Does the Gonostomum-patterned oral apparatus in hypotrichia carry a phylogenetic signal? Evidence from morphological and molecular data based on extended taxon sampling using three nuclear genes (Ciliophora,Spirotrichea)

The classification of hypotrichs based on the gonostomatid oral structure is widely accepted, but the phylogenetic signal of this character is unknown. Here, we infer the species phylogeny of those gonostomatids for which molecular data are available, plus26 new sequences of SSU-rDNA, ITS1-5.8 S-ITS2 and LSU-rDNA genes. The results indicate that:(i) the endoral is more phylogenetically informative than the paroral;(ii) the structure of the endoral and the Gonostomum-pattern adoral zone of membranelles are plesiomorphies for the hypotrichs sensu stricto;(iii) the group of species possessing these features is monophyletic in all our phylogenetic analyses, except that for the SSU-rDNA;(iv) Schmidingerotrichidae is monophyletic in all trees, suggesting that it is a well-defined family;(v) the Gonostomatidae is polyphyletic in the SSU-rDNA and ITS1-5.8 S-ITS2 trees, with Gonostomum, Cladotricha, Cotterillia, Metagonostomum, Paragonostomum and Wallackia distributed among separate clades, but monophyletic in the LSU-rDNA and concatenated trees;(vi) higher hypotrich taxa such as core urostyloids and core sporadotrichids/stichotrichids might have evolved from species that possessed a gonostomatid oral apparatus.     

Sequence of the Small Subunit Ribosomal RNA Gene from the Hypotrichous Ciliate Euplotes aediculatus1

ABSTRACT. We have determined the complete nucleotide sequence of the coding region of the small subunit rRNA gene of the hypotrichous ciliate Euplotes aediculatus. It is 1882 nucleotides long and contains several inserts not present in the small subunit rRNA genes of the hypotrichs Oxytricha nova and Stylonychia pustulata. A comparison of the sequences suggests that E. aediculatus is much less closely related to these other two hypotrichs than they are to each other. Although the gene sequence of E. aediculatus is drifting more rapidly than those of these other two species, its faster evolutionary clock is not enough to account for the degree of difference between them.     

Relationships between Cell Cycle and Conjugation in 3 Hypotrichs*

SYNOPSIS. Relationships between the cell cycle and the beginning of conjugation were analyzed for 3 hypotrichs: Diophrys scutum, Oxytricha bifaria, and Euplotes crassus. The first 2 species enter conjugation with micronuclei in G₁; the latter species with a micronucleus in G₂. The 1st micronuclear division of conjugating E. crassus is mitotic. Thus meiotic DNA replication occurs when the cells of each species have already entered the mating process. Cells from asynchronous populations start conjugation with their macronuclei primarily in G₁ or more rarely at the beginning of the S stage in a percentage significantly different from that expected on the basis of random mating among all cells in the population. Also, macronuclear replication, when already begun, was blocked in cells undergoing conjugation. Therefore only the G₁ or the very early S stages of the cell cycle are compatible with conjugation in the 3 analyzed species.     

Species of Gonostomum and Paragonostomum (Ciliophora, Hypotrichida, Oxytrichidae) from the Valley of Flowers, India, with descriptions of Gonostomum singhii sp nov, Paragonostomum ghangriai sp nov and Paragonostomum minuta sp nov

Soil samples taken from the Valley of Flowers, a component of the Nanda Devi Biosphere Reserve in the Himalayan regions of India showed the presence of twenty two free living species of ciliates. There is a preponderance of species which exhibit oral ciliature and ontogenesis in the Gonostomum pattern. Of the four species of the genus Gonostomum, three viz., G affine, G gonostomoida and G kuehnelti are similar to described species; Gonostomum singhii is new. The two species of genus Paragonostomum viz., P minuta and P ghangriai are new. The three new species are described in the present paper. All these species show prominent hypertrophied ciliary structures. Their paroral membranes reveal characteristic differences with respect to their position, number of constituent cilia and the distance between adjacent cilia. It is proposed that such species specific features of the paroral membrane have a bearing in exercising different food organism preferences as they co-exist at many sites. This single factor has possibly played an important role in species diversification of this group of hypotrichs in this isolated habitat.     

