Fundulus as the premier teleost model in environmental biology: opportunities for new insights using genomics

A strong foundation of basic and applied research documents that the estuarine fish Fundulus heteroclitus and related species are unique laboratory and field models for understanding how individuals and populations interact with their environment. In this paper we summarize an extensive body of work examining the adaptive responses of Fundulus species to environmental conditions, and describe how this research has contributed importantly to our understanding of physiology, gene regulation, toxicology, and ecological and evolutionary genetics of teleosts and other vertebrates. These explorations have reached a critical juncture at which advancement is hindered by the lack of genomic resources for these species. We suggest that a more complete genomics toolbox for F. heteroclitus and related species will permit researchers to exploit the power of this model organism to rapidly advance our understanding of fundamental biological and pathological mechanisms among vertebrates, as well as ecological strategies and evolutionary processes common to all living organisms.     

入侵红火蚁对脊椎动物的影响研究进展

红火蚁(Solenopsis invicta)具有扩散迅速、攻击性强等特点,常对入侵地区造成巨大的生态危害。虽然很多文献报道了红火蚁对无脊椎动物的影响,但红火蚁对脊椎动物影响的研究较少,也缺乏系统的总结。综述了红火蚁对不同脊椎动物类群的影响和主要的研究方法(野外调查、案例分析、实验室评估、比较分析和人工移除红火蚁),以及脊椎动物对红火蚁的行为和生理防御机制。一般而言,红火蚁常以腹部末端的螯针攻击其他动物并释放毒液,可直接捕食、伤害各种脊椎动物的卵、幼体和成体,并影响动物的行为。此外,红火蚁可降低生境内无脊椎动物的丰度,间接影响捕食者的种群数量。尽管红火蚁是陆生生物,但鱼类可能取食掉落在水面的有翅繁殖蚁而中毒,且漂浮于水面的红火蚁蚁筏也可能对鱼类造成威胁。由于两栖类动物通常体型较小,运动能力较弱,且皮肤缺乏角质层与鳞片毛发等结构的保护,极易受到红火蚁的攻击和伤害。对于鸟类和爬行类,红火蚁主要捕食卵和幼体,并干扰成体的筑巢和育幼行为,降低其繁殖成功率。此外,红火蚁对小型哺乳动物的觅食行为和种群数量均可造成负面影响,并可蛰刺伤害牛羊等家畜,对畜牧业造成巨大的经济损失。一些动物对红火蚁具有行为防御,如用附肢蹬掉体表的红火蚁,或避免取食或接触红火蚁。此外,一些动物能对红火蚁的毒素产生抗体,或调整体内荷尔蒙水平以应对红火蚁的攻击。然而,仍不清楚这些行为和生理反应是否普遍存在于其他脊椎动物,以及能在多大程度上保护其免受红火蚁伤害。值得注意的是,几乎所有的相关研究都是由国外研究者完成的,建议我国学者更多的关注红火蚁对我国经济物种、珍稀动物和食蚁物种的影响。     

The underestimated role of carrion in vertebrates' diet studies

Aim

Despite the increasing scientific evidence on the importance of carrion in the ecology and evolution of many vertebrates, scavenging is still barely considered in diet studies. Here, we draw attention to how scientific literature has underestimated the role of vertebrates as scavengers, identifying the ecological traits that characterize those species whose role as scavengers could have gone especially unnoticed.

Location

Global.

Time Period

1938–2022.

Major Taxa Studied

Terrestrial vertebrate scavengers.

Methods

We analysed and compared (a) the largest database available on scavenging patterns by carrion-consuming vertebrates, (b) 908 diet studies about 156 scavenger species and (c) one of the most complete databases on bird and mammal diets (Elton Traits database). For each of these 156 species, we calculated their scavenging degree (i.e. proportion of carcases where the species is detected consuming carrion) as a proxy for carrion consumption, and related their ecological traits with the probability of being identified as scavengers in diet studies and in the Elton Traits database.

