Pareiorhina hyptiorhachis,a new catfish species from Rio?Paraíba do Sul basin,southeastern Brazil?(Siluriformes,Loricariidae)

Pareiorhina hyptiorhachis is described from Ribeirão Fernandes and Rio Pomba, Rio Paraíba do Sul basin, Brazil. The new species is distinguished from its congeners (Pareiorhina brachyrhyncha, Pareiorhina carrancas, Pareiorhina cepta, and Pareiorhina rudolphi) by the presence of a conspicuous ridge on the trunk posterior to the dorsal fin (postdorsal ridge), simple teeth, a completely naked abdomen, a round dorsal profile of the head, greater suborbital depth and greater head width. We discuss the distributional pattern of the new species and its congeners and hypothesize that headwater capture is responsible for the distribution of Pareiorhina species across different watersheds in southeastern of Brazil.     

DIVERSITY AND MORPHOLOGY OF SKELETONEMA SPECIES IN SOUTHERN BRAZIL,SOUTHWESTERN ATLANTIC OCEAN1

We examined the morphology of Skeletonema species occurring in coastal waters of southern Brazil, on the basis of LM, SEM, and TEM analyses of six isolated strains and of 13 field samples from the Patos Lagoon estuary and the adjacent Cassino Beach. We concluded that the genus Skeletonema is highly diverse in coastal waters of southern Brazil, with the occurrence of four confirmed species: S. costatum, S. pseudocostatum, S. potamos, and S. tropicum. In addition, EM details must still be provided for S. menzelii, and genetic studies should be conducted to confirm the identity of S. cf. grethae and S. subsalsum. The high diversity in this geographic area can be attributed to the proximity of the Subtropical Convergence and to the freshwater ecosystems of Patos Lagoon and La Plata River that favor the presence of warm‐, cold‐, and brackish‐water species.     

Ecological speciation in anemone‐associated snapping shrimps (Alpheus armatus species complex)

Divergent natural selection driven by competition for limited resources can promote speciation, even in the presence of gene flow. Reproductive isolation is more likely to result from divergent selection when the partitioned resource is closely linked to mating. Obligate symbiosis and host fidelity (mating on or near the host) can provide this link, creating ideal conditions for speciation in the absence of physical barriers to dispersal. Symbiotic organisms often experience competition for hosts, and host fidelity ensures that divergent selection for a specific host or host habitat can lead to speciation and strengthen pre‐existing reproductive barriers. Here, we present evidence that diversification of a sympatric species complex occurred despite the potential for gene flow and that partitioning of host resources (both by species and by host habitat) has contributed to this diversification. Four species of snapping shrimps (Alpheus armatus, A. immaculatus, A. polystictus and A. roquensis) are distributed mainly sympatrically in the Caribbean, while the fifth species (A. rudolphi) is restricted to Brazil. All five species are obligate commensals of sea anemones with a high degree of fidelity and ecological specificity for host species and habitat. We analysed sequence data from 10 nuclear genes and the mitochondrial COI gene in 11–16 individuals from each of the Caribbean taxa and from the only available specimen of the Brazilian taxon. Phylogenetic analyses support morphology‐based species assignments and a well‐supported Caribbean clade. The Brazilian A. rudolphi is recovered as an outgroup to the Caribbean taxa. Isolation–migration coalescent analysis provides evidence for historical gene flow among sympatric sister species. Our data suggest that both selection for a novel host and selection for host microhabitat may have promoted diversification of this complex despite gene flow.     

A new small mammal assemblage from the M013 Terre Rosse fissure filling (Gargano,South-Eastern Italy)

The taxonomic study of the small mammal assemblage from fissure M013, sampled by a team of the University of Torino during the 2005–2009 excavations in the Dell’Erba Quarry (Apricena, Foggia) is presented. The assemblage includes the Echinosoricinae Apulogalerix cf. pusillus and the Crocidosoricinae ?Lartetium cf. dehmi; the Myomiminae species Stertomys simplex and Stertomys lyrifer; a new genus and species of Cricetodontinae and a single specimen of Hattomys cf. nazarii. Muridae include Mikrotia cf. parva, Mikrotia sp. 1 and a new genus and species of Murinae, phylogenetically related to Mikrotia. The occurrence of the new Murinae, the new Cricetodontinae, the two species of glirids and the Crocidosoricinae, as well as the absence of Apodemus and Prolagus, indicates M013 as the oldest Gargano's faunal assemblage known to date, despite the occurrence of Hattomys cf. nazarii, Mikrotia cf. parva and Mikrotia sp. 1, which most probably results from infiltrations from younger fissure fillings. The M013 assemblage is an absolute novelty for the Abruzzo-Apulian Palaeobioprovince, opening new perspectives for the timing and mode of dispersal of the forerunners of the Gargano fauna.     