Fine Structure of Pseudokeronopsis carnea (Ciliophora,Hypotrichida)1

ABSTRACT Two kinds of pigment structures, pigment vacuoles and pigmentocysts, cause the orange-red color of Pseudokeronopsis carnea (Cohn, 1866). The pigment vacuoles are undischargeable and two to five layers of them form a characteristic ectoplasmic zone. The pigmentocysts mainly surround the infraciliature and show a unique channel which is probably used for extrusion. Previous data on the fine structure of subpellicular granules and extrusomes of hypotrich ciliates are summarized. Their obviously diverse organization argues for a great value of these structures in species identification. The basic structural features of the infraciliature and the cytoplasmic organelles of P. carnea are similar to those found in other hypotrichs; however, a special kind of linear microtubular array borders the longer sides of the cirral bases and the margins of the adoral membranelles and those of the membranes in the right buccal area. To the left of the endoral membrane, these microtubular arrays result in a highly ordered structure reminiscent of oral ribs. This peculiar arrangement of microtubules in cirri and paramembranelles has also been found in the related form, Thigmokeronopsis jahodai, probably indicating a homogeneity of the fine structure of urostylid hypotrichs. In P. carnea, the basal bodies of the paroral membrane are proximally connected like a polykinetid. Its cilia are unlinked, whereas those of the endoral membrane are fused by microfibrillar material. The terms diplostichomonad and polystichomonad only refer to quantitative aspects and omit the evident, high diversity of microtubular and microfibrillar associates occurring in the membranes in the right buccal area. These terms need to be redefined on the basis of more material that is better described.     

An Integrative Investigation of Parabistichella variabilis (Protista,Ciliophora, Hypotrichia) Including Its General Morphology,Ultrastructure, Ontogenesis,and Molecular Phylogeny

Hypotrichs are a highly differentiated and very diverse group of ciliated protists. Their systematics and taxonomy are challenging and call for detailed investigations on their general morphology, ultrastructure, ontogenesis, and molecular phylogeny. Here, a comprehensive study is conducted on a brackish water population of Parabistichella variabilis using light and electron microscopy and phylogenetic analyses based on small subunit ribosomal DNA sequence data. Its morphology, including the infraciliature, pellicle, nuclei, buccal seal, and extrusomes, is documented. The present findings indicate that in P. variabilis: (i) the cortical granules are extrusomes, which differ from those of other hypotrichs; (ii) the buccal seal is bounded by the plasma membrane and contains a single layer of longitudinal microtubules; (iii) two contractile vacuoles might be present rather than one; and (iv) the pharyngeal disks are bounded by a single membrane. Early‐to‐middle stages of ontogenesis are described for the first time, enabling the complete characterization of this process. Phylogenetic analyses indicate that Parabistichella variabilis is closely related to several species from different genera, such as Orthoamphisiella breviseries, Uroleptoides magnigranulosus, and Tachysoma pellionellum. However, ultrastructural and gene sequence data for more taxa are needed in order to resolve the systematics of Parabistichella.     

The Behavior and Fine Structure of the Dorsal Bristles of Euplotes minuta,E. aediculatus,and Stylonychia mytilus (Ciliata,Hypotrichida)1