Results

More than half of the species identified as scavengers at monitored carcasses were not assigned carrion as food source in their diet studies nor in the Elton Traits database. Using a subset of study sites, we found a direct relationship between a species' scavenging degree and its rate of carrion biomass removal. In addition, scavenger species, which were classified as non-predators and mammals had a lower probability of being identified as scavengers in diet studies and in the Elton Traits database, respectively.

Main Conclusions

Our results clearly indicate an underestimation of the role of scavenging in vertebrate food webs. Given that detritus recycling is fundamental to ecosystem functioning, we encourage further recognition and investigation of the role of carrion as a food resource for vertebrates, especially for non-predator species and mammals with higher scavenging degree.     

Diet overlap among three sympatric African annual killifish species Nothobranchius spp. from Mozambique

The diet patterns of three Nothobranchius species (N. furzeri, N. orthonotus and N. rachovii), small, short‐lived annual killifish from temporary pools in African savannah were investigated. Four sites with contrasting fish density and water surface area were sampled in 2008 and 2009 in southern Mozambique. Stomach content analysis showed that all the species examined were generalists, with diets largely based on aquatic invertebrates. The same invertebrate prey categories were consumed by all three species, but their relative proportions varied across species. The largest species, N. orthonotus, showed the most distinct diet and consumed vertebrates (juvenile lungfish Protopterus annectens and larval Amphibia) and a relatively high proportion of Odonata, Coleoptera and Ephemeroptera larvae. The diet of the other two species (N. furzeri and N. rachovii) showed a stronger overlap, did not include vertebrates, but was rich in small crustaceans (Cladocera, Copepoda, Ostracoda and Conchostraca). Mosquito (Diptera) larvae formed only a negligible part of the diet of all the three species.     

Planting densities and bird and rodent absence affect size distributions of four dicots in synthetic tallgrass communities

Variability in the size distributions of populations is usually studied in monocultures or in mixed plantings of two species. Variability of size distributions of populations in more complex communities has been neglected. The effects of seeding density (35 or 350 seeds/species/m²) and presence of small vertebrates on the variability of size distributions were studied for a total of 1,920 individuals of 4 species in replicated synthetic communities of 18 species in northern Illinois. End-of season height and above-ground biomass were measured for prairie perennials Dalea purpurea (purple prairie clover), Echinacea purpurea (purple coneflower), Desmanthus illinoensis (Illinois bundleflower) and Heliopsis helianthoides (early sunflower). Variability in biomass distribution of the four target species was twice as great at low than at high densities when small vertebrates were excluded. Our results suggest that inter- and intraspecific competition may affect all individuals more under high-density conditions, thereby reducing the variability in their biomass distributions within this community. This result, a consequence of plant-plant interaction, is obscured when small birds or mammals are present, presumably because either or both add variance that overwhelms the pattern.     

Hair Cell Polarization in the Flatfish Inner Ear

The hair cell polarization of the various sensory epithelia in the inner ear was examined in two species of flatfish, the Plaice (Pleuronectes platessa) and the Dab (Limanda limanda). The hair cells in the macula utriculi are polarized in the pattern usually seen for this macula in vertebrates. In the macula sacculi and macula lagenae the hair cell polarization is different from that hitherto described from bony fishes and other vertebrates. The polarization seen in these maculae in the flatfish explains their ability to sense movements in all directions, which is necessary if these sensory areas are the most important inner ear organs in the regulation of postural orientation.     

Sex Chromosomal Homologies between Human and Fish Karyotypes Revealed by Chromosome Painting

Human sex chromosome-specific probes were hybridized to metaphase spreads of three fish species, Monopterus albus Zuiew, Danio rerioandMastacembelus aculeatusBasilewsky, to reveal evolutionary conservation of sex chromosomal segments between distantly related species of vertebrates. The human X chromosomal paint disclosed 4, 8, and 6 conserved syntenic segments in the karyotypes of the three fish species respectively, which were scattered in several pairs of homologous chromosomes. But no conserved segment was identified in our experiments when the human Y chromosomal probes were used. The evolution of the X chromosome of vertebrates is discussed.     