A population study of epigean and subterranean Potamolithus snails from southeast Brazil (Mollusca: Gastropoda: Hydrobiidae)

Population and reproductive biology of four Potamolithus species, two epigean (P. ribeirensis and Potamolithus sp. 1) and two subterranean (P. troglobius and Potamolithus sp. 2), from the Upper Ribeira Valley, southeast Brazil, were studied, from June 1996 to June 1997, using 1 m² quadrats and counting all individuals found in these quadrats. P. ribeirensis showed the highest variation in population densities (from 0 – after floods – to 467 ind.m^?2), with average ranges from 16.0 to 284.8 ind.m^?2. The densities of the two troglobitic species (average ranges for Potamolithus sp. 2 and P. troglobius, from 17.6 to 58.4 and from 0 to 61.5 ind.m^?2, respectively), higher than those of Potamolithus sp. 1 (average from 0 to 9.3 ind.m^?2), were high for cave organisms. P. ribeirensis and the two troglobitic species showed higher densities in warmer, wetter months, while Potamolithus sp. 1 showed higher densities in cooler, less rainy months. The troglobitic species were non-seasonal, since high percentages of mature females were observed throughout the year. In the epigean species, the reproductive periods showed no detectable pattern: in 1996 P. ribeirensis had a peak in winter and in the next year (1997) in spring and summer. Potamolithus sp. 1 had reproductive peaks in fall and winter.     

THE CYANOBACTERIAL GENUS BRASILONEMA,GEN. NOV., A MOLECULAR AND PHENOTYPIC EVALUATION1

Twelve populations of filamentous, heterocytous scytonematoid cyanobacteria from subaerophytic (mainly epiphytic) habitats in subtropical and tropical Brazil (São Paulo) were studied. The populations form a uniform cluster, which differs from the traditional scytonematoid genera genetically and by several indistinct, but typical morphological characters (fasciculation of filaments, rare false branching). Two strains were isolated in monospecific cultures. Molecular analyses were performed on these strains from natural populations taken from bromeliad leaves and iron water pipes. Because the results from 16S rRNA gene sequencing indicated the separate position of this cyanobacterium at the generic level, a new genus, Brasilonema, is proposed with the type species Brasilonema bromeliae. The new genus is described using combined molecular and cytomorphological criteria, in accordance with the nomenclatorial recommendations of both the Bacteriological Code and the Botanical Code of Nomenclature (cf. Oren 2004 ). The ultrastructure of the type species was studied, and vacuole‐like structures in the cells were explained. The genus Brasilonema is commonly distributed, particularly in subaerophytic habitats from southeastern Brazil. The type species (B. bromeliae) has a rather curious ecology, living epiphytically (in phytothelmes) inside the vase‐shaped leaf rosettes of bromeliads.     

Genetic Differentiation Among Annual Fishes of the Genus Cynolebias (Cyprinodontiformes, Rivuluidae) in a Biosphere Reserve Site from Uruguay

The annual killifishes of the genus Cynolebias include one well supported clade composed of three taxa: Cynolebias adloffi, from Porto Alegre (southern Brazil), C. cf. adloffi and Cynolebias viarius, parapatrically distributed in southeastern Uruguay. Cynolebias cf. adloffi has always been considered an intergradation complex of populations between C. adloffi and C. viarius showing high levels of morphological variability and its systematic affinities have been historically discussed. This study clarified the patterns of genetic differentiation of C. cf. adloffi by means of RAPD markers to define its taxonomic status as a possible separated taxon. Multidimensional scaling analysis reveals that C. cf. adloffi is composed of two highly structured genetic groups (northern and southern) with discrete geographical distributions. The estimate of gene diversity for RAPD markers could suggest a scenario in which the rainy season flood pool populations across large distances could make intrapopulation variation high but interpopulation variation low. Phylogenetic analyses (UPGMA and parsimony) show different and unstable patterns of relationships among the taxa analyzed. In the UPGMA tree, C. viarius and C. cf. adloffi appear as sister taxa, while parsimony analysis does not support a unique hypothesis of relationship. Our analyses are in agreement with the hypothesis that C. cf. adloffi may well be a case of ancient hybrid ancestry followed by its divergence associated with Pleistocene and post-Pleistocene environmental changes in this region.     

