes from pre-existing developmental regions and gene regulatory networks have been provided (Glenn Northcutt, 2005;Posnien et al., 2011a;Schlosser, 2005;Schlosser, 2015;Schlosser, 2017).
In flies, the formation of neuroendocrine and other neural structures via several morphologically visible placodes has been described.Further, a molecular similarity of the fly pars intercerebralis with the vertebrate hypothalamus has been noted based on the expression of several marker genes (nkx2.1/vnd;sim1/sim; rx/Drx; six3/optix) (de Velasco et al., 2007).In a different approach in beetles, we have identified an embryonic region that seems evolutionary related to the vertebrate cranial placodes (sensu strictu).Based on position relative to the brain anlagen, co-expression of all panplacodal markers and markers for neuroendocrine cells we defined a region as the insect head placode.Note that the placodes described in de Velasco et al., 2007 were defined by their morphology while the insect head placode is defined by its molecular similarity to vertebrate cranial placodes.The marked region was found at an anterior-median position relative to the neuroectoderm, which is similar to the vertebrate situation.Specifically, six1/so and eya are expressed in a stripe around the rim of the T. castaneum brain neuroectoderm (Figure 1F).Later, this co-expression splits into two domains, one at the anterior-most rim and one in the ocular region (Figure 1D, II).six4 marks only the anterior co-expression domain (Figure 1D).The preplacodal marker Dll/Dlx3/5 is co-expressed as well (Figure 1D).Of note, the insect head placode becomes morphologically distinguishable from the adjacent epidermal tissue.Further, we found a number of markers for neuroendocrine tissues being expressed there (Posnien et al., 2011a): optix/six3 (Steinmetz et al., 2011;Tessmar-Raible et al., 2007), pitx1 (Tremblay et al., 1998), bf1/sloppy paired (Choe and Brown, 2007;Toresson et al., 1998), and eyeless/pax6 (Li et al., 1994;Schlosser and Ahrens, 2004;Yang et al., 2009a).Importantly, the specific adenohypophyseal placode markers pitx and lim3/lhx3 are expressed in the insect head placode (Dutta et al., 2005;Pommereit et al., 2001;Posnien et al., 2011b;Taira et al., 1993).Further, vsx/chx and fas2, which are markers for the developing insect neuroendocrine pars intercerebralis, are expressed there (de Velasco et al., 2007;Posnien et al., 2011b).
Based on the extensive similarity of co-expressions, the insect head placode is likely to have evolved from the same developmental region from which the vertebrate placodes evolved.Alternatively, the similarity could stem from an ancestral co-expression in neuroendocrine cell types, which were recruited to form a structure at an anterior position (Posnien et al., 2011a;Schlosser, 2015).The most specific marker for the insect head placode is six4 and the molecular and positional similarity is highest with the adenohypophyseal placodes of vertebrates, from which the anterior pituitary gland develops.The pituitary gland is innervated by the hypothalamus, the neuroendocrine brain center of vertebrates.Structurally similar, the insect pars intercerebralis connects to the insect neuroendocrine gland corpora cardiaca.While both respective structural units in vertebrates and insects contain neurosecretory cells, their exact evolutionary relationships are under discussion (Hartenstein, 2006;Tessmar-Raible, 2007).In addition, a similar molecular profile of hypothalamic cells and anterior neurosecretory cells has also been found between zebrafish and the annelid Platynereis, corroborating a common evolutionary origin of anterior neuroseretory cell groups.Developmental data from the beetle show that a contribution of the six4 positive insect head placode to insect neuroendocrine tissue of the pars intercerebralis is very likely.In addition, six4 in Drosophila is also a marker for type 2 neuroblast derived lineages (Chen et al., 2021) which produce the columnar cells of the pars intercerebralis that innervate the central complex (Boyan and Reichert, 2011).The location of type 2 neuroblasts and the six4 positive tissue may well coincide but the spatial and temporal emergence of type 2 neuroblast lineages has yet to be determined in the beetle.In contrast, a close relationship of the insect head placode to the olfactory placode is questionable as insect olfaction occurs mainly in the antennal segment and the expression of ems/emx, a crucial marker of olfactory tissues, is found in the antennal segment but not in the anterior neural tissue as in vertebrates (Figure 1; see discussion below; Posnien et al., 2011b;Schinko et al., 2008).It would be interesting to further determine, which cell types develop from the insect head placode and to what extent they perform similar functions compared to the cells of the pituitary and/or to what degree different cell types and functions emerge from this homologous patterning region.It remains enigmatic, in how far the insect head placode functionally relates to vertebrate placodes and if homologous cell types can be identified in this region.

Deutocerebrum and the antennal segment -anterior-most serial homologs
We argue in favor of the classic view that the antennal segment and the deutocerebrum represent the anterior-most segment and the ganglion derived from it, respectively (e.g.Damen et al., 1998;Lev et al., 2022;Posnien et al., 2010b;Rempel, 1975;Scholtz and Edgecombe, 2006;Telford and Thomas, 1998).While this view had been common sense for a long time, it has recently been challenged by the suggestion that the antennal segment and the deutocerebrum derive from the non-segmental anterior part of the embryo.As corollary of that view, the intercalary segment forming the tritocerebrum is considered the anterior-most segment with serial homology to trunk segments (Strausfeld et al., 2022).In a comment to that paper, based on molecular and morphological data from onychophorans and fossil data it was suggested that all parts of the brain are segmental in nature including the homologs of the insect antennal segment and ocular/pre-antennal parts (Budd et al., 2023).Yet another recently proposed view is that neither antennal and intercalary segments should not be considered serially homologous because they develop by a different genetic mechanism (Lev et al., 2022).We use the term segment to define a structure, which is serially homologous to trunk segments.Given the early stages under scrunity for our comparison we use here the expressions of genes that define the segment boundaries as markers (i.e.wingless, hedgehog, and engrailed).