Habitat‐driven diversification,hybridization and cryptic diversity in the Fork‐tailed Drongo (Passeriformes: Dicruridae: Dicrurus adsimilis)

Species complexes of widespread African vertebrates that include taxa distributed across different habitats are poorly understood in terms of their phylogenetic relationships, levels of genetic differentiation and diversification dynamics. The Fork‐tailed Drongo (Dicrurus adsimilis) species complex includes seven Afrotropical taxa with parapatric distributions, each inhabiting a particular bioregion. Various taxonomic hypotheses concerning the species limits of the Fork‐tailed Drongo have been suggested, based largely on mantle and upperpart coloration, but our understanding of diversity and diversification patterns remains incomplete. Especially given our lack of knowledge about how well these characters reflect taxonomy in a morphologically conservative group. Using a thorough sampling across Afrotropical bioregions, we suggest that the number of recognized species within the D. adsimilis superspecies complex has likely been underestimated and that mantle and upperpart coloration reflects local adaptation to different habitat structure, rather than phylogenetic relationships. Our results are consistent with recent phylogeographic studies of sub‐Saharan African vertebrates, indicating that widespread and often morphologically uniform species comprise several paraphyletic lineages, often with one or more of the lineages being closely related to phenotypically distinct forms inhabiting a different, yet geographically close, biome.     

A novel sperm adaptation to evolutionary constraints on reproduction: Pre‐ejaculatory sperm activation in the beach spawning capelin (Osmeridae)

Reproduction of external fertilizing vertebrates is typically constrained to either fresh or salt water, not both. For all studied amphibians and fishes, this constraint includes immotile sperm that are activated after ejaculation only by the specific chemistry of the fertilizing medium in which the species evolved (fresh, brackish, or salt water). No amphibians can reproduce in the sea. Although diadromous fishes may migrate between salt and fresh water, they are shackled to their natal environment for spawning in part because of sperm activation. Here, we report for the first time among all documented external fertilizing vertebrates, that in the absence of any external media, sperm are motile at ejaculation in a marine spawning fish (Osmeridae, capelin, Mallotus villosus). To illuminate why, we evaluated sperm behavior at different salinities in M. villosus as well as the related freshwater spawning anadromous rainbow smelt (Osmerus mordax). Surprisingly, sperm performance was superior in fresh water for both species. M. villosus spend their entire life at sea but our results show that their sperm are deactivated by sea water, suggesting a freshwater ancestry. By circumventing constraining water chemistry, we interpret the unique pre‐ejaculatory sperm activation in this species as a novel adaptation that enables fertilization in the marine environment. These findings also contribute to understanding the persistence of anadromy, despite great energetic costs to adult fishes.     

DNA EVIDENCE FOR NONHYBRID ORIGINS OF PARTHENOGENESIS IN NATURAL POPULATIONS OF VERTEBRATES

Naturally occurring unisexual reproduction has been documented in less than 0.1% of all vertebrate species. Among vertebrates, true parthenogenesis is known only in squamate reptiles. In all vertebrate cases that have been carefully studied, the clonal or hemiclonal taxa have originated through hybridization between closely related sexual species. In contrast, parthenogenetic reproduction has arisen in invertebrates by a variety of mechanisms, including likely cases of “spontaneous” (nonhybrid) origin, a situation not currently documented in natural populations of vertebrates. Here, we present molecular data from the Neotropical night lizard genus Lepidophyma that provides evidence of independent nonhybrid origins for diploid unisexual populations of two species from Costa Rica and Panama. Our mitochondrial and nuclear phylogenies are congruent with respect to the unisexual taxa. Based on 14 microsatellite loci, heterozygosity (expected from a hybrid origin) is low in Lepidophyma reticulatum and completely absent in unisexual L. flavimaculatum. The unique value of this system will allow direct comparative studies between parthenogenetic and sexual lineages in vertebrates, with an enormous potential for this species to be a model system for understanding the mechanisms of nonhybrid parthenogenesis.     

