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Increasing rates of hybridization and introgression in managed populations of freshwater fish are a major threat to the long-term viability of native species. The conservation challenge begins with identifying native gene pools. For brown trout (Salmo trutta Linnaeus, 1758) in the Upper Danube drainage, this task is complicated by the presence of both naturally and anthropogenically induced admixture of highly divergent lineages (Atlantic and Danubian). Herein, a ddRADseq protocol was used to type 377 individuals from 24 populations in the Upper Danube in Austria and Germany, and from reference populations from adjacent drainages and commercial hatcheries. High genetic differentiation at small geographic scales was found among pure Danubian-lineage populations, especially in the Kalkalpen National Park (Austria). In the Upper Danube drainage of Germany, as well as in the Rhine and Elbe drainages, brown trout populations were predominantly of Atlantic-lineage origin – as were those of all commercial hatcheries. Most populations, however, showed various degrees of admixture between Danubian and Atlantic lineages, hypothesized to be the result of both natural and anthropogenic processes. We highlight the conservation value of pure Danubian-lineage populations, and the challenges promoting conservation of naturally admixed populations, while discouraging continued stocking and admixture via management activities. [ABSTRACT FROM AUTHOR]

Phylogenetic studies focusing on Salmonidae have revealed significant obstacles in trying to clarify some interspecific relationships within the Salmoninae subfamily, due to a limited number of markers typed, conflicting phylogenetic signals and ancient hybridization events. To infer reliable phylogenetic relationships, evaluate several putative scenarios of ancient hybridization, and estimate divergence times within Salmoninae, we applied restriction-site associated DNA sequencing (RAD-seq) to 43 samples, including 26 genetic lineages across 21 species, largely representing the subfamily, with an emphasis on the genus Salvelinus . We identified 28,402 loci and 28,363 putatively unlinked SNPs, which were used in downstream analyses. Using an iterative k-means partitioned dataset and a Maximum Likelihood approach; we generated a well-supported phylogeny, providing clear answers to several previous phylogenetic uncertainties. We detected several significant introgression signals, presumably ancient, in the genus Salvelinus . The most recent common ancestor of Salmonidae dates back to approximately 58.9 MY ago (50.8–64 MY) and the crown age of Salmoninae was estimated to be 37.7 MY (35.2–40.8 MY) using a Bayesian molecular dating analysis with a relaxed molecular clock. The divergence among genera of the subfamily occurred between the late Eocene and middle of the Miocene (≈38–11 MY) such as the divergence between the genus Oncorhynchus and Salvelinus , which we estimated to 21.2 MY ago (95% HPD: 19.8–23.0 MY), while species diversification took place mainly during the Neogene (≈22–1.5 MY), with more than half of these events occurring in the last 10 MY. [ABSTRACT FROM AUTHOR]

Highlights: [•] Phylogenetic analyses of a comprehensive multilocus dataset comprising almost all haplotilapiine cichlid tribes. [•] Enlarged mtDNA (ND2) dataset comprising about 60% of all described Pseudocrenilabrinae genera. [•] A novel classification of “Tilapia” and related lineages defined by putative molecular synapomorphies. [ABSTRACT FROM AUTHOR]

The Mozambique tilapia Oreochromis mossambicus (Teleostei, Cichlidae) has been transplanted worldwide during the 20th century, and now belongs to the list of the most invasive species. Using a geometric morphometric approach, we describe body shape differentiation among 15 populations from native (Mozambique) and invaded (New Caledonia and Guadeloupe) ranges. A dominant phylogeographic signal is detected, despite the broad range of environmental conditions at the local scale. This result suggests that phylogeographic background rather than phenotypic plasticity responding to environmental variation constitutes the main factor correlated with shape divergence. This could result from successive founder events that occurred during the process of colonization of new geographic areas, and therefore strongly suggests heritable phenotypic differentiation. In addition, shape changes along a major axis of divergence hypothetically refer to different swimming abilities, possibly related to divergent functional requirements between the native and invaded ranges. Overall, patterns of contemporary shape diversification in O. mossambicus probably result from both phylogenetic constraints and adaptive divergence processes. We show that critically taking into account recent phylogenetic history of populations as a constraint on rapid phenotypic divergence is necessary for an improved view of contemporary evolution. © 2012 The Linnean Society of London, Biological Journal of the Linnean Society, 2012, 105, 369-381. [ABSTRACT FROM AUTHOR]

Abstract: The Haplochromini are by far the most species-rich cichlid fish tribe that originated along with the so-called primary radiation of the Lake Tanganyika cichlid species flock, i.e. at the same time during which the majority of the endemic Lake Tanganyika cichlid tribes emerged. Unlike the other tribes, the haplochromines are not restricted to Lake Tanganyika but distributed throughout Africa, except for the northwestern part of the continent. Haplochromine cichlids seeded the adaptive radiation of cichlid fishes in Lakes Malawi, Kivu, Victoria, Turkana, as well as in the now extinct paleo-Lake Makgadikgadi. Here we present a comprehensive phylogenetic and phylogeographic analysis of haplochromine cichlids that is based upon DNA sequences of two mitochondrial gene segments of riverine taxa covering all major African biogeographic regions where haplochromines are found. Our analysis revealed that six lineages of haplochromines originated within a short period of time, about 5.3–4.4MYA. These haplochromine lineages show a highly complex phylogeographic pattern, probably severely influenced by climate- and/or geology-induced changes of the environment, with river capture events most likely playing an important role for species dispersal. [Copyright &y& Elsevier]