In support of serial homology to the trunk segments, the antennal segment is bounded by two molecularly defined parasegment boundaries, which are defined by adjacent stripes of wingless and hedgehog expression, respectively (Figure 2; Martinez-Arias and Lawrence, 1985;Ntini and Wimmer, 2011b;Oberhofer et al., 2014;Schmidt-Ott and Technau, 1992).The most famous marker of posterior segment boundaries is engrailed.In most insects (apart from D. melanogaster, which shows additional anterior domains), the anterior-most neuroectodermal engrailed domain emerges at the parasegment boundary separating antennal and pre-antennal region (i.e. at the IHB).In insects, this anterior-most domain is not a stripe but a 'head spot' (Brown et al., 1994;Patel et al., 1989).Given that in Crustaceans, spiders and centipedes the respective domain forms a segment-like stripe (at least at advanced embryonic stages), the head spot seems to be an insect-specific deviation from an ancestral segmental pattern (Damen, 2002;Kettle et al., 2003;Scholtz et al., 1994;Sintoni et al., 2007).Similar to engrailed, several other genes with segmental expression have their anteriormost segment-like domain in the antennal segment.These genes include upgd/gbx, empty spiracles, and gooseberry-d (Dalton et al., 1989;Schinko et al., 2008;Urbach, 2007;Urbach and Technau, 2003b) and the columnar gene msh (Urbach, 2007;Wheeler et al., 2005).Further support comes from an extensive analysis of neuroblast marker genes.For almost all tritocerebral neuroblasts, a homolog with similar combinations of gene expressions could be identified in the more posterior segments, and this is true for about half of the neuroblasts of the antennal segment.Conversely, the authors found not much if any homology of protocerebral neuroblasts to those of the trunk segments (Urbach et al., 2016).Hence, the insect neural stem cells reflect a segmentally reiterated pattern including the antennal segment but not the more anterior pre-antennal region.Of course, there are segment-specific deviations from the ground pattern not only in the antennal segment such as the reduction of neuroblasts in the intercalary and other segments (Urbach et al., 2016).A completely different type of evidence shows the segmental nature of the antennal segment in the most striking way: When the entire Hox-cluster is deleted in beetles, all trunk segments carry antennae (Stuart et al., 1991).Such a result indicates that the basic genetic subdivision into segments (i.e. the definition of the segment boundaries, their anterior-posterior and their dorso-ventral sub-patterning) is very similar between antennal and more posterior segment.
In our view, the ocular region does not represent a serially homologous segment.The main argument is that the ocular region lacks an anterior parasegment boundary that would separate it from the non-segmental anterior head tissue.However, its posterior boundary is indeed defined in segment-like way by the IHB, which shows adjacent expression of wingless and hedgehog like canonical parasegment boundaries as well.
Apart from these similarities supporting serial homology of the antennal with the more posterior trunk segments, there are idiosyncrasies, which may derive from being the anterior-most segment.Most importantly, the antennal segment shows neither otd nor Hox gene expression (see discussion on the tripartite brain above) thus representing the intervening zone of the tripartite brain (see above).Intriguingly, we found three marker genes, which are expressed early and rather exclusively in the antennal segment of beetles distinguishing it from both, trunk segments and pre-antennal region: ems; lim1/5 and goosecoid (Posnien et al., 2011b).A similar empty-spiracles pattern was found in a centipede as well (Hunnekuhl and Akam, 2017).Moreover, empty-spiracles and FGF8 show an antenna-specific expression before similar segmental patterns emerge (Posnien et al., 2011b).While the similarity of half of the antennal neuroblasts argues for a segmental nature (see above), the other half appears to have diverging identities, possibly regulated by the above-mentioned antennalspecific genes, indicating quite some divergence as well.
Intriguingly, the formation of the antennal parasegment boundary is different from the one of trunk segments: It involves a dynamic splitting of the ocular hedgehog stripe in two stripes, the posterior of which becomes the antennal hh-stripe.This was found in both O. fasciatus and T. castaneum (Lev and Chipman, 2021 and own data).The posterior adjacent intercalary segment of insects is formed yet by a different mechanism (Crozatier et al., 1999;Ntini and Wimmer, 2011a;Posnien and Bucher, 2010a).Actually, hedgehog-stripe splitting was first found in spiders (Kanayama et al., 2011) and Centipedes (Hunnekuhl and Akam, 2017), but in these clades one additional stripe splitting is observed, which results in the formation of the posterior boundary of the segment, which is homologous to the intercalary segment, respectively.The different gene regulatory dynamics leading to the formation of these segments has been taken as evidence for non-homology of those segment with trunk segments.Further, it was claimed that they evolved after the trunk segments in an independent way, secondarily adopting segment-like characters (Lev and Chipman, 2021;Lev et al., 2022).It is out of the scope of this work to discuss the evolution of segmentation.However, we propose that the structural, cellular, and molecular similarities of mature segments are strong arguments for serial homology despite the different developmental processes.Indeed, in some insects, the anterior segments form simultaneously while the posterior ones are added sequentially (Stahi and Chipman, 2016).Nevertheless, the resulting segments are regarded serially homologous.
Taken together, we suggest the antennal segment being the anterior-most of the serially homologous trunk segments.Some degree of divergence is found in many segments but the antennalspecific aspects and their relevance for deutocerebrum development may stem from its position at the segmental/non-segmental interface and are worth dedicated analyses.

