Seed mass of Indiana Dune genera and families: Taxonomic and ecological correlates

Summary Several surveys have documented an association among species between habitat type and seed mass, suggesting that habitat attributes impose a direct selective force on seed mass. Previous comparative surveys, however, have not controlled for the statistical effects of shared phylogenetic history (at the genus or family level) and life form when evaluating the relationship between habitat and seed mass. This study of the Indiana Dunes angiosperm flora provides statistical control of genus and family membership by: (i) partitioning out the statistical effect of genus membership prior to measuring the effect of habitat on seed mass, and (ii) seeking an association between habitat and seed mass within eight genera (206 species) and ten families (366 species). To measure the associations between ecological factors, taxonomic membership and seed mass, I examined life form, phenological schedules and seed mass among species in 8 genera distributed among 13 habitat types (assigned to 1 of 4 categories of inferred water and light availability). One-way ANOVAS indicated that genus, life form, habitat, water/light category, the onset of flowering and the duration of flowering accounted for 71%, 51%, 10%, 4%, 14% and 14% of the variance in seed mass, respectively. However, multi-factor ANOVAS measured the variance in seed mass accounted for by each variable independently of the others: only genus explained a significant proportion (11%). Genus membership is strongly associated with the other ecological factors, accounting for the difference between one-way and multi-factor ANOVAS. Within the ecologically widespread genera and families of this study, there was no significant association between water/light category and seed mass, even though this association can be detected across taxa. Among congeners and confamilials, interspecific variation in seed mass (measured as the coefficient of variation) was as high within habitat types as among them, suggesting that habitats do not provide upper limits to the range of seed mass exhibited by the species within them. A previous study of 648 Indiana Dune species showed that species segregate among habitats on the basis of seed size; large-seeded species tend to occupy closed habitats and small-seeded species tend to inhabit open habitats. This segregation creates the ecologically meaningful observation that low-light habitats support larger-seeded species than high-light habitats, even though this pattern cannot be detected independently of taxonomic membership. Generalist taxa may occupy a wide range of habitats for reasons other than their seed size. If this is a common feature of ecological generalists, it may not be possible to detect an association between habitat and seed size independently of taxonomic membership.     

Niche versus neutrality in structuring the beta diversity of damselfly assemblages

1. Differences among communities in taxonomic composition – beta diversity – are frequently expected to result from taxon‐specific responses to spatial variation in ecological conditions, through niche partitioning. Such process‐derived patterns are in sharp contrast to arguments from neutral theory, where taxa are ecologically equivalent and beta diversity results primarily from dispersal limitation. 2. Here, we compared beta diversity among assemblages of damselflies (Odonata: Zygoptera), for which previous experiments have shown that niche differences maintain genera within a community, but patterns of relative abundance for species within each genus are shaped primarily by neutral dynamics. 3. Using null‐model and ordination‐based methods, we find that both genera and (in contrast to neutral theory) species assemblage composition vary across the landscape in a deterministic fashion, shaped by environmental and spatial factors. 4. While the observed patterns in species composition conflict with theory, we suggest that this a result of weak ecological filters acting to produce spatial variation in assemblages of ecologically similar species undergoing ecological drift within communities. Such patterns are especially likely in systems of relatively weak dispersers like damselflies.     

Early evolution in the Pinaceae

Nineteen species of structurally preserved ovulate cones of the Pinaceae are known from the Cretaceous. One of these belongs to Pinus, while the others contain anatomical features necessitating their classification in the organ genera Pityostrobus and Pseudoaraucaria. The six species of the latter group are very similar to one another and probably represent a natural, thought extinct, genus. By contrast, there is so much variety in the twelve Cretaceous species of Pityostrobus that when they are considered with respect to the uniformity of cone structure within each of the modern genera, each of the species of this organ genus may well reperesent an natural genus by itself. All expect one of these fossil forms contain features that are today characteristic of Pinus. This, combined with the Early Cretaceous occurrence of a structurally preserved Pinus cone, suggests that Pinus or something very close to it represents the phylogenetic centrum of the ancestral complex. Lack of cones showing distinct affinity with other modern genera supports this idea and further suggests that, while Pinus was in existence in the Early Cretaceous, other Recent genera of the Pinaceae may not have diverged from the complex until the Late Cretaceous or Early Tertiary.     