Background: Traditionally the rapid origin of megadiverse species flocks of extremely closely related species is explained by the combinatory action of three factors: Disruptive natural selection, disruptive sexual selection and partial isolation by distance. However, recent empirical data and theoretical advances suggest that the diversity of complex species assemblages is based at least partially on the hybridization of numerous ancestral allopatric lineages that formed hybrids upon invasion of new environments. That reticulate speciation within species flocks may occur under sympatric conditions after the primary formation of species has been proposed but not been tested critically. Results: We reconstructed the phylogeny of a complex cichlid species flock confined to the tiny Cameroonian crater lake Barombi Mbo using both mitochondrial and nuclear (AFLP) data. The nuclear phylogeny confirms previous findings which suggested the monophyly and sympatric origin of the flock. However, discordant intra-flock phylogenies reconstructed from mitochondrial and nuclear data suggest strongly that secondary hybridization among lineages that primarily diverged under sympatric conditions had occurred. Using canonical phylogenetic ordination and tree-based tests we infer that hybridization of two ancient lineages resulted in the formation of a new and ecologically highly distinct species, Pungu maclareni. Conclusions: Our findings show that sympatric hybrid speciation is able to contribute significantly to the evolution of complex species assemblages even without the prior formation of hybrids derived from allopatrically differentiated lineages. [ABSTRACT FROM AUTHOR]

Studies the existence of sympatric speciation in crater like cichlids representing monophyletic lineages in Lakes Malawi and Tanganyika of East Africa. Mitochondrial DNA analysis; Colonization of the lake; Sympatric diversification.

Here, we combined archived mitochondrial sequences for Ponto-Caspian gobiids with new sequences from the south Caspian basin to assess and evaluate its gobioid diversity and taxonomy, and to provide a first mitochondrial-based phylogenetic and phylogeographic framework. We demonstrate that: (i) Proterorhinus nasalis is the tubenose goby taxon in the saline waters of the southern Caspian Sea, whereas the name Pr. semipellucidus for the Azov/northern Caspian Sea/Volga River populations is likely be resurrected depending on the outcome of an integrative taxonomical approach; (ii) the deep-water goby Ponticola bathybius should be re-assigned to the genus Neogobius, as it is the sistergroup of N. melanostomus; (iii) specimens previously identified as Po. cyrius and Po. iljini from the south Caspian basin appear conspecific with Po. iranicus and Po. gorlap, respectively, and should be omitted from the checklist of Iranian and south Caspian freshwater fishes; (iv) the low stand of the Caspian Sea during the Tyurkyanian regression is inferred to have led to the isolation and evolution of Po. iranicus; and (v) similarities in genetic background, and invasion history of Rhinogobius sp. and Pseudorasbora parva in Iran and Turkmenistan indicate that the initial introduction of both species into the region possibly originated from Japan in the 1980s. [ABSTRACT FROM AUTHOR]

The highly diverse tropical freshwater fish family Cichlidae is sparsely represented in the fossil record. Here we describe the new cichlid †Tugenchromis pickfordi, gen. et sp. nov., from the Upper Miocene (9–10 Ma) of central Kenya. The new taxon possesses a unique combination of characters, including six lateral line foramina on the lacrimal, three lateral line segments, cycloid scales, and a low number of vertebrae (29), dorsal fin spines (13), and dorsal soft rays (9). Its lacrimal morphology and tripartite lateral line suggest an affinity with the present-day Lake Tanganyika tribes Ectodini and Limnochromini, and thus with members of the ‘East African Radiation’ among the African cichlids. To further elucidate the relationships of †T. pickfordi, we used a comprehensive comparative data set comprising meristic data from all present-day tribes of the ‘East African Radiation.’ Principal coordinates analyses support links between the fossil and Ectodini + Limnochromini, and additionally with modern Haplochromini. We conclude that †T. pickfordicould be an extinct lineage within the ‘most ancient Tanganyika tribes,’ or a stem lineage of the ‘ancient Tanganyika mouthbrooders.’ A direct relationship to the Haplochromini is unlikely because its members do not exhibit the derived characteristics of the lacrimal as seen in †T. pickfordi. Because Lake Tanganyika is located in the western branch of the East African Rift System, †T. pickfordifrom the eastern branch supports the ‘melting-pot Tanganyika hypothesis,’ which posits that the cichlids of modern Lake Tanganyika are derived from riverine lineages that had already diversified prior to the lake formation. http://zoobank.org/urn:lsid:zoobank.org:pub:37520070-99B3-463C-B8E6-9452D1F62722 SUPPLEMENTAL DATA—Supplemental materials are available for this article for free atwww.tandfonline.com/UJVP. Citation for this article: Altner, M., U. K. Schliewen, S. B. R. Penk, and B. Reichenbacher. 2017 . †Tugenchromis pickfordi, gen. et sp. nov., from the upper Miocene—a stem-group cichlid of the ‘East African Radiation’. Journal of Vertebrate Paleontology. DOI: 10.1080/02724634.2017.1297819. [ABSTRACT FROM AUTHOR]

The high diversity of extant gobiids (Gobiidae: Teleostei) makes taxonomic and phylogenetic interpretation of fossil members of the clade a difficult task. To facilitate future taxonomic and systematic work on the group, we have assembled a morphological reference database encompassing skeletal characters, an otolith atlas and otolith morphometric data of 25 present-day species from the European Gobius lineage (s.l.) that represent 18 different genera and include all nine sublineages. We show that: (1) skeletal traits and morphometric otolith variables can be diagnostic for a sublineage; (2) otolith morphology allows identification at the genus and species levels; and (3) the number of anal-fin rays and details of the otolith margins can be used to discriminate closely related dwarf gobies. The skeletal and otolith characters are largely stable in the marine gobies analysed here, whereas freshwater gobies (Padogobius , Ponto-Caspian gobies) are far more variable. This might be related to the conquest by Padogobius and Ponto-Caspian gobies of freshwater and low-salinity habitats, in which environmental conditions can fluctuate widely. We anticipate that the database presented here can be used as a valuable reference tool to assess the relationships of fossil gobiids and increase our knowledge of the evolutionary history of the group as a whole. [ABSTRACT FROM AUTHOR]

