Organization, polymorphism, and expression of the human T-cell receptor AV1 subfamily

 At least 32 mostly single-member subfamilies of T-cell receptor alpha variable (TCRAV) genes have been described in humans. The AV1 subfamily is the largest, estimated by hybridization to contain as many as five members. However, a search of nucleotide sequence databases reveals a much greater number of unique sequences corresponding to this subfamily. In order to resolve this discrepancy between hybridization and nucleotide sequencing data, and to better understand the nature of variability among variable genes within a large subfamily, a genomic characterization of the AV1 subfamily in humans was carried out. Total genomic DNA, as well as isolated genomic clones spanning the TCRA region were screened for members of the AV1 subfamily by polymerase chain reaction (PCR) and nucleotide sequencing as well as by hybridization. A total of eight AV1 genes were identified and their nucleotide sequences were determined. Three of the sequences represent new genes. Based on structural features and the results of PCR screening of cDNA, none of these new genes appear to be functional. Several additional previously reported AV1 sequences were determined to represent alleles of AV1 genes, and simple PCR restriction digest assays were established for their detection. Use of each of the identified AV1 genes as hybridization probes failed to reveal any additional hybridizing bands. Thus the AV1genes represent the largest TCRAV subfamily with a maximum of eight members, several of which have common allelic forms. Received: 7 November 1996 / Revised: 5 December 1996     

Diagnosis of Dysponetinae (Chrysopetalidae,Annelida)

The subfamily Dysponetinae (Annelida, Chrysopetalidae) was proposed by Aguado et al. (Cladistics 29, 610) based on a phylogenetic analysis including morphological and molecular information. However, as a differential diagnosis of the new subfamily, as required by the International Code of Zoological Nomenclature, was not included, the name was not made available. A diagnosis of the subfamily is proposed herein to correct this oversight.     

Anisoloboides joliveti n. g., n. sp. (Apicomplexa,Eugregarina, Gregarinidae), parasite of Brachyomus histrio Faust (Coleoptera,Curculionidae), with remarks on the other gregarines from the Curculionidae

The creation of a new genus of Eugregarina, Anisoloboides n. g., is proposed to accommodate the gregarines from the Curculionidae (Coleoptera) belonging to the subfamily Brachycerinae and the tribe Entimini and formerly described as Anisolobus (A. bulliardi, A. gymnopholi, A. desportis). A fourth species, A. joliveti n. sp. is described from another curculionid, Brachyomus histrio Faust, from Venezuela, and a list is presented of the other gregarines (Gregarina, Hirmocystis, Steinina) recorded from the Curculionidae.     

New representatives of the genus Ancorabolina George, 2006 (Copepoda,Harpacticoida, Ancorabolidae) including remarks on ancorabolid phylogeny

Four new species of Ancorabolina George, 2006 (Copepoda: Harpacticoida: Ancorabolidae) are described: Ancorabolina belgicae sp. nov. (from the Porcupine Seabight, north‐east Atlantic Ocean), Ancorabolina anaximenesi sp. nov. and Ancorabolina galeata sp. nov. (both from Anaximenes Mountain, eastern Mediterranean Sea), and Ancorabolina divasecunda sp. nov. (from Cape and Guinea Basins, south‐east Atlantic Ocean). Furthermore, the generic diagnosis for Ancorabolina is provided and the position of the taxon within Ancorabolidae is discussed. The characters originally employed to allocate Ancorabolina to the subfamily Ancorabolinae Sars, 1909, are critically evaluated and two true autapomorphies for a monophyletic Ancorabolinae (including Ancorabolina) are recognized. Two autapomorphies supporting Ancorabolina are proposed: (1) cephalothorax posteriorly with pair of ventrolateral cuticular processes turned backwards and (2) loss of the third setal element subapically on the antennary endopod. The urgent need for a phylogenetic re‐evaluation of the paraphyletic subfamily Laophontodinae Lang, 1944 is stressed and evidenced by three characters widespread in this subfamily but also present in Ancorabolina. This may be an indication of a closer relationship of Ancorabolina with certain members of Laophontodinae. © 2010 The Linnean Society of London, Zoological Journal of the Linnean Society, 2010, 158 , 16–55.     