A taxonomic note on the genus Prevotella: Description of four novel genera and emended description of the genera Hallella and Xylanibacter

The genus Prevotella comprises 55 species with validly published, and correct, names (at June 2021) that are phenotypically, ecologically and functionally diverse. This study used a range of comparative genome approaches (marker gene-based genome phylogeny, core genome phylogeny, average amino acid identity, percentage of conserved proteins and clade-specific marker genes) to identify large differences between the 53 species for which genomes are available, as well as two effectively published yet not validly named species and four novel species. These differences were consistent between the various analysis methods and justify the separation of Prevotella into multiple genera. While the distribution across 19 ecosystem types was unique for each species and inconsistent within clades, the functional repertoire based on the presence/absence of both PFAMs and CAZy families revealed distinct clustering based on the proposed genera. Based on the integration of all results, we propose the reclassification of species previously assigned to the genus Prevotella into seven genera, including four novel genera for which the names Segatella, Hoylesella, Leyella and Palleniella are proposed. In addition to the reclassification of Prevotella, this work describes four novel species, Hallella faecis, Xylanibacter rodentium, Xylanibacter muris, and Palleniella intestinalis.     

Testing the phylogenetic affinities of Southeast Asia's rarest geckos: Flap-legged geckos (Luperosaurus), Flying geckos (Ptychozoon) and their relationship to the pan-Asian genus Gekko

Some of Southeast Asia's most poorly known vertebrates include forest lizards that are rarely seen by field biologists. Arguably the most enigmatic of forest lizards from the Indo Australian archipelago are the Flap-legged geckos and the Flying geckos of the genera Luperosaurus and Ptychozoon. As new species have accumulated, several have been noted for their bizarre combination of morphological characteristics, seemingly intermediate between these genera and the pan-Asian gecko genus Gekko. We used the first multilocus phylogeny for these taxa to estimate their relationships, with particular attention to the phylogenetic placement of the morphologically intermediate taxa Ptychozoon rhacophorus, Luperosaurus iskandari, and L. gulat. Surprisingly, our results demonstrate that Luperosaurus is more closely related to Lepidodactylus and Pseudogekko than it is to Gekko but that some species currently classified as Luperosaurus are nested within Gekko. The Flying Gecko genus Ptychozoon is also nested within Gekko, suggesting that higher-level taxonomic revision of the generic boundaries within Southeast Asian gekkonines will be a priority for the immediate future.     

Ants that associate with Lycaeninae butterfly larvae: diversity, ecology and biogeography

Abstract. Field data on associations of butterfly larvae with ants were collated for 435 species of the subfamily Lycaeninae to analyse patterns in the identity, diversity and ecology of attendant ants. Worldwide, members of at least fifty-three ant genera from six subfamilies associate with Lycaeninae larvae. All these ant genera also forage for other liquid carbohydrate food sources. Species of Crematogaster and Camponotus constitute by far the most important ant associates of Lycaeninae larvae. Diversity of butterfly–ant associations, as measured by Hurlbert rarefaction, is highest in the Oriental, Australian and Nearctic faunal regions, and lower in Africa and the Palaearctic. The Neotropical region could not be assessed separately due to paucity of data. Multiple regression analyses revealed that the number of Lycaeninae species associated with a particular ant genus in a facultatively mutualistic manner is largely determined by the ecological prevalence and geographical distribution, but does not correlate with species richness, of an ant genus. This opportunism is suggested to be the key variable supporting the geographically and taxonomically widespread occurrence of ant–caterpillar mutualism in the Lycaeninae. Obligate interactions are much more specific and almost exclusively involve ecologically dominant ants with long-lived colonies. Neither species richness nor geographical distribution of an ant genus are significant predictors. In such associations, the role of ants shifts from visitors to hosts, and patterns of host use and specificity resemble those known from inquiline ant guests.     

Phylogenetics of Stelis and closely related genera (Orchidaceae: Pleurothallidinae)

Stelis, one of the largest genera within Pleurothallidinae, was recently recircumscribed to include a few hundred more species, most of which had previously been assigned to Pleurothallis. Here, a new phylogenetic analysis of Stelis and closely related genera based on DNA sequences from nuclear ITS and chloroplast matK, based on a much larger sample, is presented; it includes more than 100 species assigned to Stelis and covers all proposed groupings within the genus, many of which have not previously been represented. Clades are proposed to enable easier discussion of groups of closely related species; each clade is characterized morphologically, ecologically, and geographically to explain the evidence found in the molecular analysis. Discussion of the evolutionary trends of character states found in the genus in its broad sense is given. The current taxonomy of the group is given and the possible taxonomical implications of the findings presented here are discussed.     