Two new Kneria species, K. luansaensis sp. nov. and K. maxi sp. nov., are described from the Luansa River, a left bank tributary of the lower Luapula in the Bangweulu–Mweru ecoregion, based on an integrative approach using morphological and COI barcoding evidence. While K. luansaensis sp. nov. occurs from the source of the Luansa further downstream to above the last of the three Sanshifolo Falls, K. maxi sp. nov. only occurs downstream of all these three major falls. In Kneria, males of about ≥ 33 mm LS have an opercular and a postopercular organ. The number of lamellae on the latter seems to contain some alpha-taxonomic information, although this requires further study as allometric changes occur at about ≤ 45 mm LS. Additional external morphological characters differ between sexes, i.e., the (i) pectoral fin width (wider in males than females), (ii) dorsal fin height (longer in males than females), and (iii) length of the longest ray of the lower caudal fin lobe (longer in males than females). Agriculture, fishing with ichthyotoxines, and logging are the most pressing threats on the Luansa and thus to both the new species. Their discovery in one of the rivers of the Kundelungu Plateau and its surroundings located outside the present-day boundaries of the Kundelungu National Park highlights the need for a refined and improved protection strategy for this freshwater key biodiversity area. [ABSTRACT FROM AUTHOR]

Few studies have systematically investigated mid- or long-term temporal changes of biological characteristics in invasive alien species considering the different phases of an invasion. We studied the invasion performance of one of the most invasive species worldwide, the round goby Neogobius melanostomus, from total absence over first occurrence until establishment from 2010 to 2015 in the upper Danube River. After an upstream movement of the invasion front of about 30 river km within four years, the pattern that round goby pioneering populations significantly differ from longer established ones has been confirmed: Pioneering populations at the invasion front comprised more females than males, and adult specimens with a larger body size compared to those at longer inhabited areas. On the population-level, the proportion of juveniles increased with time since invasion. The results of this study provide support for the previously postulated ´bigger is better´ and ´individual trait utility´ hypotheses explaining invasion success in round goby. Pioneering invaders with their greater exploratory behavior, highly adaptive phenotypic plasticity and increased competitive ability seem to act as prime emperors of new habitats, strongly following and benefiting from man-made river-bank structures. [ABSTRACT FROM AUTHOR]

A new species, Parakneria alytogrammus, is described from the main stream of the Upper Lufira River. This species is easily distinguished from its congeners from the Congo Basin by its unique colouration, consisting of a low number of transversal bands on each of the caudal‐fin lobes, 2 (vs. 3–5) and the presence of an uninterrupted lateral mid‐longitudinal black band in fresh and preserved specimens (vs. absent). In addition, the new species differs from its Upper Lualaba congeners by the narrow width of its pectoral‐fin base, 4.8–5.6% LS [vs. wider, 8.2–10.1% for P. lufirae, 8.6% LS for P. damasi (holotype), and 7.6–7.9% LS for P. thysi]. Finally, it differs from the only species currently known from the Luapula‐Mweru system, P. malaissei, by having a short post‐dorsal distance, 36.4–36.6% LS (vs. longer, 38.6–41.1% LS) and a short post‐pelvic distance of 40.0–40.6% LS (vs. longer, 41.4–44.1% LS). Mitochondrial DNA‐haplotypes of P. alytogrammus sp. nov. form a clade, which is sister to the P. thysi clade, and from which it diverges by a genetic (Kimura 2‐parameter and uncorrected p) distance of 0.7% in the COI‐barcoding locus. The Upper Lufira, one of the sub‐basins of the Upper Congo Basin, remains poorly explored relative to its fish fauna. In contrast, the region is well explored with regard to its mineral wealth. Unfortunately, mining exploitation is carried out in the region without proper concern for the environment. Thus, the discovery of this new species for science calls for increased protection and aquatic biodiversity exploration in this mining region. [ABSTRACT FROM AUTHOR]

The South Caspian Sea sub-basin, owing to its complex paleogeographic history and habitat diversity, represents a center of endemism and a high-priority conservation area for the gobiid genus Ponticola. However, very little is currently known about most biological aspects of these species in general, and this sub-basin is highly threatened by anthropogenic activities. Here we examined the phylogeographic patterns, genetic diversity, and population structure of the endemic Caspian Sea species P. gorlap, in this evolutionary distinctive and ecologically threatened Caspian sub-basin. Mitochondrial DNA control region sequences and otolith shape variations were analyzed from 472 individuals at seven South Caspian localities. Results showed: (i) two shared and eight private haplotypes, distinguished by shallow divergences, (ii) pairwise ΦST values among locations, ranging from − 0.052 to 1.00; with most of the highest between Sefidroud/Kaboudval and the other samples, (iii) genetic diversity was generally low, smaller at Kaboudval/Nekaroud, and highest at Babolroud, (iv) non-unimodal mismatch distribution and neutrality tests both rejected a recent demographic expansion scenario, (v) otolith shape analysis revealed significant differences among samples, the highest between Sefidroud/Kaboudval and the others, and (vi) Mantel tests confirmed that both pairwise ΦST and otolith shape differences were more correlated to each other than with geographic distances. Different scenarios are discussed to explain the observed patterns of genetic and otolith shape variations and population structure of P. gorlap, including possible roles of euryhalinity, and presence of migratory and resident forms. [ABSTRACT FROM AUTHOR]