Morphology and Phylogeny of Three Pseudovorticella Species (Ciliophora: Peritrichia) from Brackish Waters of China

The biodiversity of peritrich ciliates from brackish biotopes is rarely investigated, especially members of the genus Pseudovorticella. Here, the morphology of three species of Pseudovorticella, i.e. P. cf. vestita (Stokes, 1883) Jankowski, 1976, P. spathulata sp. n., and P. qinghaiensis sp. n. isolated from brackish waters were studied. Pseudovorticella cf. vestita is characterized by inverted bell‐shaped cell; a J‐shaped macronucleus; a single contractile vacuole ventrally located; P3 three‐rowed; pellicle striated with highly developed pellicular vesicles; 18–22 transverse silverlines between peristome and aboral trochal band, and 9–13 between aboral trochal band and scopula. Pseudovorticella spathulata sp. n. differs from its congeners by the following combination of characters: elongate‐elliptical cell; a single contractile vacuole near ventral wall of infundibulum; a J‐shaped macronucleus; P3 three‐rowed; 24–34 silverlines between oral area and aboral trochal band and 6–10 between aboral trochal band and scopula. Pseudovorticella qinghaiensis sp. n. is characterized by: cell with an oval outline; a single contractile vacuole near ventral wall of infundibulum; a C‐shaped macronucleus; P3 three‐rowed; 30–35 and 9–11 transverse silverlines above and below the trochal band, respectively. The SSU rDNA sequences of five Pseudovorticella species, namely P. annulata, P. monilata, P. parakenti, P. spathulata sp. n., and P. cf. vestita, plus that of Zoothamnium hartwigi, are reported for the first time and their evolutionary relationships are investigated. Five undefined Pseudovorticella forms are considered might be conspecific with P. monilata. Two congeners are conspecific with P. spathulata sp. n. Phylogenetic analyses based on SSU rDNA sequences reveal that Pseudovorticella is not monophyletic and Z. hartwigi clusters with its congeners as expected.     

Pollination biology of four sympatric species of Habenaria (Orchidaceae: Orchidinae) from southern Brazil

The pollination process and breeding system of the sympatric Habenaria johannensis, H. macronectar, H. megapotamensis and H. montevidensis was documented for native populations from Rio Grande do Sul, Brazil. All species investigated offer a nectar reward (mean values of total sugars ranging from 18 to 26%) concealed in a spur. Habenaria montevidensis is pollinated by butterflies (Hesperiidae, especially of the genus Urbanus) that carry pollinaria on their eyes; the other three species are pollinated by Sphingidae. Habenaria johannensis is pollinated by the moths Manduca rustica and M. sexta that carry the pollinaria at the base of the proboscis. Habenaria macronectar is pollinated by the moths Eumorpha labrusca and M. cf. lucetius, and these bear pollinaria between the palpi. Habenaria megapotamensis is pollinated by moths of M. cf. lucetius that bear the pollinaria on the proboscis. All species studied are self‐compatible, but pollinator dependent. They also displayed high reproductive success (ranging from 69.48 to 97.40%) and male efficiency factors slightly higher than 1, suggesting that at least one flower was pollinated for each flower acting as pollen donor. At the study sites, the investigated Habenaria spp. are isolated (in terms of pollination) by a set of factors that includes differing floral morphologies, different pollinators and/or different pollinarium placement on the pollinator. © 2012 The Linnean Society of London, Botanical Journal of the Linnean Society, 2012, ??, ??–??.     