How do obligate parasites evolve? A multi-gene phylogenetic analysis of downy mildews

Plant parasitism has independently evolved as a nutrition strategy in both true fungi and Oomycetes (stramenopiles). A large number of species within phytopathogenic Oomycetes, the so-called downy mildews, are defined as obligate biotrophs since they have not, to date, been cultured on any artificial medium. Other genera like Phytophthora and Pythium can in general be cultured on standard or non-standard agar media. Within all three groups there are many important plant pathogens responsible for severe economic losses as well as damage to natural ecosystems. Although they are important model systems to elucidate the evolution of obligate parasites, the phylogenetic relationships between these genera have not been clearly resolved. Based on the most comprehensive sampling of downy mildew genera to date and a representative sample of Phytophthora subgroups, we inferred the phylogenetic relationships from a multi-gene dataset containing both coding and non-coding nuclear and mitochondrial loci. Phylogenetic analyses were conducted under several optimality criteria and the results were largely consistent between all the methods applied. Strong support is achieved for monophyly of a clade comprising both the genus Phytophthora and the obligate biotrophic species. The facultatively parasitic genus Phytophthora is shown to be at least partly paraphyletic. Monophyly of a cluster nested within Phytophthora containing all obligate parasites is strongly supported. Within the obligate biotrophic downy mildews, four morphologically or ecologically well-defined subgroups receive statistical support: (1) A cluster containing all species with brownish-violet conidiosporangia, i.e., the genera Peronospora and Pseudoperonospora; (2) a clade comprising the genera with vesicular to pyriform haustoria (Basidiophora, Benua, Bremia, Paraperonospora, Plasmopara, Plasmoverna, Protobremia); (3) a group containing species included in Hyaloperonospora and Perofascia which almost exclusively infect Brassicaceae; (4) a clade including the grass parasites Viennotia oplismeni and Graminivora graminicola. Phylogenetic relationships between these four clades are not clearly resolved, and neither is the position of Sclerospora graminicola within the downy mildews. Character analysis indicates an evolutionary scenario of gradually increasing adaptation to plant parasitism in Peronosporales and that at least the most important of these adaptive steps occurred only once, including major host shifts within downy mildews.     

采用PCR-RFLP和RAPD对球壳孢目真菌系统学的研究

对球壳孢目真菌首次采用ＰＣＲ－ＲＦＬＰ和ＲＡＰＤ进行了系统发育研究。以ＩＴＳ１和ＩＴＳ４为引物对４属１２种２４个菌株的核糖体ＤＮＡ转录间区（ＩＴＳ）进行了ＰＣＲ扩增,４种内切酶（ＡｌｕＩ,Ｈｈａ,ＭｓｐＩ,ＴａｑＩ）酶切,结果表明：主要属的ＩＴＳ区长度不同,同属不同种相同。Ｃｏｎｉｏｔｈｙｒｉｕｍ,Ｐｈｙｌｏｓｔｉｃｔａ,Ａｓｃｏｃｈｙｔａ,ＳｅｐｔｏｒｉａＩＴＳ区长度分别为６３０,５６０,５５０,５４０ｂｐ;酶切图谱属间差别明显,属内种间基本一致,暗示传统的分种可能过细,某些种的成立还有商榷的余地,ＰＣＲ－ＲＦＬＰ对确定疑难种属的地位有重要的意义。３属８种１６个菌株的ＲＡＰＤ结果表明,种内图谱相同或图谱类型相同,而种间明显不同,揭示出过去所划分的种的确存在本质的差别,但是否达到种级的差别还有待于进一步研究     

The number of species of rodent coccidia and of other protozoa

About 447 species of coccidia have been named from the 1687 living, known species of rodents; 207 host species, 92 host genera, and 15 host families are represented; this is about 12% of the known species of rodents. About 4600 species of apicomplexan protozoa have been named. Assuming that the same proportion of the total number of apicomplexan species has been named as of the coccidian species, there must actually be about 38,333 species of apicomplexan protozoa. There are 5.4 times as many protozoan genera as of apicomplexan genera. Assuming that the number of species in each genus is the same for all the protozoa as it is for the Apicomplexa, there may actually be 206,998 species of protozoa. This may be too conservative an estimate. Based on other criteria, an estimate of over 20 million species could be made.     