Phylogeography and Demographic History of Chinese Black-Spotted Frog Populations (<Emphasis Type="Italic">Pelophylax nigromaculata</Emphasis>): Evidence for Independent Refugia Expansion and Secondary Contact

Background  

Pleistocene glaciations had considerable impact on phylogeographic patterns within and among closely related species of many vertebrates. Compared to Europe and North America, research on the phylogeography of vertebrates in East Asia, particularly in China, remains limited. The black-spotted frog (Pelophylax nigromaculata) is a widespread species in East Asia. The wide distribution of this species in China makes it an ideal model for the study of palaeoclimatic effects on vertebrates in East Asia. Our previous studies of P. nigromaculata revealed significant subdivisions between the northeast China populations and populations in other regions of the mainland. In the present study, we aim to see whether the deepest splits among lineages and perhaps subsequent genealogical divisions are temporally consistent with a Pleistocene origin and whether clade geographic distributions, with insight into expansion patterns, are similarly spatially consistent with this model.     

Easel, a gypsy LTR-retrotransposon in the Salmonidae

Despite the close similarities between retroviruses and the gypsy/Ty3 group of LTR-retrotransposons their host ranges are largely distinct: the retroviruses are found only in vertebrates, whereas the gypsy LTR-retrotransposons are almost exclusively restricted to invertebrates, plants and fungi. Here we report the amplification by PCR, and characterisation, of one of the first LTR-retrotransposons to be discovered in vertebrates - in several members of the piscine family Salmonidae. Phylogenetic analysis of this retroelement, termed easel, indicates that it is probably a phylogeneticaly basal member of the gypsy group of LTR-retrotransposons and occurs in some of the same species from which retroviruses have previously been isolated. Thus some members of the Salmonidae are the first organisms known to harbour both retroviral branch elements and the gypsy LTR-retrotransposon branch elements. This creates an overlap in the host ranges of the two retroelement families.     

Blood meal sources of mosquitoes captured in municipal parks in São Paulo,Brazil

The aim of this study was to investigate blood meal sources of mosquitoes captured in municipal parks in the city of São Paulo, Brazil, and to identify possible associations between mosquito species and their food preferences. Fourteen species of blood hosts of 510 engorged adult female mosquitoes were identified using PCR assays with a vertebrate‐specific primer set based on cytochrome b mitochondrial DNA of the following vertebrates: birds, dogs, cats, rodents, humans, and other primates. Mosquitoes were captured using a manual aspirator, CDC traps in the canopy, CDC traps at ground level, and Shannon traps. With the exception of cats, all other vertebrates were used as hosts by mosquitoes in the parks. Statistical analysis failed to show any trend toward association between most culicid species captured and the sources of blood meals. Instead, they revealed random patterns, indicating that the mosquitoes fed on the most abundant or convenient blood meal sources. Although feeding preferences were observed in two species (birds in the case of Cx. nigripalpus and dogs in the case of Cx. quinquefasciatus), our results highlight the opportunistic feeding habits of the female mosquitoes in this study.     