Phylogenetics and comparative analysis of the mitochondrial genomes of three violet‐ringed octopuses

Similar morphological characters and little molecular data of Amphioctopus rex, A. neglectus and A. cf. ovulum resulted in their unknown phylogenetic statuses and equivocal relationships. In this study, the complete mitochondrial genomes of these three species collected in Chinese waters were sequenced and compared with each other to clarify the relationships among them. The lengths of the mitochondrial genomes varied from 15,646 bp to 15,814 bp, and the A + T content and GC skew for protein‐coding genes showed little variation. In contrast, both a dendrogram based on codon usage and the gene arrangements of the three octopuses showed that A. rex was more closely related to A. neglectus than to A. cf. ovulum. Five data sets and two methods (maximum likelihood and Bayesian inference) were utilized for the first time to explore the phylogenetic relationships among these three species in Octopodidae. The results indicated that a data set combining protein‐coding genes and RNA genes (PR) was optimal for analysing the relationships among 43 cephalopods. All of the phylogenetic trees divided the cephalopods into 10 taxa and supported the monophyly of Oegopsida, Myopsida, Sepiidae and Octopodidae. In this study, Idiosepiidae was classified as sister to Sepiolidae. Trees constructed using all data sets robustly supported the monophyly of the genus Amphioctopus. Notably, A. rex was more closely related to A. neglectus than to A. cf. ovulum, although these three species share the characteristic of violet rings on dark ocelli.     

Length–weight relationships of four fish species from the upper Paraná River basin,Southeastern Brazil

Here the length–weight relationships (LWR, hereafter) of Pareiorhina pelicicei, Trichomycterus candidus, T. pirabitira, and T. piratymbara are provided. Samples of each species were collected between April and July 2017 with a hand net (1.5 mm mesh) in three sites from the upper Paraná River basin, Southeastern Brazil. These results increase knowledge about the LWR of Neotropical freshwater fish.     

Morphological and genetic characterization of bloom‐forming Raphidophyceae from Brazilian coast

Massive fish kills caused by bloom‐forming species of the Raphidophyceae occur in many marine coastal areas and often cause significant economic losses. The ultrastructure and phylogeny of marine raphidophytes from the Brazilian coast have not been fully analyzed. Here, we present the first combined morphological and genetic characterization of raphidophyte strains from the Brazilian coast. Ten strains of four raphidophyte species (Chattonella subsalsa, C. antiqua, Heterosigma akashiwo, and Fibrocapsa japonica) were characterized based on morphology (including ultrastructure) and LSU rDNA sequences. Chattonella subsalsa and C. antiqua formed two distinct genetic clades. We found that the cell size is the only phenotypic feature separating C. subsalsa and C. antiqua strains from Brazil, whereas traditional characteristics used for species separation in the genus Chattonella (i.e., tail size, chloroplast presence in the tail, ‘oboe‐shaped’ mucocysts, and presence of thylakoids in the pyrenoid matrix) were not sufficiently discriminative, due to their overlapping in the two taxa. The phylogenetic analysis indicated intra‐specific geographic differences among C. subsalsa sequences, with two subclades: one formed by isolates from Brazil, USA, and Iran, and another by a sequence from the Adriatic Sea (Italy). Fibrocapsa japonica also showed intra‐specific geographic differences, with a sequence from a Brazilian strain grouped with strains from Japan, Australia, and Germany, all of them distinct from the Italian isolates. This is the first combined morphological and phylogenetic analysis of raphidophytes from the South Atlantic. Our findings broaden knowledge of the biodiversity of this important bloom‐forming algal group.     

Molecular phylogeny of Neotropical bioluminescent beetles (Coleoptera: Elateroidea) in southern and central Brazil