A newly-identified lineage of Schistosoma

Because of their role in causing schistosomiasis, flukes of the genus Schistosoma are the best known of all digeneans. The genus has traditionally been divided into four familiar species groups. Here we report on three poorly known species of Schistosoma, one of which, Schistosoma hippopotami, is known from the hippopotamus, one of which is provisionally identified as Schistosoma edwardiense, another hippo parasite, and a third that has not previously been described. All were collected from freshwater snails obtained from Lake Edward, western Uganda, the type locality for both known hippo schistosomes. The three different kinds of schistosome cercariae differ from one another in size, and all are readily differentiated by their long tail stems from the cercariae of human-infecting species. Furthermore, each was recovered from a different genus of snail host, Biomphalaria sudanica, Bulinus truncatus or Ceratophallus natalensis. Molecular analysis, based on 8350 bases of combined nuclear and mitochondrial DNA, groups these three long tail-stem cercariae into a well supported clade that does not associate with any of the recognised species groups. The placement of this clade, basal to all African species plus several Asian species, suggests that there has been an ancient association between Schistosoma and hippos. This new African Schistosoma clade advocates the need for further modification of the traditional species group-based classification. Two of the four species groups are paraphyletic. It also suggests that Schistosoma has been remarkably plastic with respect to adapting to snail hosts-three distantly related genera of planorbid snails have been exploited by worms within a single clade. Finally, it adds a new layer of complexity to deciphering the origins of Schistosoma, often considered to be African but recently challenged as being Asian. In the late Cenozoic the distribution of hippo species straddled both Africa and Asia and they may have provided a means for the introduction of blood flukes to Africa.     

Phylogenetic structure of the genera Flexibacter,Flexithrix, and Microscilla deduced from 16S rRNA sequence analysis

The 16S rDNA sequences of 40 strains of 17 species in the genus Flexibacter, 5 strains of 4 species in the genus Microscilla, and 1 strain of Flexithrix dorotheae, including all type strains of approved and validated species in these genera, were determined to reveal their phylogenetic relationships. The 16S rRNA sequence analysis demonstrated the extreme heterogeneity of the genera Flexibacter and Microscilla. The strains examined diverged into 24 distinct lines of descent (1 group included both flexibacteria and flexithrix, and 1 group included both flexibacteria and microscilla) that were remote from each other at the genus level or higher. Flexibacter strains were scattered across the cytophaga-flavobacteria-bacteroides phylum and divided into 20 phylogenetic groups, and the genus Microscilla was separated into 5 groups. Flexibacter flexilis, the type species of the genus Flexibacter, and Microscilla marina, the type species of the genus Microscilla, were isolated from other organisms in their respective genera. This means that each genus should be restricted to only the type species. Flexithrix dorotheae, the type species of the genus Flexithrix, clustered with Flexibacter aggregans. The heterogeneity was found not only within genera but also within species. Flexibacter aggregans, Flexibacter aurantiacus, Flexibacter flexilis, Flexibacter roseolus, Flexibacter tractuosus, and "Microscilla sericea" each contained phylogenetically distant strains. The taxonomic concept of the genera Flexibacter, Flexithrix, and Microscilla should be reorganized in accordance with the natural relationships revealed in this study.     

Phylogeny of PgiC gene in Shorea and its closely related genera (Dipterocarpaceae), the dominant trees in Southeast Asian tropical rain forests

Dipterocarpaceae, trees that dominate tropical rain forests in Southeast Asia consist of many economically and ecologically important species. We determined partial sequences of the PgiC gene from species of Shorea, Hopea, Neobalanocarpus, and Parashorea to elucidate phylogenetic relationships among the species of these genera, which have been regarded as interrelated. The sequences generated a gene tree with better resolution than previous cpDNA trees. The PgiC tree is essentially consistent with cpDNA trees, except for the placement of Neobalanocarpus. The PgiC tree shows that Neobalanocarpus is nested within White Meranti of Shorea, whereas this genus forms a clade with Hopea in cpDNA trees. This conflict suggests that Neobalanocarpus is derived via hybridization between White Meranti of Shorea and Hopea. Species belonging to each of three timber groups (Yellow Meranti, Balau, and Red Meranti) within Shorea are monophyletic. Together they form a monophyletic clade distinct from White Meranti. Botanical sections within Red Meranti appear not to be monophyletic. An extensive number of shared polymorphisms among species and consequential lack of monophyly of intraspecific haplotypes are found in Red Meranti. Potential causes of this phenomenon, including persistence of ancestral polymorphisms and gene flow via interspecific hybridization, are discussed.     