Archicerebrum and prosocerebrum revisited New molecular code for classic concepts
We propose to revive and re-define the classic concepts of archicerebrum and prosocerebrum to denominate subdivisions of the insect protocerebrum.These subdivisions correspond to the prostomial and peristomial brain parts of annelid larvae and are defined by expression of optix/six3 and otd/ otx, respectively.These markers were chosen because they subdivide the anterior brains across animal phyla indicating an ancestral function (Steinmetz et al., 2010).
Inspired by comparisons with annelids, the insect protocerebrum was suggested to consist of two parts.By some authors, the anterior archicerebrum was defined as the ganglion of the acron, which is the anterior-most non-segmental part of insect head.The acron in turn was thought to be homologous to the larval episphere and the adult prostomium of annelids, respectively.In that view, the archicerebrum was suggested to derive from the apical organ of the last common ancestor of annelids and insects (e.g.Snodgrass, 1935;Westheide and Rieger, 1996).The posteriorly adjacent prosocerebrum was often considered to be the ganglion of the first serially homologous trunk segment, identified as the ocular segment by many authors.However, several alternative views have been put forward as well and no consensus has emerged on which parts of the insect brain actually represent the archi-or the prosocerebrum.For example, an alternative topology was recently discussed where the prosocerebrum represents the most anterior brain part and the archicerebrum is either assigned to a subterminal lateral brain region including the eyes (Steinmetz et al., 2010) or is omitted as a concept altogether (Strausfeld et al., 2022).These diverging views reflect the uncertainties with respect to the number of head segments, the disputed segmental nature of the labral region and the extent of non-segmental tissue in the insect head (Chaudonneret, 1950;Posnien et al., 2010b;Remane, 1950;Rempel, 1975;Rogers and Kaufman, 1997;Schmidt-Ott and Technau, 1992;Scholtz and Edgecombe, 2006;Siewing, 1963;Weber, 1966;Westheide and Rieger, 1996).
A molecular subdivision into an anterior labral part and a posterior ocular part of the brain was formulated based on segment polarity and columnar gene expression (Urbach and Technau, 2003b).
A slightly different subdivision was subsequently proposed based on the expression of optix/six3 and otd/otx (Steinmetz et al., 2010).We suggest following the latter subdivision and using that molecular code for re-defining the assignment of brain structures denominated by the terms archi-and prosocerebrum (Figure 2 and Figure 4).The core argument for adopting the latter molecular subdivision is that the anterior neuroectoderm of many if not all bilaterian animals is partitioned into an anterior optix/six3 positive tissue and a more posterior otd/otx marked region (insects, centipedes, annelids, vertebrates, sea urchins, hemichordates, and others) (Carl et al., 2002;Lowe et al., 2003;Steinmetz et al., 2010;Wei et al., 2009).Further, in a single-cell sequencing approach in spiders, six3 and otd expressing cells fell into clearly separated clusters with the former marking a more anterior tissue than the latter (Leite et al., 2022).In most studied animals, these two genes belong to the earliest expressed markers of anterior neuroectoderm and a repressive effect of Wnt signaling on six3 expression seems to be widely conserved as well.This is also true for Tribolium, where only few other markers are expressed at a similarly early stage in the protocerebrum anlagen.Among these, tailless covers both six3 and otd regions, foxQ2 is expressed in the six3 domain while eyeless/pax6 marks the posterior-most part of the otd marked protocerebrum (Kitzmann et al., 2017;Posnien et al., 2011b).Taken together, these molecular markers suggest an ancient early role of optix/six3 and otd/otx in subdividing the anterior neuroectoderm of bilaterian animals (Steinmetz et al., 2010).It should be noted that the expression of optix/six3 and otd/otx is dynamic during development and not mutually exclusive at all stages.Indeed, brain parts of mixed origin are expected to emerge from the region of overlap (see Figure 2 and below).
The molecular definition of archi-and prosocerebrum leads to some corollaries, which deviate from previous definitions.First, according to our data, both archi-and prosocerebrum are non-segmental (i.e.not derived from serial homologs of trunk segments) while classically, the prosocerebrum was thought to derive from the anterior-most segment (Remane, 1950;Strausfeld, 2012;Weber, 1966).Our claim of the non-segmental nature is based on the molecular similarity of the entire insect preantennal region to the fore-and midbrain of vertebrates and our mapping of the IHB (Figures 1 and 2; see above).Importantly, the annelid orthologs of the key markers optix/six3 and otd/otx are expressed in the pro-and peristomium, respectively, which are undisputed non-segmental areas in these protostomes (Posnien et al., 2011b;Steinmetz et al., 2011;Tomer et al., 2010;Urbach, 2007).As second corollary, no labral or ocular segment exist in the insect head making the antennal segment the anterior-most segment and the deutocerebrum the anterior-most ganglion, which are serially homologous to trunk segments (see above).Finally, the six3-based definition of the archicerebrum comprises a larger domain than the previously suggested labral subdivision of the protocerebrum (Urbach and Technau, 2003b), which was defined based on segment polarity and columnar gene expression.Actually, the latter subdivision is a sub-part of the six3 domain.

Brain parts belonging to archi-or prosocerebrum or both
The molecular definition of archi-and prosocerebrum allows for hypothesizing of brain structures emerging from the respective neuroectodermal regions (see Figure 3).The archicerebral six3 marked embryonic domain comprises the developing neuroendocrine pars intercerebralis and pars lateralis as shown by expression of the markers chx and fasciclin2 within the six3 positive region in D. melanogaster and T. castaneum (de Velasco et al., 2007;Posnien et al., 2011b;Steinmetz et al., 2010).In T. castaneum, the expression of these markers is deleted in RNAi knocking down six3 (Posnien et al., 2011b).
