Contrasting geographic structure in evolutionarily divergent Lake Tanganyika catfishes

Geographic isolation is suggested to be among the most important processes in the generation of cichlid fish diversity in East Africa’s Great Lakes, both through isolation by distance and fluctuating connectivity caused by changing lake levels. However, even broad scale phylogeographic patterns are currently unknown in many non-cichlid littoral taxa from these systems. To begin to address this, we generated restriction- site-associated DNA sequence (RADseq) data to investigate phylogeographic structure throughout Lake Tanganyika (LT) in two broadly sympatric rocky shore catfish species from independent evolutionary radiations with differing behaviors: the mouthbrooding claroteine, Lophiobagrus cyclurus, and the brood-parasite mochokid, Synodontis multi- punctatus. Our results indicated contrasting patterns between these species, with strong lake-wide phylogeographic signal in L. cyclurus including a deep divergence be- tween the northern and southern lake basins. Further structuring of these populations was observed across a heterogeneous habitat over much smaller distances. Strong population growth was observed in L. cyclurus sampled from shallow shorelines, sug- gesting population growth associated with the colonization of new habitats following lake-level rises. Conversely, S. multipunctatus, which occupies a broader depth range, showed little phylogeographic structure and lower rates of population growth. Our findings suggest that isolation by distance and/or habitat barriers may play a role in the divergence of non-cichlid fishes in LT, but this effect varies by species

The Amazon river is a suture zone for a polyphyletic group of co-mimetic heliconiine butterflies

The Amazon basin contains few obvious geographic barriers, yet it is the most biodiverse region on Earth. One hypothesis to explain its diversity is that the very large rivers promote allopatric divergence. Consistent with this, maps of heliconiine butterflies made from museum specimens show high subspecies richness close to the Amazon river, suggesting that it may produce or maintain intra-specific phenotypic variability. However, museum data are subject to strong spatial biases (the ‘Wallacean shortfall' of distribution data), raising the possibility that this pattern is a sampling artefact. To test this, we systematically collected along a ~900 km north–south transect running through central Amazonia. We found a significant association between phenotypic diversity and major rivers, with distance from the Amazon river explaining 61% of the variance in the mean polymorphism of 25 species. This association is partly because many species exhibit different phenotypes on either side of the river. Nonetheless, we also find sites with high polymorphism close to the river, indicating continual cross-river dispersal. Our results strongly suggest the presence of a suture zone (a region where multiple species have hybrid zones) near the city of Manaus. However, the effect of the river on spatial patterns of intra-specific phenotypic diversity depends on a species' mimetic phenotype. Rather than being absolute barriers, our results support the idea that rivers can act as partial barriers that trap moving hybrid zones, resulting in a suture zone. As such, the wide Amazonian rivers help generate and maintain colour pattern diversity, but to date there is no evidence that they lead to speciation in our study group

Exploring the Expression of Cardiac Regulators in a Vertebrate Extremophile: The Cichlid Fish Oreochromis (Alcolapia) alcalica

Although it is widely accepted that the cellular and molecular mechanisms of vertebratecardiac development are evolutionarily conserved, this is on the basis of data from only a fewmodel organisms suited to laboratory studies. Here, we investigate gene expression during cardiacdevelopment in the extremophile, non-model fish species, Oreochromis (Alcolapia) alcalica. Wefirst characterise the early development of O. alcalica and observe extensive vascularisation across the yolk prior to hatching. We further investigate heart development by identifying andcloning O. alcalica orthologues of conserved cardiac transcription factors gata4, tbx5, and mef2cfor analysis by in situ hybridisation. Expression of these three key cardiac developmentalregulators also reveals other aspects of O. alcalica development, as these genes are expressed indeveloping blood, limb, eyes, and muscle, as well as the heart. Our data support the notion that O.alcalica is a direct-developing vertebrate that shares the highly conserved molecular regulation ofthe vertebrate body plan. However, the expression of gata4 in O. alcalica reveals interestingdifferences in the development of the circulatory system distinct from that of the well-studiedzebrafish. Understanding the development of O. alcalica embryos is an important step towardsproviding a model for future research into the adaptation to extreme conditions; this is particularlyrelevant given that anthropogenic-driven climate change will likely result in more freshwaterorganisms being exposed to less favourable conditions

The genetic architecture of adaptation: convergence and pleiotropy in Heliconius wing pattern evolution

<p>This is genotype and phenoytype data from the QTL analyses for the paper:</p><p><br></p><p>THE GENETIC ARCHITECTURE OF ADAPTATION: CONVERGENCE AND PLEIOTROPY IN HELICONIUS WING PATTERN EVOLUTION<br></p><p><br></p><p>Each Zip archive, contains R scripts and data needed for each analysis</p><p><br></p

Genomic architecture of adaptive color pattern divergence and convergence in Heliconius butterflies

Identifying the genetic changes driving adaptive variation in natural populations is key to understanding the origins of biodiversity. The mosaic of mimetic wing patterns in Heliconius butterflies makes an excellent system for exploring adaptive variation using next-generation sequencing. In this study, we use a combination of techniques to annotate the genomic interval modulating red color pattern variation, identify a narrow region responsible for adaptive divergence and convergence in Heliconius wing color patterns, and explore the evolutionary history of these adaptive alleles. We use whole genome resequencing from four hybrid zones between divergent color pattern races of Heliconius erato and two hybrid zones of the co-mimic Heliconius melpomene to examine genetic variation across 2.2 Mb of a partial reference sequence. In the intergenic region near optix, the gene previously shown to be responsible for the complex red pattern variation in Heliconius, population genetic analyses identify a shared 65-kb region of divergence that includes several sites perfectly associated with phenotype within each species. This region likely contains multiple cis-regulatory elements that control discrete expression domains of optix. The parallel signatures of genetic differentiation in H. erato and H. melpomene support a shared genetic architecture between the two distantly related co-mimics; however, phylogenetic analysis suggests mimetic patterns in each species evolved independently. Using a combination of next-generation sequencing analyses, we have refined our understanding of the genetic architecture of wing pattern variation in Heliconius and gained important insights into the evolution of novel adaptive phenotypes in natural populations

Geographic contrasts between pre- and postzygotic barriers are consistent with reinforcement in Heliconius butterflies.

Identifying the traits causing reproductive isolation and the order in which they evolve isfundamental to understanding speciation. Here, we quantify prezygotic and intrinsicpostzygotic isolation between allopatric, parapatric and sympatric populations of thebutterflies Heliconius elevatus and Heliconius pardalinus. Sympatric populations from theAmazon (H. elevatus and H. p. butleri) exhibit strong prezygotic isolation and rarely mate incaptivity; however, hybrids are fertile. Allopatric populations from the Amazon(H. p. butleri) and Andes (H. p. sergestus) mate freely when brought together in captivity, butthe female F1 hybrids are sterile. Parapatric populations (H. elevatus and H. p. sergestus)exhibit both assortative mating and sterility of female F1s. Assortative mating in sympatricpopulations is consistent with reinforcement in the face of gene flow, where the driving force,selection against hybrids, is due to disruption of mimicry and other ecological traits ratherthan hybrid sterility. In contrast, the lack of assortative mating and hybrid sterility observedin allopatric populations suggests that geographic isolation enables the evolution of intrinsicpostzygotic reproductive isolation. Our results show how the types of reproductive barriersthat evolve between species may depend on geography