The small cyprinid genus Prolabeops Schultz, 1941 is restricted to the Nyong and Sanaga River systems in Cameroon. In the past, the genus had been suggested to be either a member of the Labeoninae, Torinae or the Smiliogastrinae mainly on the basis of morphological similarities, and it is nowadays considered as incertae sedis within the Cypriniformes. This study provides the first attempt to reveal the phylogenetic position of Prolabeops using molecular data. For this purpose, the authors sequenced a large fraction of the mitochondrial genome (c. 13,600 bp), including all mitochondrial protein coding genes, of two Prolabeops melanhypopterus specimens and an additional four Enteromius specimens. The large‐scale phylogenetic analysis was based on an alignment including all mitochondrial protein coding genes of 902 specimens representing c. 899 cypriniform species. Prolabeops was clearly recovered within the African Smiliogastrinae, forming a weakly supported clade together with Enteromius jae, Enteromius hulstaerti and Barboides gracilis. The study data underline the urgent need of a thorough taxonomic revision of the small African barbs collectively placed in the genus Enteromius. [ABSTRACT FROM AUTHOR]

Freshwater habitats of the Caucasus biodiversity hotspot represent a center of endemism for the gobiid genus Ponticola Iljin, 1927. Hitherto, large‐scale molecular studies, owing to restricted taxon and geographical sampling, have failed to give an elaborate picture of diversity and evolutionary history of these species. Here, to contribute to filling this gap, we assessed taxonomic diversity, phylogeography and evolutionary history for the south Caspian populations of Ponticola presently classified as P. iranicus and P. patimari, using an integrative taxonomic approach comprising an entire geographic range sampling, and analyses of mitochondrial DNA haplotypes, the head lateral line system, otolith shape, and meristic and morphometric variation. All freshwater samples of the P. syrman group belong to a monophyletic clade with two main subclades: a small subclade confined to the upper Sefidroud sub‐basin including the type locality of P. iranicus and a large subclade with three geographically constrained haplogroups (Hg1, Hg2, and Hg3), comprising the rest of the distribution. Hg1 showed an eastern distribution including the type locality of P. patimari, while Hg2 and Hg3 are sister groups with central and western‐central distributions, respectively. The freshwater clade diverged from P. syrman during the Tyurkyanian low stand (~150 m b.s.l. lasting ~0.1 Myr), while the divergence of P. iranicus and P. patimari and radiations within P. patimari took place during the Bakunian high stand (up to 50 m a.s.l. lasting ~378–480 kya). Species delimitation analyses indicated two distinct species, corresponding to each main subclade. Although the otolith shape and lateral line analyses did not reflect with phylogeographic pattern, PCA and DFA plots of meristic and morphometric data showed a clear separation of the two major subclades corresponding to P. iranicus and P. patimari, suggesting the presence of significant morphological variation meriting formal taxonomic recognition. Overall, our findings (i) reveal the presence of two freshwater endemic species in the P. syrman group, and pending further investigation, hypothesize the presence of a third cryptic species; (ii) revise and document a narrow distributional range and low diversity for P. iranicus, in contrast to a wider distributional range and high diversity for P. patimari; (iii) suggest that the climatic oscillations of the Pleistocene were associated with the cladogenesis within the P. syrman group; and (iv) allowed for the recognition of conservation units and proposition of management measures. [ABSTRACT FROM AUTHOR]

A long history of research focused on the East Africa cichlid radiations (EAR) revealed discrepancies between mtDNA and nuclear phylogenies, suggesting that interspecific hybridisation may have been significant during the radiation of these fishes. The approximately 250 cichlid species of Lake Tanganyika have their roots in a monophyletic African cichlid assemblage, but controversies remain about the precise phylogenetic origin and placement of different lineages and consequently about L. Tanganyika colonization scenarios. 3312 AFLP loci and the mitochondrial ND2 gene were genotyped for 91 species representing almost all major lacustrine and riverine haplotilapiine east African cichlid lineages with a focus on L. Tanganyika endemics. Explicitly testing for the possibility of ancient hybridisation events, a comprehensive phylogenetic network hypothesis is proposed for the origin and diversification of L. Tanganyika cichlids. Inference of discordant phylogenetic signal strongly suggests that the genomes of two endemic L. Tanganyika tribes, Eretmodini and Tropheini, are composed of an ancient mixture of riverine and lacustrine lineages. For the first time a strong monophyly signal of all non-haplochromine mouthbrooding species endemic to L. Tanganyika (“ancient mouthbrooders”) was detected. Further, in the genomes of early diverging L. Tanganyika endemics Trematocarini, Bathybatini, Hemibatini and Boulengerochromis genetic components of other lineages belonging to the East African Radiation appear to be present. In combination with recent palaeo-geological results showing that tectonic activity in the L. Tanganyika region resulted in highly dynamic and heterogeneous landscape evolution over the Neogene and Pleistocene, the novel phylogenetic data render a single lacustrine basin as the geographical cradle of the endemic L. Tanganyika cichlid lineages unlikely. Instead a scenario of a pre-rift origin of several independent L. Tanganyika precursor lineages which diversified in ancient rivers and precursor lakes and then amalgamated in the extant L. Tanganyika basin is put forward as an alternative: the 'melting pot Tanganyika' hypothesis. [ABSTRACT FROM AUTHOR]