The mushroom bodies are probably part of the prosocerebrum based on two lines of evidence.The mushroom body neuroblasts were molecularly mapped in fly (Kunz et al., 2012) and in a separate study the same authors mapped six3 expression in brain neuroblasts (Steinmetz et al., 2010).Comparing these two maps, the MB neuroblasts seem to lie outside of the six3 domain.RNAi data confirm this to some degree: RNAi knock-down of six3 in beetles has not much effect on mushroom body development (Posnien et al., 2011b).However, RNAi targeting foxQ2 (which is expressed in the six3region) leads to aberrant mushroom bodies but not to their loss (He et al., 2019;Kitzmann et al., 2017).Assuming a prosocerebral origin of the MBs, these defects would have to be interpreted as indirect effects, which is well possible but remains to be shown.
The assignment of the insect ocelli is difficult.Their position on the anterior-median head and the location of at least some cell bodies of secondary neurons contributing to the ocellar tract and nerves in close to or within the pars intercerebralis indicate a connection with the archicerebrum (Figure 3; Mizunami, 1995a;Mizunami, 1995b).However, in flies, the anlagen of all ocelli in the eyeimaginal disc are otd positive and require the otd gene for their development indicating relation to the prosocerebrum (Domínguez-Cejudo and Casares, 2015;Finkelstein et al., 1990).Interestingly, only the anlagen of the anterior ocelli show co-expression of otd with six3 and require six3 function (Domínguez-Cejudo and Casares, 2015).Taken together, data from the rather derived fly situation would indicate a prosocerebral origin for the lateral and a mixed origin for the anterior ocelli.In the grasshopper Schistocerca gregaria with its more insect-typical development, the ocelli emerge from an anterior patterning field positive for eyes-absent and sine-oculis (Dong and Friedrich, 2005).Morphologically and based on co-expression of eyes-absent with six4, this embryonic region is similar if not identical to the insect head placode (IHP) as defined in T. castaneum (see above).In line with the mixed origin seen in flies, only the anterior part of the IHP is marked by six3, while the posterior is marked by otd.In the future, one will have to test the hypothesis that the insect head placode corresponds to the ocellar region in flies, and that this region is of mixed archicerebral and prosocerebral origin.Unfortunately, T. castaneum does not have ocelli and the fly ocelli develop from the highly diverged imaginal disks such that this question needs to be addressed in other species.The hemimetabolan cricket Gryllus bimaculatus, the grasshopper S. gregaria, or the bug O. fasciatus are excellent candidates to test this hypothesis.
We propose that the CX is built from both, archi-and prosocerebrum for the following reasons: At least four type II neuroblasts contributing to the WXYZ tracts of the central complex are located in the pars intercerebralis of grasshoppers, hence, they likely derive from the archicerebrum (Boyan and Reichert, 2011;Boyan and Williams, 1997).Further, we found that knock-down of six3 leads to the deletion of the central complex in beetles (Posnien et al., 2011b).Similarly, foxQ2 is initially co-expressed with six3 (i.e.archicerebral) and in beetles, foxQ2 positive neurons contribute to the CX and its knock-down led to aberrant CX development (He et al., 2019;Kitzmann et al., 2017).On the other hand, rx seems to be largely or even exclusively co-expressed with otd (Figure 1) but there is strong contribution of rx-positive neurons to both, columnar and tangential neurons of the CX of beetles and flies (Davis et al., 2003;Farnworth et al., 2020) and lack of rx-function led to aberrant CX development in beetles (Koniszewski, 2011) and flies (Davis et al., 2003).Hence, strong prosocerebral contribution to the CX is justified just as well.Actually, a mixed origin is likely given that the CX consists of columnar and tangential neurons, which have a basically orthogonal direction of projections into that neuropil (Boyan and Reichert, 2011;Loesel et al., 2002;Pfeiffer and Homberg, 2014;Strausfeld, 1976).For instance, the columnar neurons derive from DM1-4 neuroblasts, which map to the anterior-median region (Walsh and Doe, 2017), that is probably the archicerebrum as defined here.Conversely, at least some ellipsoid body tangential neurons stem from a neuroblast that emerges in the engrailed head spot (i.e. the prosocerebrum as defined here) and forms the EB-A1/ DALv2 neural lineage (Bridi et al., 2019;Omoto et al., 2018).
Given the difficulty comparing data between taxa and across publications, dedicated studies in relevant model systems are needed to test these hypotheses.Besides work based on the power of the D. melanogaster model system, new genome editing techniques may eventually allow genetically marking the neurons derived from defined areas of the neuroectoderm in emerging model insects such as T. castaneum and the hemimetabolan G. bimaculatus.
The archicerebrum -emerging from a region homologous to the apical organ?