ABSTRACT. Studies of the bristle (dorsal) cilia of Euplotes minuta. E. aediculatus, and Stylonychia mytilus by light and electron microscopy indicate that these cilia do not beat metachronously in any of the species. The bristle cilia in Stylonychia may beat actively, but those in Euplotes stand erect or are bent in different directions with the flow of water. The duration and degree of bending appear correlated with the duration and velocity of the water current. The fine structure of the bristle complex is similar in both Euplotes species and like other reports of Euplotes in the literature. The complex consists of paired kinetosomes, the anterior bearing a short cilium containing four to six rows of fibrous balls (lasiosomes) oriented along the anterior surface of the axoneme, the posterior lacking a cilium but with a small cap. Microtubular ribbons are associated with the paired kinetosomes, and a collar with a pronounced alveolar ring underneath the pellicular membrane tightly surrounds the cilium at the opening of the bristle pit. The bristle complex in S. mytilus differs from that of Euplotes and other hypotrichs in that it has a single kinetosome in interphase cells and, attached to the kinetosome, a prominent fibrous structure (parakinetosomal body). Microtubules are attached to the parakinetosomal body. As in Euplotes, the bristle unit is surrounded by mucocyst-like organelles (ampules). Observations of behavior and fine structure suggest that the dorsal bristles may be sensory, perhaps responding to stimuli from water currents, although other functions are possible, too.     

Molecular Phylogeny and Ontogeny of a New Ciliate Genus,Paracladotricha salina n. g., n. sp. (Ciliophora,Hypotrichia)

A hypotrichous ciliate, Paracladotricha salina n. g., n. sp., was discovered in hypersaline waters (salinity about 80‰) from Qingdao, China. Its morphology and some major ontogenetic stages were studied and the phylogenetic position was estimated using standard methods. Paracladotricha salina is characterized by a flexible, more or less slender body (size 50–120 × 20–35 μm), a gonostomatid oral apparatus, one short and two long frontoventral rows, four macronuclear nodules, almost completely reduced dorsal kineties 1–3, and a loss of several parts of the ciliature, namely, the slightly shortened ciliary row of the adoral membranelles, the paroral, and the buccal, the postoral and pretransverse ventral, the transverse, and the caudal cirri. The ontogenesis is rather simple: anlage II of both filial products and anlage III of the opisthe originate de novo, while anlagen IV and V are formed within the parental rows. This combination of features requires the establishment of a new genus, Paracladotricha, which is, according to the morphological data, closely related to Schmidingerothrix and Cladotricha. The small‐subunit rRNA gene was sequenced, indicating that P. salina is, as also demonstrated by the oral apparatus, a member of the gonostomatids. We provide a first, vague hypothesis about the phylogenetic relationships of the Gonostomatidae, Cladotrichidae, and Schmidingerotrichidae. However, since molecular data of the type species of these higher taxa are lacking, their validity and relationships remain obscure.     

Redefinition of the Urostylidae (Ciliophora,Hypotrichida) on the Basis of Morphogenetic Characters*

SYNOPSIS Examination of stained specimens (protargol and nigrosinbutanol) of hypotrich ciliates during division allows understanding of morphogenesis of buccal structures and cirri. Midventral, frontal, and transverse cirri in both proter and opisthe of Urostyla marina differentiate from a longitudinal series of numerous oblique ciliary streaks in a manner similar to that of Bakuella, Holosticha, Keronopsii. Pseudourostyla, and Uroleptus. This pattern differs markedly from that in Amphisiella, Kahliella, Paraholosticha, and Paraurostyla, in which the fronto-ventral and transverse cirri arise from a series of fewer (2–5) ciliary streaks in a longitudinal or fan-like array. Rows of marginal cirri in U. marina arise independently, as in Urostyla grandis. On the basis of comparisons of both structural and morphogenetic features of this and other hypotrichs, the family Urostylidae is redefined to contain Urostyla (type), Bakuella, Holosticha, Keronopsis, Pseudourostyla, and Uroleptus. Other genera formerly contained in the families Holostichidae and Urostylidae are placed in synonymy, assigned to other families, or held in uncertain familial relationship pending their rediscovery and further investigation.     