Sex-specific methylation in <Emphasis Type="Italic">Drosophila</Emphasis>: an investigation of the <Emphasis Type="Italic">Sophophora</Emphasis> subgenus

Epigenetic phenomena have been widely characterized in the genomes of vertebrates and DNA methylation is a key mechanism of epigenetic regulation. The DNA methylation systems of invertebrates and vertebrates show several notable differences. However, the evolutionary implications of those differences only recently began to be revealed. Our study investigated the recurrence of sex-specific methylation, as previously described for the species Drosophila willistoni, in other species of the Sophophora subgenus that present close evolutionary relationship. The MSRE and Southern blot techniques were used to analyze rDNA of some species of the willistoni, melanogaster, saltans and obscura groups of Drosophila and the results suggested that differential DNA methylation between sexes only occurs in Drosophila tropicalis and D. insularis, two sibling species of the willistoni subgroup. However, only using the MSRE technique we could detect sex-specific patterns of DNA methylation in all species of willistoni subgroup. These results indicate that DNA methylation may present important differences, even between closely related species, shedding new light on this Neotropical species complex.     

Prey use by dingoes in a contested landscape: Ecosystem service provider or biodiversity threat?

In Australia, dingoes (Canis lupus dingo) have been implicated in the decline and extinction of a number of vertebrate species. The lowland Wet Tropics of Queensland, Australia is a biologically rich area with many species of rainforest‐restricted vertebrates that could be threatened by dingoes; however, the ecological impacts of dingoes in this region are poorly understood. We determined the potential threat posed by dingoes to native vertebrates in the lowland Wet Tropics using dingo scat/stomach content and stable isotope analyses of hair from dingoes and potential prey species. Common mammals dominated dingo diets. We found no evidence of predation on threatened taxa or rainforest specialists within our study areas. The most significant prey species were northern brown bandicoots (Isoodon macrourus), canefield rats (Rattus sordidus), and agile wallabies (Macropus agilis). All are common species associated with relatively open grass/woodland habitats. Stable isotope analysis suggested that prey species sourced their nutrients primarily from open habitats and that prey choice, as identified by scat/stomach analysis alone, was a poor indicator of primary foraging habitats. In general, we find that prey use by dingoes in the lowland Wet Tropics does not pose a major threat to native and/or threatened fauna, including rainforest specialists. In fact, our results suggest that dingo predation on “pest” species may represent an important ecological service that outweighs potential biodiversity threats. A more targeted approach to managing wild canids is needed if the ecosystem services they provide in these contested landscapes are to be maintained, while simultaneously avoiding negative conservation or economic impacts.     

Enzymes for ecdysteroid biosynthesis: their biological functions in insects and beyond

Steroid hormones are responsible for the coordinated regulation of many aspects of biological processes in multicellular organisms. Since the last century, many studies have identified and characterized steroidogenic enzymes in vertebrates, including mammals. However, much less is known about invertebrate steroidogenic enzymes. In the last 15?years, a number of steroidogenic enzymes and their functions have been characterized in ecdysozoan animals, especially in the fruit fly Drosophila melanogaster. In this review, we summarize the latest knowledge of enzymes crucial for synthesizing ecdysteroids, the principal insect steroid hormones. We also discuss the functional conservation and diversity of ecdysteroidogenic enzymes in other insects and even non-insect species, such as nematodes, vertebrates, and lower eukaryotes.     

Exotic Vertebrate Fauna in the Remote and Pristine Sub-Antarctic Cape Horn Archipelago, Chile

Pristine wilderness is a scarce global resource, but exotic species are so common that they constitute a principal component of worldwide ecological change. The relationship between these two topics, invasion and remoteness, was the impetus behind five years of fieldwork aimed at identifying the assemblage and range of exotic vertebrates in Cape Horn, Chile, identified as one of the world's most pristine wilderness areas. While the archipelago has extremely low human population density and vast tracts of undisturbed land, we discovered that several terrestrial vertebrate groups were dominated by exotic species. Native birds were diverse (approx. 154 spp), and only 1.3% (or two spp.) were introduced. In contrast, exotic terrestrial mammals (12 spp.) and freshwater fish (three spp.) outnumbered their native counterparts, constituting 55% and 75% of the assemblages. Using GIS, we found that not all areas were impacted equally, largely due to intensity of human occupation. Human settled islands (Navarino and Tierra del Fuego) hosted the greatest number of exotics, but humans alone did not explain observed patterns. Remote islands also had introduced species. North American beavers (Castor canadensis), American minks (Mustela vison) and feral domestic dogs and cats were particularly widespread, and their range in isolated parts of the study area raised important ecological and management questions. In conclusion, the Cape Horn Archipelago retained areas free of exotic vertebrates, particularly parts of the Cape Horn and Alberto D’Agostini National Parks, but at many sites introduced species were overwhelming native biota and altering these previously remote natural ecosystems.     