Expression of the molecular markers six3 and foxQ2 in the archicerebral embryonic region suggests that this part of the insect embryo develops from a neuroectodermal region homologous to the apical plate of primary marine larvae.Centered within the apical plate, most ciliated protostome and deuterostome larvae (such as phoronids, brachiopods, echinoderms, and enteropneusts) and cnidarian larvae have an apical organ.This organ is a sensory and neuroendocrine structure comprised of early born neurons, neurosecretory cell types, sensory neurons, light sensitive cells, and ciliated cells, which may form an apical tuft (Marlow et al., 2014;Nielsen, 2005).Accordingly, taxa without primary larvae (such as arthropods or vertebrates) show no homologous structure to the apical tuft (Nielsen, 2005).Based on morphological data, no clear homologous structure has been found in insects nor vertebrates and it was suggested that, in marine invertebrates, the neural part of the apical organs may degenerate during metamorphosis (Nielsen, 2005).However, a similar anterior gene regulatory network (aGRN) specifies the anterior-most parts of embryos across animal phylogeny.This aGRN includes six3, foxQ2, rx, nkx2.1, and other genes and its activation requires repression of Wnt signaling coming from the posterior.In many animals, six3 seems to be the upstream component of the aGRN, which by mutual repression with Wnt signaling first defines the area, which is subsequently subdivided by mutual interactions among the aGRN genes (Carl et al., 2002;Darras et al., 2011;Fritzenwanker et al., 2014;Leclère et al., 2016;Lowe et al., 2003;Marlow et al., 2014;Momose et al., 2008;Oliver et al., 1995;Sinigaglia et al., 2013;Steinmetz et al., 2010;Tessmar-Raible et al., 2007;Wei et al., 2009;Yaguchi et al., 2008;Yaguchi et al., 2016).Based on this set of conserved regulators expressed in homologous regions (i.e. the anterior tip of the animal), molecular homology of this neuroectodermal region is very likely.While the cell types of the apical organ of some ciliated larvae have been described (see Marlow et al., 2014 and references cited therein), a dedicated study of potentially homologous cell types in insects has been missing.Candidates for homologous cell types in insects are the pars intercerebralis and/or pars lateralis or the insect head placode.Another intriguing possibility for homologous cells are early born pioneering neurons contributing to the anteriormost arthropod brain.In the grasshopper S. gregaria, such neurons emerge within the aGRN epidermal region and are required for the first steps of midline crossing (Boyan and Williams, 2008).In a centipede, which is a mandibulate arthropod well suited as an outgroup to insects, early born pioneer neurons with epithelial origin that might be homologous to the short-range pioneers in the grasshopper, develop from the six3/foxQ2 positive region.In addition, these neurons express apical organ markers (Hunnekuhl and Akam, 2014).This parallels observations in annelids, where some early born apical epidermal neurons are important for the early brain development (e.g.Lacalli and Berrill, 1981;Meyer et al., 2015;Tessmar-Raible et al., 2007).It should be noted that the regulation by orthologous genes does not imply homology of the structure.Therefore, in depth morphological and developmental-genetic comparative studies seem warranted to reveal the cellular and functional similarity versus divergence emerging from a clearly homologous patterning field.
Part III: Divergent patterns with relevance for the homology of eyes and olfaction Genetic interactions are not conserved to a large degree The similarity of the gene sets patterning the anterior neuroectoderm is striking and its conservation over hundreds of millions of years requires explanation.One reason could be that the regulatory interactions of the conserved genes constrain their expression, such that even small changes would have dramatic effects.We found that in Tribolium, six3 represses Wnt1 similar to findings in mouse, sea urchin, and annelids (Lagutin et al., 2003;Lavado et al., 2008;Marlow et al., 2014;Wei et al., 2009).Moreover, Xpax6 is activated by Xsix3 in Xenopus (Gestri et al., 2005), which is also true for the probably homologous mushroom body domain of ey but not for the probably non-homologous early ocular domain (Posnien et al., 2011b).However, we also found profound differences: Xotx and Xrx-1 expression are reduced in Xsix3 knock-down embryos in Xenopus (Gestri et al., 2005) in contrast to Tribolium, where otd expands and rx does not change (Posnien et al., 2011b).Most strikingly, FoxQ2 is on the one hand a very conserved gene of the aGRN but on the other hand has been lost completely in amphibians and mammalians.Further, while it is an aGRN downstream component in some animals, it has gained an upstream function in beetles (Chevalier et al., 2006;Hunnekuhl and Akam, 2014;Kitzmann et al., 2017;Ogawa et al., 2021;Sinigaglia et al., 2013;Yaguchi et al., 2008;Yu et al., 2003).In summary, despite the similarity of expression, the genetic interactions seem to be conserved only to minor degree.Hence, the observed conservation of the gene set may not derive so much from early regulatory interactions during pattern formation but rather to conserved later functions, for example in specifying cell types (Arendt, 2008;Tessmar-Raible et al., 2007) or by co-option of gene regulatory networks leading to 'homocracy' of structures (i.e.regulation by the homologous genes) without indicating classic homology (i.e.derived from a common ancestor organ; Nielsen and Martinez, 2003).
The limited level of regulatory conservation contrasts the impressive degree of biochemical conservation of the involved genes.For instance, it has been shown that mouse and fly otx/otd and ems/emx orthologs can rescue the respective mutants of the other clade, respectively (Lichtneckert et al., 2008 and references therein).This shows a striking conservation of biochemical function, which has been used as argument for claiming conserved function in the formation of the tripartite brain.Conversely, it has been argued before that conservation of the biochemical function of proteins does not mean conservation of the structures that are formed from them (Hejnol and Lowe, 2015).Given that we see fundamentally different location of for example ems/emx expression between vertebrates and insects (Figure 1), it seems that biochemical functional conservation of a transcription factor is no strong argument for homology of structures.

Vertebrate eyes: homolog to insect ocelli?
We argue that the location of the compound eye anlagen is fundamentally different from the anlage of the vertebrate eyes (Figure 3).This questions the homology on the organ level despite molecular and cellular similarities.Our arguments therefore support the previous notion that eyes evolved several times in parallel from ancestral light sensory cell types and their circuits.Hence, the molecular and cellular similarities reflect deep homology as coined by Shubin et al., 1997;Shubin et al., 2009 rather than homology on the organ level.We note that the insect ocelli are anterior visual organs that -at least based on their anterior-median position -represent alternative candidates for being homologs of the vertebrate eyes.