Ultrastructure and Cortical Morphogenesis in the Euplotine Hypotrich Certesia quadrinucleata Fabre-Domergue, 1885 (Ciliophora,Protozoa)1

The cortical development during cell division and the interphase ultrastructure of the marine interstitial hypotrich Certesia quadrinucleata is described using light microscopy and both scanning and transmission electron microscopy. Membranelles are paramembranelles; postciliary microtubules from rightmost membranellar kinetosomes line the buccal cavity and separate parallel arrays of pharyngeal discs that border the cytopharynx. A large paroral membrane is present; an endoral membrane is absent. Alveolar plates lie within alveolar membranes except in regions where organelles and organellar complexes (cirri, the condylopallium, dorsal bristles, membranelles, and the paroral membrane) emerge from the cortex. Muciferous-like bodies attach to the plasma membrane in these regions. Dorsal bristles possess transverse and postciliary microtubules as well as kinetodesmal fiber like those of other hypotrichs. Lasiosomes are present. A unique bulbous structure—the condylopallium—protrudes from the anterior right of the cell. The morphogenetic pattern is euplotine in that cortical development begins in one latitudinal zone, and the oral primordium of the opisthe develops within a subsurface pouch apart from the frontal primordia. Microtubular bundles appear beside (later attached to) developing frontal anlagen; they disappear after cirri are in final interphase locations. Although possessing unique characters, Certesia shares a close phylogenetic relationship with Euplotes.     

Morphology,Cell Division,and Phylogeny of Uroleptus longicaudatus (Ciliophora,Hypotricha), a Species of the Uroleptus limnetis Complex

A Chinese population of the little‐known freshwater hypotrich Uroleptus longicaudatus was investigated with emphasis on its living morphology and infraciliature. The characteristic, tripartite body consists of a narrowed (cephalized) anterior portion, a slender trunk, and a long, slender, and strongly contractile tail occupying up to 30% of body length. Contracted specimens with a tail length of about 12% closely resemble Uroleptus limnetis which has, like U. longicaudatus, its type locality on the East Coast of the United States so that it cannot be excluded that these two species are synonymous. Thus, we propose to subsume these and few other little‐known species, which are not clearly distinguishable at the present state of knowledge, as U. limnetis complex. The morphogenesis of U. longicaudatus proceeds as in most congeners. The phylogenetic analyses reveal that Uroleptus is a monophyletic group, but due to the lack of detailed morphological data of the populations sequenced so far, the relationships within this taxon remain obscure. For the objective determination of the tail length of hypotrichs, we propose the “1/3‐method”, which says that the tail commences at that body width which corresponds one‐third of the maximum width. Paruroleptus ophryoglena Gelei, 1954 is transferred to Uroleptus: Uroleptus ophryoglena (Gelei, 1954) comb. nov.     

Morphology and Morphogenesis of Onychodromus quadricornutus n. sp. (Ciliophora,Hypotrichida), an Extraordinarily Large Ciliate with Dorsal Horns1

The morphology and the morphogenesis of the freshwater hypotrich ciliate Onychodromus quadricornutus n. sp. have been investigated using living organisms, protargol impregnation, and scanning electron microscopy. Some preliminary and supplementary results about the morphogenesis of O. grandis and Laurentiella acuminata are included. The new species is unique among all described hypotrichs in having four dorsal horns, whose function is unknown. In addition, O. quadricornutus is probably the most voluminous hypotrich ciliate known (2 times 10^-6-5 times 10⁶μm³). Its morphogenetic pattern resembles the oxytrichids O. grandis and L. acuminata. The strongest apomorphic character, which unites these three species, is probably the multiple fragmentation of the dorsal primordia during morphogenesis. This fragmentation causes the characteristic high number and more or less irregular distribution of the dorsal kineties in the non-dividing individuals.     