Several hundred catfish species (order: Siluriformes) belonging to 11 families inhabit Africa, of which at least six families are endemic to the continent. Although four of those families are well‐known to belong to the 'Big‐Africa clade', no previous study has addressed the phylogenetic placement of the endemic African catfish family Austroglanididae in a comprehensive framework with molecular data. Furthermore, interrelationships within the 'Big‐Africa clade', including the most diverse family Mochokidae, remain unclear. This study was therefore designed to help reconstruct inter‐ and intrarelationships of all currently valid mochokid genera, to infer their position within the 'Big Africa clade' and to establish a first molecular phylogenetic hypothesis of the relationships of the enigmatic Austroglanididae within the Siluriformes. We assembled a comprehensive mitogenomic dataset comprising all protein coding genes and representing almost all recognized catfish families (N = 33 of 39) with carefully selected species (N = 239). We recovered the monophyly of the previously identified multifamily clades 'Big Asia' and 'Big Africa' and determined Austroglanididae to be closely related to Pangasiidae, Ictaluroidea and Ariidae. Mochokidae was recovered as the sister group to a clade encompassing Auchenoglanididae, Claroteidae, Malapteruridae and the African Schilbeidae, albeit with low statistical support. The two mochokid subfamilies Mochokinae and Chiloglanidinae as well as the chiloglanid tribe Atopochilini were recovered as reciprocally monophyletic. The genus Acanthocleithron forms the sister group of all remaining Mochokinae, although with low support. The genus Atopodontus is the sister group of all remaining Atopochilini. In contrast to morphological reconstructions, the monophyly of the genus Chiloglanis was strongly supported in our analysis, with Chiloglanis macropterus nested within a Chiloglanis sublineage encompassing only other taxa from the Congo drainage. This is an important result because the phylogenetic relationships of C. macropterus have been controversial in the past, and because we and other researchers assumed that this species would be resolved as sister to most or all other members of Chiloglanis. The apparent paraphyly of Synodontis with respect to Microsynodontis provided an additional surprise, with Synodontis punu turning out to be the sister group of the latter genus. [ABSTRACT FROM AUTHOR]

Few studies have systematically investigated differences in performance, morphology and parasitic load of invaders at different stages of an invasion. This study analyzed phenotype-environment correlations in a fish invasion from initial absence until establishment in the headwater reach of the second largest European river, the Danube. Here, the round goby (Neogobius melanostomus) formed 73% of the fish abundance and 58% of the fish biomass in rip-rap bank habitats after establishment. The time from invasion until establishment was only about two years, indicating rapid expansion. Founder populations from the invasion front were different from longer established round goby populations in demography, morphology, feeding behaviour, sex ratio and parasitic load, indicating that plasticity in these traits determines invasion success. Competitive ability was mostly dependent on growth/size-related traits rather than on fecundity. As revealed by stable isotope analyses, specimens at the invasion front had a higher trophic position in the food web and seem to benefit from lower food competition. Somatic performance seems to be more important than investment in reproduction during the early stages of the invasion process and upstream-directed range expansion is not caused by out-migrating weak or juvenile individuals that were forced to leave high density areas due to high competition. This mechanism might be true for downstream introductions via drift. Greater abundance and densities of acanthocephalan endoparasites were observed at the invasion front, which contradicts the expectation that invasion success is determined by lower parasitic pressure in newly invaded areas. Overall, the pronounced changes in fish and invertebrate communities with a dominance of alien species suggest invasional meltdown and a shift of the upper Danube River towards a novel ecosystem with species that have greater resistance to goby predation. This seems to contribute to overcoming biological resistance and improve rapidity of dispersal. [ABSTRACT FROM AUTHOR]

Abstract: Nicaraguan Midas cichlids from crater lakes have recently attracted attention as potential model systems for speciation research, but no attempt has been made to comprehensively reconstruct phylogenetic relationships of this highly diverse and recently evolved species complex. We present a first AFLP (2793 loci) and mtDNA based phylogenetic hypothesis including all described and several undescribed species from six crater lakes (Apoyeque, Apoyo, Asososca Leon, Masaya, Tiscapa and Xiloá), the two great Lakes Managua and Nicaragua and the San Juan River. Our analyses demonstrate that the relationships between the Midas cichlid members are complex, and that phylogenetic information from different markers and methods do not always yield congruent results. Nevertheless, monophyly support for crater lake assemblages from Lakes Apoyeque, Apoyo, A. Leon is high as compared to those from L. Xiloá indicating occurrence of sympatric speciation. Further, we demonstrate that a ‘three species’ concept for the Midas cichlid complex is inapplicable and consequently that an individualized and voucher based approach in speciation research of the Midas cichlid complex is necessary at least as long as there is no comprehensive revision of the species complex available. [Copyright &y& Elsevier]

The significance of sympatric speciation is one of the most controversial topics in evolutionary biology. Theory suggests that different factors can lead to speciation in full geographical contact, including selection and nonrandom mating. Strict criteria have been established for assessing sympatric speciation, which have been met in only a very few cases. Here, we investigate differentiation among sympatric morphospecies and color morphs of “roundfin” sailfin silversides (Telmatherinidae), small freshwater fish endemic to ancient Lake Matano in Central Sulawesi (Indonesia). Morphospecies are distinct according to body shape (geometric morphometrics), population structure (population-level amplified fragment length polymorphism [AFLP] markers), ecology, and mating behavior (habitat transects, stomach contents). Explorative genome scans based on AFLPs indicate that divergent selection affects only 1.3–4.2% of the analyzed loci, suggesting an early stage of speciation. Transect data demonstrate strong assortative mating and adaptive niche differentiation. However, we find no restrictions in gene flow among the conspicuous male color morphs. In summary, our data are consistent with a sympatric mode of divergence among three morphospecies under conditions effectively ruling out allopatric scenarios. Substantial, but incomplete, reproductive isolation suggests an early stage of speciation, most likely due to ecological selection pressure. [ABSTRACT FROM AUTHOR]