The evolution of the eyes has remained a controversial issue.Since the finding of eyeless/pax6 as a key upstream component of eye development in insects and vertebrates, the homology versus the convergent evolution of visual organs from ancestral cell types has been discussed intensively (Arendt, 2003;Arendt et al., 2004;Arendt et al., 2009;Erclik et al., 2009;Friedrich, 2022;Gehring, 1996;Gehring, 2005;Gehring and Ikeo, 1999;Hartenstein and Reh, 2002;Sen et al., 2013;Vopalensky and Kozmik, 2009;Wagner, 2007).On the one hand, homology of vertebrate eyes and insect compound eyes was suggested based on the involvement of eyeless/pax6, the six family of homeobox genes and other genes in the respective gene regulatory networks and of additional homologous genes being required for the development of respective interneurons (e.g.Arendt, 2003;Gehring, 2005;Hartenstein and Reh, 2002).Further, homologous location of respective primordia in otd/otx and tailless/tlx co-expressing tissues anterior to the Hox-marked trunk was used to homologize eyes across taxa.Together with similarities of the neurogenetic mechanisms used for eye formation, homology of the developmental mechanisms of fly optic lobe/ compound eye with vertebrate tectum/eye formation was suggested (Erclik et al., 2008;Erclik et al., 2009;Joly et al., 2016).Alternatively, molecular and morphological similarity of certain cell types was interpreted as homology on the level of cell types and it was argued that the visual organs and their retinal axonal circuits may have been assembled independently from ancestral cell types (Arendt et al., 2004;Arendt et al., 2009;Erclik et al., 2009;Nilsson and Arendt, 2008), a view supported by others who pointed out the differences in the eye specification networks (Wagner, 2007).Such an evolutionary scenario is suited to explain deep homology, that is the finding of molecular similarities in diverged or even non-homologous morphological structures (Shubin et al., 1997;Shubin et al., 2009).
Our data show that the vertebrate eye and the insect compound eye emerge from different regions of the neuroectoderm strongly questioning homology on the level of the organ of these eyes.The region of the vertebrate neural plate giving rise to the eyes and olfactory bulbs has been well defined by fate-mapping experiments (Fernández-Garre et al., 2002).The embryonic origin of insect eyes and olfactory brain parts (i.e.antennal luobes) has been mapped molecularly (Das et al., 2008;Dong and Friedrich, 2005;Snodgrass, 1935).The vertebrate eye anlagen are located medio-laterally in the anterior neural plate (red in Figure 3A; Inoue et al., 2000;Puelles et al., 2005;Rubenstein et al., 1998;Shimamura et al., 1995).In contrast, in grasshopper and beetles, the compound eye develops from a region between two ocular wingless domains, which arise by splitting of the early ocular stripe (brown shape in Figure 1A, I and II shows split of ocular wingless-domain; red shape in Figure 3B depicts eye anlagen) (Dong and Friedrich, 2005;Liu et al., 2006;Yang et al., 2009a;Yang et al., 2009b).Within the similarity of the molecular framework discussed above, these are clearly nonhomologous positions (compare Figure 3A with B).It should be noted that the position of the visual anlagen in D. melanogaster seem to emerge from a different location (Chang et al., 2001;Friedrich, 2013).In Supplementary file 1, we discuss, why we think that the D. melanogaster situation may be derived.In summary, our data point to an independent evolution of insect compound eyes.The genetic similarity would then stem from ancestral visual cell types independently recruited to both types of organs in line with previous suggestions of deep homology (Shubin et al., 2009).
Intriguingly, the insect ocelli emerge in an anterior-median region of the neuroectoderm not unlike the vertebrate eye anlagen (red shapes in Figure 3A, B).While unfortunately, T. castaneum does not have ocelli, we find several eye markers (optix/six3, scro/nkx2.1,rx, ey/toy/Pax6, and slp/bf1) expressed in both, the anlagen of the compound eyes and in an anterior-medial part of the neuroectoderm, that is the IHB (Figures 1 and 3).This opens the possibility that the last common ancestor had light sensory organs developing from the anterior-median region of the neuroectoderm, evolving into ocelli in insects and into the vertebrate eyes, respectively.Based on fossil evidence, it has been argued that the median eyes/ocellar systems represent the primordial visual system that evolved before the emergence of compound eyes (Schoenemann and Clarkson, 2023).Hence, in the lineage leading to the insects, the lateral complex eyes might have developed as evolutionary novelty by activating the ancestral eye specification program at a non-homologous position.Indeed, the misexpression of only one transcription factor is sufficient for the formation of functional ectopic eyes that project into the nearest ganglion in flies (Clements et al., 2008;Halder et al., 1995).This event might have happened early in arthropod evolution as spider eyes emerge from two different regions as well: The principle eyes, which are located anterior-median (similar to ocelli) and the secondary lateral eyes, which in horseshoe crabs show similarity to insect compound eyes (Friedrich, 2022;Samadi et al., 2015;Schomburg et al., 2015).
This scenario may contribute to explaining differences of the eye specification network, which have led to the suggestion of an independent evolution of the eyes (Shubin et al., 2009;Wagner, 2007).Specifically, in vertebrates, rx is crucial to initiate eye development and the network requires six3/6 function.In contrast, rx is not involved in fly compound eye development and a curious switch was observed where six3/6 was replaced by another family member, the six1/2 ortholog sine-oculis.According to our mapping, six3 and rx are expressed in close vicinity albeit in probably non-overlapping patterns in the insect head placode, which probably represents the region of ocelli development (compare Posnien et al., 2011awith Posnien et al., 2011b).The anterior fly ocelli express six3 (Domínguez-Cejudo and Casares, 2015) and we suggest that rx expression in the lateral ocelli seems possible based on our data (although this remains to be shown).