Morphology and Morphogenesis of Strobilidium caudatum (Fromentel), Meseres corlissi N. Sp., Halteria grandinella (Müller), and Strombidium rehwaldi N. Sp., and a Proposed Phylogenetic System for Oligotrich Ciliates (Protozoa,Ciliophora)1

ABSTRACT. The morphology and morphogenesis of some oligotrichs were investigated using protargol impregnation, silver carbonate impregnation and scanning electron microscopy. The somatic kineties of Strobilidium caudatum form a spiral at the posterior pole. Strobilidiids without such a spiral are transferred to the genus Rimostrombidium. Fourteen new combinations and a nomen novum, Strobilidium kahli, are necessary, Meseres corlissi n. sp. is characterized by eight somatic kineties composed of long cilia which are not fused to “bristles” as they are in Halteria. Strombidium oblongum shows similar characteristics and is thus combined with Meseres. Strombidium rehwaldi n. sp. has an anterior and an equatorial girdle of extrusomes. The morphogenesis of Meseres and Halteria is very similar, i.e. the entire somatic ciliature and the oral primordium originate apokinetally on the cell surface; the parental somatic ciliature is resorbed. In strobilidiids and tintinnids, the oral anlagen develop in a subsurface pouch and the parental somatic kineties, which are not resorbed, elongate by intrakinetal proliferation of basal bodies. In strombidiids, the oral primordium develops in an intracellular sac or tube. These morphogenetic peculiarities and distinct morphologic characters (e.g. arrangement of adoral membranelles) were applied in constructing a phylogenetic system for oligotrichs using hypotrichs as outgroup. This shows that halteriids are more closely related to hypotrichs than they are to other oligotrichs. The Halteriidae are thus raised to ordinal and subclass ranks, Halteriida n. ord., Halteriia n. subcl.     

Evolution of the Germline Actin Gene in Hypotrichous Ciliates: Multiple Nonscrambled IESs at Extremely Conserved Locations in Two Urostylids

In hypotrichous ciliates, macronuclear chromosomes are gene‐sized, and micronuclear genes contain short, noncoding internal eliminated segments (IESs) as well as macronuclear‐destined segments (MDSs). In the present study, we characterized the complete macronuclear gene and two to three types of micronuclear actin genes of two urostylid species, i.e. Pseudokeronopsis rubra and Uroleptopsis citrina. Our results show that (1) the gain/loss of IES happens frequently in the subclass Hypotrichia (formerly Stichotrichia), and high fragmentation of germline genes does not imply for gene scrambling; and (2) the micronuclear actin gene is scrambled in the order Sporadotrichida but nonscrambled in the orders Urostylida and Stichotrichida, indicating the independent evolution of MIC‐actin gene patterns in different orders of hypotrichs; (3) locations of MDS–IES junctions of micronuclear actin gene in coding regions are conserved among closely related species.     

Multigene‐based phylogeny of Urostylida (Ciliophora,Hypotrichia), with establishment of a novel family

The Urostylida is a major taxon of hypotrichs with many unresolved evolutionary relationships. Due to incomplete or inaccurate character states and a paucity of morphogenetic data, the phylogeny of several taxa within urostylids is unresolved. Molecular phylogeny studies based on single gene (SSU rDNA) data may lead to conflict between morphological classification and SSU rDNA tree. In this work, 20 new sequences (SSU rDNA, ITS1‐5.8S‐ITS2 and LSU rDNA) of five genera of urostylids are provided to further investigate the phylogenetic relationships of this group. The main findings are as follows: (i) the establishment of Hemicycliostylidae, a novel family presently including Hemicycliostyla and Australothrix, is supported by both single gene and concatenated phylogenies; (ii) all molecular data support the exclusion of Eschaneustyla from the family Epiclintidae; (iii) Australothrix, Bergeriella and Thigmokeronopsis are distinctly separated in all gene trees although they share the character that each posterior streak generates the ventral row together with the midventral pair; (iv) compared with closely related genera in all trees, that is Metaurostylopsis and Apourostylopsis, Neourostylopsis is characterized by having more than three frontal cirri arranged in distinct or indistinct corona rather than the length of the midventral complex; (v) Hemicycliostyla and Pseudourostyla, two morphologically similar genera, do not form a monophyletic group in all molecular trees, suggesting that the bicorona, multiple marginal cirral rows and high numbers of dorsal kineties may result from convergent evolution; (vi) species of Bakuella fall into three separate clades in all trees suggesting that this genus needs to be split.     