In the course of ongoing survey work in the lower Congo River, two collections of an underscribed species of the predatory cyprinid genus Raiamas have been made: one in the Congo main channel in the vicinity of Inga, and a second in the Inkisi River, a large south bank tributary of the Congo. Discovery of this new taxon has prompted a reexamination of potentially related taxa of adjacent regions and an attempt to provide generic diagnoses for the morphologically similar cyprinid genera Leptocypris, Raiamas, and Opsaridium. Based on a series of derived features of the neurocranium, pectoral girdle, jaws, and suspensorinm, anatomical diagnoses for the three cyprinid genera are provided. We reassign Opsaridium christyi to Raiamas and Raiamas weeksii to Leptocypris. These two generic reassignments and the discovery of the new Raiamas bring the number of species of Raiamas confirmed from the lower Congo River to four: R. salmolucius, R. buchholzi, R. christyi, and the new species, R. kheeli, described herein. The reassignment of Opsaridium weeksii to Leptotypris raises the number of species of Leptocypris recorded from the region to four: L. modestus, L. lujae. L. weynsii, and L. weeksii. [ABSTRACT FROM AUTHOR]

• A comprehensive phylogeny of the continental African cichlid genus Oreochromis is presented. • Considerable mito-nuclear discordance is identified. • Multiple adaptation to adverse (elevated thermal and saline) conditions. • Likely support for a single transition to extreme (soda-lake) conditions. • A taxonomic revision of the genus Alcolapia is proposed. Although the majority of cichlid diversity occurs in the African Great Lakes, these fish have also diversified across the African continent. Such continental radiations, occurring in both rivers and lakes have received far less attention than lacustrine radiations despite some members, such as the oreochromine cichlids (commonly referred to as 'tilapia'), having significant scientific and socio-economic importance both within and beyond their native range. Unique among cichlids, several species of the genus Oreochromis exhibit adaptation to soda conditions (including tolerance to elevated temperatures and salinity), which are of interest from evolutionary biology research and aquaculture perspectives. Questions remain regarding the factors facilitating the diversification of this group, which to date have not been addressed within a phylogenetic framework. Here we present the first comprehensive (32/37 described species) multi-marker molecular phylogeny of Oreochromis and closely related Alcolapia , based on mitochondrial (1583 bp) and nuclear (3092 bp) sequence data. We show widespread discordance between nuclear DNA and mitochondrial DNA trees. This could be the result of incomplete lineage sorting and/or introgression in mitochondrial loci, although we did not find a strong signal for the latter. Based on our nuclear phylogeny we demonstrate that adaptation to adverse conditions (elevated salinity, temperature, or alkalinity) has occurred multiple times within Oreochromis , but that adaptation to extreme (soda) conditions (high salinity, temperature, and alkalinity) has likely arisen once in the lineage leading to O. amphimelas and Alcolapia. We also show Alcolapia is nested within Oreochromis , which is in agreement with previous studies, and here revise the taxonomy to synonymise the genus in Oreochromis , retaining the designation as subgenus Oreochromis (Alcolapia). [ABSTRACT FROM AUTHOR]

A morphological case study, including 25 meristics and 31 measurements of 37 Labeobarbus specimens from the Inkisi basin, Lower Congo, is presented. Two groups of specimens express either Labeobarbus -like (rubberlip) or Varicorhinus -like (chiselmouth) mouth phenotypes and a third group is morphologically intermediate. Rubberlip and chiselmouth specimens differ significantly from each other in some meristics and morphometrics, and all three phenotypes of this Inkisi complex form a strongly supported monophylum based on mitochondrial (COI) and nuclear (AFLP) DNA phylogenetic inferences. Tree-based analyses designed to differentiate between polymorphism, incipient speciation and hybridization scenarios, in combination with multivariate PCA of AFLP multilocus genotypes, revealed substantial, non-random genomic variation, which correlated strongly with the three major mouth phenotype groups and favours a scenario of secondary hybridization between primarily distinct parental lineages. Consequently, the two distinct mouth phenotypes are described taxonomically as species taxa and the various morphological intermediates are characterized as hybrid phenotypes. This study suggests that a new interpretation of the alpha-level taxonomy of the hexaploid Torini is necessary. These proposed changes are highlighted and discussed for African Torini. A typology of Labeobarbus mouth phenotypes was developed, which will be useful for future studies. [ABSTRACT FROM AUTHOR]

The relative importance of species-specific biological trait characteristics and environmental factors in invasions of nonindigenous species remains controversial because both have mostly been studied independently. Thus, the main objective of this study was to examine the correlation of biological traits with environmental variation in the globally invasive round goby Neogobius melanostomus from the upper Danube River. Based on a sample of 653 specimens along a continuous 200 km river pathway, links between nine environmental factors (substrate-type, six water measurements, and the communities of fishes and macroinvertebrates) and seven biological traits (nutritional and energetic status, trade-offs of parasite resistance and resource allocation, and three growth proxies) were analyzed. Biological trait values of N. melanostomus hardly correlated with the environment, could not explain invasion progress and imply a general low overall importance for invasion success. Instead, alternative individual life-history trajectories appear to determine invasion success. This is in line with up to 15% of all specimens having outlying biological trait values of potential adaptive value, suggesting a considerable importance of adaptive trait variation among single individuals for the whole invasion progress. This 'individual trait utility hypothesis' gives an alternative explanation for success of invasive species by single individuals carrying particular traits, and it should be specifically targeted and analyzed at currently invaded sites. [ABSTRACT FROM AUTHOR]