Significance of hind wing morphology in distinguishing genera and species of cantharid beetles with a geometric morphometric analysis

There remain some difficulties in delimitation of related genera or sibling species for cantharid beetles, because the traditionally taxonomic method and morphological characters have not been updated or introduced. In the present study, we firstly use the landmark-based geometric morphometrics to analyze and compare the hind wings of nine species belonging to three genera of Cantharinae to ascertain whether this approach may be used as a reliable method in the study of the taxonomy of this group. The results show that the shape differences of the hind wings among genera seem more variable than that within each genus, and the variations for each species are different from one another, as shown in the principal component analyses. And the canonical variates analyses show that there are significant differences among the genera and the species of each genus, which demonstrates that the hind wing shape can be diagnostic for both generic and specific identification of the cantharid beetles. This study sheds new light into clarifying the taxonomic uncertainties of Cantharidae, and lays a foundation for further studies on the evolution of the cantharid hind wing shape.     

叉草蛉属Dichochrysa中国种类订正（脉翅目：草蛉科）

本文对叉草蛉属Ｄｉｃｈｏｃｈｒｙｓａ中国已知种类予以订正,共包括了４４种,其中４０种是新组合的。文中还就属的分类地位作了进一步讨论。     

Ecogeographical Differentiation in Nectandra (Lauraceae), and its Historical Implications

Following a taxonomic revision of Nectandra, a genus of about 114 species of neotropical trees, character gradients are compared against geographical distribution, habitat preferences, and reproductive phenology of individual species, with the aim of reconstructing the spatial and temporal diversification of the genus. It is shown that Nectandra, together with Ocotea, Persea, and other genera of the Lauraceae, originated from a northern hemisphere matrix that immigrated into South America, perhaps as late as after the closure of the Central American land bridge in the Pliocene. The dramatic diversification of the genus within South America was facilitated by its ornithochorous dispersal system, implying ample processes of allopatric speciation. At present, speciation seems to take place preferably by processes of ecotypic (mostly edaphic) specialization, by which widely distributed, ecologically polymorphic species give rise to swarms of ecologically narrowly specialized satellite species.     

Domicile constructing phlaeothripine Thysanoptera from Acacia phyllodes in Australia: Dunatothrips Moulton and Sartrithrips gen.n., with a key to associated genera

Abstract. Domiciles are constructed by adult females of species in several genera of Australian phlaeothripine Thysanoptera. This is done by glueing or sewing together two or more Acacia phyllodes, or by weaving a tentlike structure on a phyllode surface. These thrips then breed within the domiciles, sometimes for multiple generations. Mature females become dealate in seven of twelve species discussed, through fracture of the distal four-fifths of each wing, although young females and all males have complete wings. Of these twelve species, six are placed in Dunatothrips Moulton and six in a new genus, Sartrithrips . Adults of the latter genus have a spinelike structure dorsal to the anus, 'the supra-anal process', that is not found in any other member of Phlaeothripidae. Despite the many structural and biological character states shared by these twelve species, molecular methods using one nuclear gene ( wingless ) and one mitochondrial gene (cytochromome oxidase 1) demonstrated that the two genera are monophyletic but do not have a sister-group relationship. Identification keys are provided to nineteen described phlaeothripine genera that are known to be associated with Acacia phyllodes, and to the twelve species in Dunatothrips and Sartrithrips , of which ten are described as new.     

Is genus or species identification of periphytic diatoms required to determine the impacts of river regulation?

As periphytic diatoms are widely used for biological assessment of rivers, a comparison was made of the use of information at genus or species levels to test the effects of river regulation in eastern Australia. 74 species from 30 genera were recorded from 10 regulated and 13 unregulated sites. The interpretation of the effects of eight dams and weirs on the periphytic diatom assemblages gave broadly similar results whichever taxonomic level was used. The similarity of the efficiency of using data at either taxonomic level is probably related to the fact that the majority of genera have few species. It is suggested that the small number of species within each genus effectively reduces the chances of differing species responses to environmental disturbance negating the response at the genus level. This revised version was published online in July 2006 with corrections to the Cover Date.