Bioluminescence in beetles is found mainly in the Elateroidea superfamily (Elateridae, Lampyridae and Phengodidae). The Neotropical region accounts for the richest diversity of bioluminescent species in the world with about 500 described species, most occurring in the Amazon, Atlantic rainforest and Cerrado (savanna) ecosystems in Brazil. The origin and evolution of bioluminescence, as well as the taxonomic status of several Neotropical taxa in these families remains unclear. In order to contribute to a better understanding of the phylogeny and evolution of bioluminescent Elateroidea we sequenced and analyzed sequences of mitochondrial NADH2 and the nuclear 28S genes and of the cloned luciferase sequences of Brazilian species belonging to the following genera: (Lampyridae) Macrolampis, Photuris, Amydetes, Bicellonycha, Aspisoma, Lucidota, Cratomorphus; (Elateridae) Conoderus, Pyrophorus, Hapsodrilus, Pyrearinus, Fulgeochlizus; and (Phengodidae) Pseudophengodes, Phrixothrix, Euryopa and Brasilocerus. Our study supports a closer phylogenetic relationship between Elateridae and Phengodidae as other molecular studies, in contrast with previous morphologic and molecular studies that clustered Lampyridae/Phengodidae. Molecular data also supported division of the Phengodinae subfamily into the tribes Phengodini and Mastinocerini. The position of the genus Amydetes supports the status of the Amydetinae as a subfamily. The genus Euryopa is included in the Mastinocerini tribe within the Phengodinae/Phengodidae. Copyright © 2013 John Wiley & Sons, Ltd.     

Phylogenetic relationships in genus <Emphasis Type="Italic">Arachis</Emphasis> based on ITS and 5.8S rDNA sequences

Background  

The genus Arachis comprises 80 species and it is subdivided into nine taxonomic sections (Arachis, Caulorrhizae, Erectoides, Extranervosae, Heteranthae, Procumbentes, Rhizomatosae, Trierectoides, and Triseminatae). This genus is naturally confined to South America and most of its species are native to Brazil. In order to provide a better understanding of the evolution of the genus, we reconstructed the phylogeny of 45 species using the variation observed on nucleotide sequences in internal transcribed spacer regions (ITS1 and ITS2) and 5.8 S of nuclear ribosomal DNA.     

Diversity of Halimeda (Bryopsidales,Chlorophyta) in New Caledonia: a Combined Morphological and Molecular Study

Halimeda is a genus of calcified and segmented green macroalgae in the order Bryopsidales. In New Caledonia, the genus is abundant and represents an important part of the reef flora. Previous studies recorded 19 species that were identified using morphological criteria. The aim of this work was to reassess the diversity of the genus in New Caledonia using morpho‐anatomical examinations and molecular analyses of the plastid tufA and rbcL genes. Our results suggest the occurrence of 22 species. Three of these are reported for the first time from New Caledonia: Halimeda kanaloana, H. xishaensis, and an entity resembling H. stuposa. DNA analyses revealed that the species H. fragilis exhibits cryptic or pseudocryptic diversity in New Caledonia. We also show less conclusive evidence for cryptic species within H. taenicola     

Phylogenetic Relationships and Morphological Character Evolution of Photosynthetic Euglenids (Excavata) Inferred from Taxon‐rich Analyses of Five Genes

Photosynthetic euglenids acquired chloroplasts by secondary endosymbiosis, which resulted in changes to their mode of nutrition and affected the evolution of their morphological characters. Mapping morphological characters onto a reliable molecular tree could elucidate major trends of those changes. We analyzed nucleotide sequence data from regions of three nuclear‐encoded genes (nSSU, nLSU, hsp90), one chloroplast‐encoded gene (cpSSU) and one nuclear‐encoded chloroplast gene (psbO) to estimate phylogenetic relationships among 59 photosynthetic euglenid species. Our results were consistent with previous works; most genera were monophyletic, except for the polyphyletic genus Euglena, and the paraphyletic genus Phacus. We also analyzed character evolution in photosynthetic euglenids using our phylogenetic tree and eight morphological traits commonly used for generic and species diagnoses, including: characters corresponding to well‐defined clades, apomorphies like presence of lorica and mucilaginous stalks, and homoplastic characters like rigid cells and presence of large paramylon grains. This research indicated that pyrenoids were lost twice during the evolution of phototrophic euglenids, and that mucocysts, which only occur in the genus Euglena, evolved independently at least twice. In contrast, the evolution of cell shape and chloroplast morphology was difficult to elucidate, and could not be unambiguously reconstructed in our analyses.     