Reconciling classical and molecular phylogenies in the stichotrichines (Ciliophora, Spirotrichea), including new sequences from some rare species

We performed a comparative morphological and molecular study on oxytrichid and urostylid stichotrichs (=part of the former hypotrichs). Included are new small subunit (18S) ribosomal RNA (rRNA) gene sequences from five rare oxytrichids (Gonostomum namibiense, Cyrtohymena citrina, Hemiurosoma terricola, Onychodromopsis flexilis, Orthoamphisiella breviseries) and published sequences, based on cultures provided by the senior author, of two key stichotrichid genera, viz., Gastrostyla and Engelmanniella. These and other sequences, altogether 27 species representing 23 genera, were used to analyze how 18S rRNA-based phylogenetic trees can be reconciled with the morphological and ontogenetical data. In 18S rRNA trees, the oligotrichine family Halteriidae invariably clusters within the oxytrichid clade, usually near Oxytricha granulifera, type species of the genus. This position is hardly supported by morphological and ecological evidence and, especially, it contradicts the current ontogenetic findings; possibly, it is an artifact caused by taxa undersampling and/or special molecular evolutionary events. In contrast, most morphological and DNA sequence data of the stichotrichs can be harmonized with the CEUU (Convergent Evolution of Urostylids and Uroleptids) hypothesis which suggests that the urostylid midventral pattern evolved from an oxytrichine ancestor, developing a second time within the Oxytrichidae. The systematic position of one of the two key genera could be clarified with the 18S rRNA sequences: Gastrostyla is a stylonychine oxytrichid. Based on the molecular data and a reassessment of ontogenesis, a new genus, Styxophrya nov. gen., is established for Onychodromus quadricornutus Foissner, Schlegel & Prescott, 1987.     

Redefinition of the Genera Diophrys and Paradiophrys and Establishment of the Genus Diophryopsis N. G. (Ciliophora, Hypotrichida): Implication for the Species Problem

ABSTRACT. Species belonging to the genus Diophrys Dujardin, 1841, are easily recognized due to possession of the usual complement of approximately seven frontoventral cirri, five transverse cirri, two left marginal cirri, and three large caudal cirri. Separation of these species has been based upon differences in cell length and width, the number and arrangement of cilia in dorsal kinetics, the configuration of the adoral zone of oral polykinetids, the number and distribution of cirri within cirral groups, and the number and arrangement of macronuclei. Jankowski used some of these characteristics to divide the genus into two genera, Diophrys and Paradiophrys, with several subgenera [Jankowski, A. W. 1978. Systematic revision of the class Polyhymenophora (Spirotricha), morphology, systematics and evolution. Tezisy Dokl. Zool. Inst. Akad. Nauk SSSR, 197839-40. (in Russian); Jankowski, A. W. 1979. Systematics and phylogeny of the order Hypotrichida Stein, 1859 (Protozoa, Ciliophora). Trudy. Zool. Inst. Akad. Nauk SSSR, 86 :48–85. (in Russian with English summary)]. Data obtained from light microscopic examination of stained (nigrosin-butanol, Chatton-Lwoff, and Protargol) cells in interphase or division supports and modifies the use of particular structural features of these ciliates for the purpose of taxonomic classification. The structural variability within and among populations of different species within the genera Diophrys (D. appendiculata, D. oligothrix, and D. scutum) and Paradiophrys (P. irmgard and P. multinucleata) is described. D. hystrix is redescribed as the type of the new genus Diophryopsis n. g. Comparative information on the cortical morphogenesis of division of selected species within each genus is reviewed. Two taxonomic classifications of these hypotrichs are discussed: 1) a listing of diagnoses and synonymies and 2) a binary key for identification of all species at the light microscope level. An alternative evolutionary explanation of variations among isolates is presented.