Taken together, the fundamentally different location of the eye anlagen within the early neuroectoderm means that the homology criterion of similar position is not fulfilled.This strongly suggests that the insect compound eyes are not homologous to the vertebrate eye -at least on the organ level.However, the fact that several orthologous genes are involved in the development of vertebrate and insect compound eyes suggests that homology might be found on other levels.For instance, the cell types and/or the genes that determine them could well be derived from ancestral light sensory cell types (Arendt et al., 2016;Erwin, 2020;Shubin et al., 2009).In that view, the compound eye evolved independently from vertebrate eyes by assembly of ancestral gene regulatory networks and/ or cell types at different positions.Intriguingly, the location of the ocelli anlagen at the anterior and the nearby expression of several genes required for vertebrate eye development actually imply that the ocelli are better candidates to look for homology on the level of visual organs.Unfortunately, D. melanogaster shows a derived head development (i.e. in imaginal discs) while T. castaneum has lost the ocelli.Hence, a hemimetabolan model system with an embryonic origin of ocelli might be most adequate to test this possibility.
Orthologs of Emx, Lhx5, and goosecoid mark olfactory organs at nonhomologous sites in insects versus vertebrates Similar to the eyes, we find that the anlagen of the olfactory brain regions are located at very different positions relative to the conserved anterior patterning region (Figure 3).Hence, simple homology of the olfactory organs on the organ level seems unlikely.
In vertebrates, the anlagen of the optic stalk are located lateral and anterior to the eye anlagen in the anterior neural plate (Figure 3A).In contrast, the insects olfactory organ emerges from the antennal segment (Figure 3B).Interestingly, the expression of several genes involved in olfactory development reflect these different positions.empty-spiracles is a very specific early marker for the antennal segment in T. castaneum and O. fasciatus (Birkan et al., 2011;Posnien et al., 2011b;Schinko et al., 2008) while in D. melanogaster, it marks several adjacent segments (Cohen and Jürgens, 1990) and is required for the postembryonic development of olfactory circuits (Lichtneckert et al., 2008;Sen et al., 2013).In vertebrates, emx paralogs are expressed in the anlagen of the olfactory system and in double mutants, the olfactory bulb is severely affected (Mallamaci et al., 1998;Shinozaki et al., 2002;Simeone et al., 1992a).Likewise, lhx5 is expressed in vertebrate olfactory anlagen (Moreno et al., 2003) and its beetle orthologs is expressed in the early antennal segment (Posnien et al., 2011b).Finally, goosecoid expression extends from ocular expression into the anterior antennal segment while in vertebrates it is expressed in the anterior neuroectoderm and is required for olfactory organ development among other functions (Yamada et al., 1997).
Similar to the argument discussed for the eyes, the fundamentally different location of the anlagen of the olfactory organs within the early neuroectoderm contradicts the homology of these structures on the organ level.Careful mapping of respective cells and functional data are required to test this possibility.

Outlook
The expression of orthologous developmental genes has provided valuable arguments for homology assessments.However, evolutionary divergence blurs the signal such that comparisons need to be based on data from several taxa.Now, comprehensive data are available for two holometabolous insects, leading to some robust conclusions such as the non-segmental part of the brain, homologs of the vertebrate cranial placodes and the location of the MHB homolog.Comparable data from other arthropods and protostomes would be highly welcome to test, if our conclusions were biased by holometabola-specific aspects of expression.
A number of hypotheses presented here merit more attention and further work.For instance: What cell types develop from the insect head placode and in how far do they correspond to the adenohypophyseal cell types?In how far does the independent integration of homologous cell types explain similar gene regulatory networks in different locations of the insect compound and vertebrate eye as well as the olfactory systems?And do we find molecular and morphological similarity between insect ocelli and vertebrate eyes to claim homology and how do these eyes relate to those of crustaceans and spiders?
As argued in this work, we find the molecular similarities in the anterior neuroectoderm convincing enough to claim homology between vertebrates and insects at least at the level of early patterning of the neuroectoderm.However, we remain hesitant with homologizing specific brain structures such as the insect mushroom bodies or central complex with vertebrate structures.For the time being, we also refrain from homologizing the insect ventral nerve cord and the vertebrate spinal cord.

Figure 1 .