Two <Emphasis Type="Italic">Pione</Emphasis> species (Hadromerida,Clionaidae) from the Red Sea: a taxonomical challenge

Boring sponges of the genus Pione (Hadromerida, Clionaidae) are easily recognizable due to their spiculation. However, species identification is challenging, as the potentially diagnostic morphological character states of different species often overlap. For this reason, this group of species is frequently referred to as the ‘Pione vastifica complex’, after the most well-studied species of the genus. Boring-sponge samples were collected in the Red Sea and identified as P. cf. lampa and P. cf. vastifica, respectively. So far, these two species names have usually been considered as valid, although some authors suggested them to be synonymous. Morphological analyses were performed on spicules and micro-erosion patterns by means of both light and scanning electron microscopy. Two apparent morphotypes can be distinguished, mainly by the growth form, but statistical analysis does not support a clear separation in two species. In addition, a DNA barcoding approach using sequences of CO1 has not identified any nucleotide sequence differences. These data support the hypothesis that P. cf. lampa and P. cf. vastifica from the Red Sea are conspecific.     

Morphogenesis and Molecular Phylogeny of the Soil Ciliate Holostichides chardezi (Ciliophora,Hypotrichia, Bakuellidae), with Redefinition of Holostichides Foissner, 1987 and Establishment of a New Genus Anteholostichides

Morphogenesis of the soil hypotrich ciliate, Holostichides chardezi Foissner, 1987, collected from southeastern China, was investigated using the protargol staining method. The main morphogenetic events follow a similar process with that of its congeners. Phylogenetic analyses based on the SSU rDNA sequence data indicate that Holostichides is nonmonophyletic; H. chardezi, the type species of Holostichides, clusters with H. heterotypicus, while H. terrae is distinctly separate from these species. H. terrae can be distinguished from H. chardezi (type species of Holostichides) and H. heterotypicus by undulating membranes relatively long and distinctly curved (vs. relatively short and straight), pharynx with (vs. without) rod‐shaped structure, and two (vs. more than two) frontoterminal cirri. Therefore, a new genus, Anteholostichides nov. gen., has been proposed for H. terrae. Further, the diagnosis of the genus Holostichides is improved.     

Caryology and taxonomy of the Catarrhine monkeys

The number and the morphology of chromosomes are a characteristic of the species. Knowledge of the mechanisms of chromosome breakage and rearrangement offers the possibility of understanding caryotype evolution. On the basis of this knowledge, we can trace the phylogeny and organize the taxonomy of a group of living forms. In the present paper, the available data on the number and morphology of the chromosomes of the Catarrhine monkeys have been analyzed from the standpoint of taxonomy and evolution. According to this karyological revision, the suborder Catarhine might be divided into two groups (superfamilies): Cercopithecoidea and Hominoidea. Within the Cercopithecoidea the following main groups should be further distinguished: 1. a group which includes all the species of the genus Cercopithecus; 2. a group which includes the different species belonging to the genera Papic, Macaca, Theropithecus and Cercocebus; 3. a group which includes the genus Colobus, Presbytis and Hylobates. Within the Hominoidea, the three anthropoid apes (Pan, Pongo, Gorilla) can be distinguished from man by the difference in the number of chromosomes. Moreover, among the anthropoid apes, the Orang-outang can be differentiated from the others by the morphology of the chromosomes.     

Finding arboreal snakes in an evolutionary tree: phylogenetic placement and systematic revision of the Neotropical birdsnakes

The genus Pseustes Fitzinger, 1843 is composed of three recognized species, Pseustes poecilonotus, P. shropshirei and P. sulphureus, which may be the largest sized colubrid snake in the New World. The group has a complex systematic history that has yet to be untangled using modern molecular phylogenetic approaches. The systematic position, within‐group diversity and distribution are therefore uncertain. We obtained samples of four species from multiple specimens across their distribution and analysed one nuclear and two mitochondrial genes to determine the phylogenetic placement of the genus and infer relationships among Pseustes lineages. We find strong support for the paraphyly of Pseustes with respect to the monotypic genus Spilotes, both of which are nested within a clade of at least 23 other New World Colubrinae genera. Based on our results, we formally revise the taxonomy of P. poecilonotus and P. sulphureus, resurrecting the taxon P. polylepis for populations of P. poecilonotus from South America and allocating P. sulphureus to the genus Spilotes which renders both genera monophyletic. Additionally, we identify two lineages that are putatively new and currently unrecognized species. Finally, the placement of P. sulphureus, the type species of Pseustes, in the genus Spilotes, requires the allocation of the senior synonym Phrynonax be considered for the remaining Pseustes taxa.