A review of the tumultuous history of the alpha- and genus-level taxonomy of the hexaploid African Torini, i.e. L abeobarbus s.l. (synonym: V aricorhinus), as well as of the closely related monospecific genera A capoeta and S anagia, is provided. The main purpose of the present paper is to provide a continental framework for multidisciplinary research on this megadiverse vertebrate group. Based on the inspection of almost all relevant type specimens, a complete and fully annotated checklist of all valid species and junior synonyms is provided for each of the four nominal genera. It comprises ∼275 nominal taxa, 125 of which are valid African L abeobarbus spp. and three of which are formally named hybrid phenotypes. Particular attention is drawn to the diversity and taxon-specific distribution of mouth phenotypes, which previously served as generic identification characters, i.e. 'rubberlips' with strongly developed, sometimes hypertrophied lips and a mental lobe, and 'chiselmouths' (former V aricorhinus spp.) with a cornified sharp cutting edge on their lower jaw. Interestingly, many species are polymorphic and include a large array of intermediate mouth phenotypes. The recurrent occurrence of similar mouth phenotype diversity within, but also far beyond, the borders of L abeobarbus s.l. is highlighted, raising numerous evolutionary questions. © 2016 The Linnean Society of London [ABSTRACT FROM AUTHOR]

Background The Malili Lakes system in central Sulawesi (Indonesia) is a hotspot of freshwater biodiversity in the Wallacea, characterized by endemic species flocks like the sailfin silversides (Teleostei: Atherinomorpha: Telmatherinidae) radiation. Phylogenetic reconstructions of these freshwater fishes have previously revealed two Lake Matano Telmatherina lineages (sharpfins and roundfins) forming an ancient monophyletic group, which is however masked by introgressive hybridization of sharpfins with riverine populations. The present study uses mitochondrial data, newly included taxa, and different external calibration points, to estimate the age of speciation and hybridization processes, and to test for phylogeographic relationships between Kalyptatherina from ancient islands off New Guinea, Marosatherina from SW Sulawesi, and the Malili Lakes flock. Results Contrary to previous expectations, Kalyptatherina is the closest relative to the Malili Lakes Telmatherinidae, and Marosatherina is the sister to this clade. Palaeogeographic reconstructions of Sulawesi suggest that the closer relationship of the Malili Lakes radiation to Kalyptatherina might be explained by a 'terrane-rafting' scenario, while proto-Marosatherina might have colonized Sulawesi by marine dispersal. The most plausible analysis conducted here implies an age of c. 1.9 My for the onset of divergence between the two major clades endemic to Lake Matano. Diversification within both lineages is apparently considerably more recent (c. 1.0 My); stream haplotypes present in the sharpfins are of even more recent origin (c. 0.4 My). Conclusions Sulawesi's Telmatherinidae have most likely originated in the Sahul Shelf area, have possibly reached the island by both, marine dispersal and island/terrane-rafting, and have colonized the Malili Lakes system from rivers. Estimates for the split between the epibenthic sharpfins and the predominantly pelagic to benthopelagic roundfins in Lake Matano widely coincide with geological age estimates of this rift lake. Diversification within both clades clearly predates hybridization events with stream populations. For Lake Matano, these results support a scenario of initial benthic-pelagic divergence after colonization of the lake by riverine populations, followed by rapid radiation within both clades within the last 1 My. Secondary hybridization of stream populations with the sharpfins occurred more recently, and has thus most likely not contributed to the initial divergence of this benthic species flock. [ABSTRACT FROM AUTHOR]

Evolution is known to act on contemporary timescales and invasive organisms are often used to study rapid evolutionary changes of geno- and phenotypes under natural conditions. The ability and speed of local adaptation is discussed as a key character triggering successful invasions. Variation of body shape among populations of two highly invasive, sympatric Ponto-Caspian goby species (Teleostei: Gobiidae) with a comparable invasion history in the upper Danube River, i.e. Neogobius melanostomus and Ponticola kessleri, was assessed using geometric morphometric methods. Phenotypic variation established within less than 15 generations was evident in both species. It was mainly correlated with geographical location, but in N. melanostomus also with substrate type, an ecological variable reflecting habitat quality. The two species differed in their degree of intraspecific variation which was more pronounced in N. melanostomus, the numerically dominant invader in the upper Danube. Body shape variation significantly correlating with geographical rather than ecological variables suggests a heritable component and renders phenotypic plasticity as a lone explanation unlikely. Patterns of body shape similarity among upper Danubian goby populations suggest a stepping-stone rather than a continuous expansion model for both species, where multiple introductions, possibly from various origins, may have shaped differentiation. [ABSTRACT FROM AUTHOR]

The polytypic Nicaraguan Midas cichlids (Amphilophus cf. citrinellus) have been established as a model system for studying the mechanisms of speciation and patterns of diversification in allopatry and sympatry. The species assemblage in Crater Lake Apoyo has been accepted as a textbook example for sympatric speciation. Here, we present a first comprehensive data set of population genetic (mtDNA & AFLPs) proxies of species level differentiation for a representative set of individuals of all six endemic Amphilophus species occurring in Crater Lake Apoyo. AFLP genetic differentiation was partitioned into a neutral and non-neutral component based on outlier-loci detection approaches, and patterns of species divergence were explored with Bayesian clustering methods. Substantial levels of admixture between species were detected, indicating different levels of reproductive isolation between the six species. Analysis of neutral genetic variation revealed several A. zaliosus as being introgressed by an unknown contributor, hereby rendering the sympatrically evolving L. Apoyo flock polyphyletic. This is contrasted by the mtDNA analysis delivering a clear monophyly signal with Crater Lake Apoyo private haplotypes characterising all six described species, but also demonstrating different demographic histories as inferred from pairwise mismatch distributions. [ABSTRACT FROM AUTHOR]