Figure 1.Neuroectodermal gene expression in a beetle and vertebrates.(A-F) Expression patterns of orthologous genes are shown for T. castaneum (I-III) and vertebrates (IV).The beetle data are based on Posnien et al., 2011b while the vertebrate data were compiled from several species and publications and plotted onto the schematic of a mouse late neural plate (see details below).Hence, expression boundaries are less precise for vertebrates compared to the beetle data.The stages shown for T. castaneum correspond to elongating germband with five trunk stripes of Tc-wingless (I), elongated germband (II), and retracting germband (III) -stage II was used for comparison with vertebrates.The changes of expression patterns reflect pattern formation processes while cell division and/or migration play a minor role if any.(A-C) Twelve genes show a similar arrangement of expression patterns in the anterior neuroectoderm of vertebrates and insects.Some of them are expressed almost exclusively in the anterior brain neuroectoderm in both clades while others show additionally segmental expression in insects.It seems unlikely that such a degree of similarity would arise by convergent evolution especially when considering the genes with an almost exclusive anterior expression.Together with similar findings from other animal clades we take these data as strong confirmation for the homology of the anterior neuroectoderm.However, we do not claim that homology on the level of neuroectoderm patterning will necessarily translate into clear homologies of the specific neural structures that develop from those domains.Arrowheads and arrows point to homologous regions, respectively.White stars in A depict eye anlagen.(D, E) Some orthologs show clearly diverged patterns.Compare posterior boundary of ems expression (white arrowhead) with location of mid-hindbrain boundary (MHB) region Figure 1.Neuroectodermal gene expression in a beetle and vertebrates.(A-F) Expression patterns of orthologous genes are shown for T. castaneum (I-III) and vertebrates (IV).The beetle data are based on Posnien et al., 2011b while the vertebrate data were compiled from several species and publications and plotted onto the schematic of a mouse late neural plate (see details below).Hence, expression boundaries are less precise for vertebrates compared to the beetle data.The stages shown for T. castaneum correspond to elongating germband with five trunk stripes of Tc-wingless (I), elongated germband (II), and retracting germband (III) -stage II was used for comparison with vertebrates.The changes of expression patterns reflect pattern formation processes while cell division and/or migration play a minor role if any.(A-C) Twelve genes show a similar arrangement of expression patterns in the anterior neuroectoderm of vertebrates and insects.Some of them are expressed almost exclusively in the anterior brain neuroectoderm in both clades while others show additionally segmental expression in insects.It seems unlikely that such a degree of similarity would arise by convergent evolution especially when considering the genes with an almost exclusive anterior expression.Together with similar findings from other animal clades we take these data as strong confirmation for the homology of the anterior neuroectoderm.However, we do not claim that homology on the level of neuroectoderm patterning will necessarily translate into clear homologies of the specific neural structures that develop from those domains.Arrowheads and arrows point to homologous regions, respectively.White stars in A depict eye anlagen.(D, E) Some orthologs show clearly diverged patterns.Compare posterior boundary of ems expression (white arrowhead) with location of mid-hindbrain boundary (MHB) region Figure 1 continued on next page

Figure 2
for more details on the location of IHB).F: forebrain; M: midbrain; r1: rhombomere 1 of the hindbrain; open arrowhead in C I: ocular slp/bf1 domain; arrow in C II: anterior-median slp/bf1 domain; black arrowhead in C II and III: anterior-median ey/pax6 domain.

Figure
Figure1 continued

Figure 2 .
Figure 2. Mapping the insect head boundary (IHB) based on expression patterns of mid-hindbrain boundary (MHB) marker gene orthologs.Comparison of gene expression patterns between insects (A) and vertebrates (B) along the anterior-posterior axis.The insect data are based on patterns found in both T. castaneum and D. melanogaster in the early neuroectoderm around the time of delamination of neuroblasts (i.e. the endpoint of neuroectoderm patterning), which is comparable to the late neural plate stage shown in B. (A) Expression in the insect neuroectoderm is based on T. castaneum and D. melanogaster data.Where the data diverge or are not available for T. castaneum, the D. melanogaster pattern is indicated by thin lines (adopted fromUrbach, 2007).For each gene, we indicated at what position (vertical red broken lines) or in what region the IHB would be located (horizontal red broken lines) when using only that gene as marker.Considering all the evidence (i.e. the location of all red broken lines) the data place the IHB to an area covering the interface of ocular region and antennal segment (see red box).We find no support for the alternative hypothesis that puts the IHB to the deutocerebral/tritocerebral boundary(Hirth, 2010), that is one segment more posterior (see text for discussion).Ganglia are depicted as segmental structures (see Supplementary file 1 for arguments).The segment boundaries (bold black lines) are offset relative to the embryonic parasegmental units (broken black lines shown for the subesophageal ganglia).For simplicity of the schematic, the parasegment boundaries are not marked in the more anterior segments but they are defined by adjacent non-overlapping wg/hh expression, respectively.We

Figure 4 .
Figure4.Alternative views on the subdivisions of the brain anlagen.Mapping of brain regions by using expression patterns at the neuroectodermal stage from vertebrates (neural plate) (A) and insects (elongated germband stage) (B, C).For insects, alternative interpretations are shown (B versus C).In both clades, the anterior expression of six3/optix is followed by a domain with otx/otd expression while the posterior is marked by the expression of Hox-cluster genes.A region expressing neither otx/otd nor Hox genes is separating these domains.(A) In vertebrates, the mid-hindbrain boundary (MHB) emerges at the interface between otx positive and Hox gene negative cells.Note that the six3 expression limit does not reflect the boundary between fore-and midbrain anlagen.(B) View presented in this paper partially based on Urbach, 2007.Both, the subdivisions of the brain (top row) and the subdivisions of the neuroectoderm (lower row) are shown.In line with classic literature comparing insect and annelid brains, the protocerebrum is suggested to be subdivided into an anterior archicerebrum and a posteriorly adjacent prosocerebrum.We suggest six3/optix and otd to be markers for these regions, respectively.The antennal segment is considered serially homologous to trunk segments.Being the anterior-most segment and being the only segment free of Hox gene expression, it might have distinctive properties.The parasegment boundary separating the non-segmental pre-antennal (or ocular) region from the antennal segment represents the insect head boundary (IHB).Its location matches the one of the MHB of vertebrates (red broken lines).We hesitate to make strong statements of homology between vertebrates and insects for the region posterior to the IHB/MHB anlagen.The data supporting this view are combined from flies and beetles.(C) Alternative view based onHirth et al., 2003, which was recently updated byBridi et al., 2020 andStrausfeld et al., 2022.In this view, the antennal region is not a segment -the intercalary segment is the anterior-most serially homologous trunk segment.The region corresponding to the MHB is located at the boundary between antennal region and the intercalary segment.See text for arguments supporting the view shown in B and Supplementary file 1 for discussion on possible reasons for diverging interpretation.