An invaded wet ecosystem in Central Italy: An arrangement and evidence for an alien food chain

The aim of this work is to provide an account of alien species richness and composition in a remnant Mediterranean coastal wetland of Central Italy. Data were obtained from different taxa-specific methods, in 2001–2005 (terrestrial vertebrates) and in 2005 (fish, arthropoda, mollusca). Among the 353 species sampled, 17 (4.8 %) are aliens (7.1% if we consider only vertebrates).Data on abundance, introduction type and status of alien species are reported. A crustacean, Procambarus clarkii, a fish, Gambusia sp. and three rodents, Myocastor coypus, Rattus norvegicus and Mus domesticus are the naturalized invasive species that locally could constitute a threat on economic and ecological levels. Data on Agapornis nigrigenis and Quelea cardinalis represent the first records for Italy. We also report evidence of a food chain on three levels, among the most invasive species (predation of Gambusia sp. by Procambarus clarkii and of Rattus norvegicus on Procambarus clarkii).      

Evolution of cis-Acting Elements in 5′ Flanking Regions of Vertebrate Actin Genes

Regulation of the vertebrate actin multigene family involves the recognition of various regulatory sequences (cis-acting elements) that specify the distinct tissue type and developmental program of expression for each actin paralogue, which implies that the distribution of cis-acting elements may be unique for each paralogue gene. To elucidate the evolution of these unique distribution patterns, we improved a method to scan for cis-acting elements in the 5′ flanking regulatory region of genes and used it to analyze five cis-acting elements (SRE, MyoD binding site, Elk-1 binding site, positive and negative YY1 binding sites) of six actin paralogue genes (β and γ cytoplasmic actins, α and γ smooth muscle actins, and α skeletal and α cardiac actins) among various vertebrates. It was shown that although an element(s) may exist in all paralogue genes of the same species, its numbers, compositions, and distribution patterns or even sequences vary remarkably among paralogues, which contributes to their different tissue- and developmental-specific expression. However, each pair of coexpressed paralogues has some certain similarity in distribution patterns. Furthermore, among various orthologues of actin genes derived from diverse vertebrates, the sequences, numbers, and distribution patterns of these cis-acting elements are highly conserved or even identical in the long run of phylogeny of vertebrates. Taken together, the results described above strongly indicate that not only the structures of actins but also their expression patterns are essential in both the phylogeny and the physiology of vertebrates. The distribution patterns of cis-acting elements of various actin genes can be regarded as indicators of both horizontal (paralogous) and vertical (orthologous) evolution of actins. Received: 1 March 1999 / Accepted: 6 August 1999     

Comparison of frog albumins with those of other vertebrates

Summary Serum albumin was purified from two frog species (Rana pipiens andR. catesbeiana) and compared by several physical, chemical and immunological techniques with the purified albumins of a reptile, a bird and three mammals. Although the frog albumins proved to be very similar to those of other vertebrates in physical and chemical properties, no immunological relationship was detected in direct precipitin and complement fixation tests. The absence of an immunological relationship between frog albumins and those of other vertebrates is expected because other evidence indicates that albumin evolves very rapidly. Fossil evidence indicates that the lineage leading to frogs separated from those leading to other vertebrates so long ago that we should expect frog albumins to have become more than 40% different in amino acid sequence from those of other vertebrates and thus to exhibit no cross reactivity in direct precipitin or complement fixation tests.