Hybridization between invasive and native species accounts among the major and pernicious threats to biodiversity. The Mozambique tilapia Oreochromis mossambicus, a widely used freshwater aquaculture species, is especially imperiled by this phenomenon since it is recognized by the IUCN as an endangered taxon due to genetic admixture with O. niloticus an invasive congeneric species. The Lower Limpopo and the intermittent Changane River (Mozambique) drain large wetlands of potentially great importance for conservation of O. mossambicus, but their populations have remained unstudied until today. Therefore we aimed (1) to estimate the autochthonous diversity and population structure among genetically pure O. mossambicus populations to provide a baseline for the conservation genetics of this endangered species, (2) to quantify and describe genetic variation of the invasive populations and investigate the most likely factors influencing their spread, (3) to identify O. mossambicus populations unaffected by hybridization. Bayesian assignment tests based on 423 AFLP loci and the distribution of 36 species-specific mitochondrial haplotypes both indicate a low frequency of invasive and hybrid genotypes throughout the system, but nevertheless reveal evidence for limited expansion of two alien species (O. niloticus and O. andersonii) and their hybrids in the Lower Limpopo. O. mossambicus populations with no traces of hybridization are identified. They exhibit a significant genetic structure. This contrasts with previously published estimates and provides rather promising auspices for the conservation of O. mossambicus. Especially, parts of the Upper Changane drainage and surrounding wetlands are identified as refugial zones for O. mossambicus populations. They should therefore receive high conservation priority and could represent valuable candidates for the development of aquaculture strains based on local genetic resources. [ABSTRACT FROM AUTHOR]

Most freshwater diversity is arguably located in networks of rivers and streams, but, in contrast to lacustrine systems riverine radiations, are largely understudied. The extensive rapids of the lower Congo River is one of the few river stretches inhabited by a locally endemic cichlid species flock as well as several species pairs, for which we provide evidence that they have radiated in situ. We use more that 2,000 AFLP markers as well as multilocus sequence datasets to reconstruct their origin, phylogenetic history, as well as the timing of colonization and speciation of two Lower Congo cichlid genera, Steatocranus and Nanochromis. Based on a representative taxon sampling and well resolved phylogenetic hypotheses we demonstrate that a high level of riverine diversity originated in the lower Congo within about 5 mya, which is concordant with age estimates for the hydrological origin of the modern lower Congo River. A spatial genetic structure is present in all widely distributed lineages corresponding to a trisection of the lower Congo River into major biogeographic areas, each with locally endemic species assemblages. With the present study, we provide a phylogenetic framework for a complex system that may serve as a link between African riverine cichlid diversity and the megadiverse cichlid radiations of the East African lakes. Beyond this we give for the first time a biologically estimated age for the origin of the lower Congo River rapids, one of the most extreme freshwater habitats on earth. [ABSTRACT FROM AUTHOR]

Abstract: Deep-sea Lantern Sharks (Etmopteridae) represent the most speciose family within Dogfish Sharks (Squaliformes). We compiled an extensive DNA dataset to estimate the first molecular phylogeny of the family and to provide node age estimates for the origin and diversification for this enigmatic group. Phylogenetic inferences yielded consistent and well supported hypotheses based on 4685bp of both nuclear (RAG1) and mitochondrial genes (COI, 12S-partial 16S, tRNAVal and tRNAPhe). The monophyletic family Etmopteridae originated in the early Paleocene around the C/T boundary, and split further into four morphologically distinct lineages supporting three of the four extant genera. The exception is Etmopterus which is paraphyletic with respect to Miroscyllium. Subsequent rapid radiation within Etmopterus in the Oligocene/early Miocene was accompanied by divergent evolution of bioluminescent flank markings which morphologically characterize the four lineages. Higher squaliform interrelationships could not be satisfactorily identified, but convergent evolution of bioluminescence in Dalatiidae and Etmopteridae is supported. [Copyright &y& Elsevier]

A new genus and species of fossil cichlid fishes of middle Miocene age (12.5 Ma) is described from the Ngorora fish Lagerstätte (Tugen Hills, Kenya) in the East African Rift Valley. Parsimony analysis of morphological characters using published phylogenetic frameworks for extant cichlids combined with the application of a comprehensive best-fit approach based on morphology was employed to place the new fossil taxon in the phylogenetic context of the African cichlids. The data reveal that the fossil specimens can be assigned to the tribe Oreochromini within the haplotilapiines. †Oreochromimos kabchorensis gen. et sp. nov. shows a mosaic set of characters bearing many similarities to the almost pan-African Oreochromis and the East African lake-endemic Alcolapia. As the striking diversity of present-day African cichlids, with 1100 recognised species, has remained largely invisible in the fossil record, the material described here adds significantly to our knowledge of the Miocene diversity of the group. It effectively doubles the age of a fossil calibration point, which has hitherto been used to calibrate divergence times of the East African cichlids in molecular phylogenetic investigations. Furthermore, the comparative dataset derived from extant cichlids presented here will greatly facilitate the classification of fossil cichlids in future studies. [ABSTRACT FROM AUTHOR]