<Emphasis Type="Italic">Germin-like protein</Emphasis> gene family of a moss, <Emphasis Type="Italic">Physcomitrella patens</Emphasis>, phylogenetically falls into two characteristic new clades

We identified 77 EST clones encoding germin-like proteins (GLPs) from a moss, Physcomitrella patens in a database search. These Physcomitrella GLPs (PpGLPs) were separated into seven groups based on DNA sequence homology. Phylogenetic analysis showed that these groups were divided into two novel clades clearly distinguishable from higher plant germins and GLPs, named bryophyte subfamilies 1 and 2. PpGLPs belonging to bryophyte subfamilies 1 lacked two cysteines at the conserved positions observed in higher plant germins or GLPs. PpGLPs belonging to bryophyte subfamily 2 contained two cysteines as observed in higher plant germins and GLPs. In bryophyte subfamily 1, 12 amino acids, in which one of two cysteines is included, were deleted between boxes A and B. Further, we determined the genomic structure of all of seven PpGLP genes. The sequences of PpGLPs of bryophyte subfamily 1 contained one or two introns, whereas those of bryophyte subfamily 2 contained no introns. Other GLPs from bryophytes, a liverwort GLP from Marchantia polymorpha, and two moss GLPs from Barbula unguiculata and Ceratodon purpureus also fell into bryophyte subfamily 1 and bryophyte subfamily 2, respectively. No higher plant germins and GLPs were grouped into the bryophyte subfamilies 1 and 2 by our analysis. Moreover, we revealed that PpGLP6 had manganese-containing extracellular superoxide dismutase activity. These results indicated that bryophyte possess characteristic GLPs, which phylogenetically are clearly distinguishable from higher plant GLPs.     

Improved tribal delimitation of the subfamily Dictyopharinae and description of new genera and new species (Homoptera,Fulgoroidea, Dictyopharidae)

Ten new genera, five new subgenera, and five new species are described in the family Dictyopharidae. Three generic names are synonymized. A new name is proposed for the generic homonym. Dictyophara kazeruna Dlabola is transferred to the genus Callodictya Melichar. The genus Sinodictya Matsumura, with the type species Sinodictya tukana Matsumura, is redescribed. A new key to the tribes of the subfamily Dictyopharinae is given. The composition and characters of the tribes Taosini and Lappidini are revised. All the genera of the subfamily Dictyopharinae are listed according to their tribal position. New records are given for some interesting species.     

Larval morphology and phylogenetic position of Horelophopsis hanseni Satô et Yoshitomi (Coleoptera,Hydrophilidae, Horelophopsinae)

The subfamily Horelophopsinae was originally proposed as one of the earliest diverging clades of Hydrophilidae (s.s.), but its phylogenetic placement has never been tested. We describe the larva of Horelophopsis hanseni Satô et Yoshitomi, 2004 of the Horelophopsinae. Larval data are based on larval specimens collected together with adults, and unambiguously associated with them by means of DNA barcoding. We perform an analysis testing the phylogenetic position of H. hanseni based on larval and adult morphological characters. Horelophopsis hanseni is unambiguously placed within the hydrophilid subfamily Hydrophilinae and its close relationships to the genus Agraphydrus Régimbart, 1903 (Hydrophilinae, Acidocerini) is recognized. The results suggest that the subfamily Horelophopsinae is unlikely to be a basal taxon of Hydrophilidae, as originally suggested.     

Loxocaudinae: A new subfamily in the ostracod family loxoconchidae

A new Ostracoda subfamily, Loxocaudinae subfam. nov., separated from the subfamily Loxoconchinae of the family Loxoconchidae with five genera (Loxocauda Schornikov, 1969, Glacioloxoconcha Hartmann, 1990, Phlyctocythere Keij, 1958, Pseudoloxoconcha Müller, 1894 and Sarmatina Stancheva, 1984) is described in the paper. The new subfamily differs from Loxoconchinae Sars, 1926 s. str. by the presence of a compact eye, the absence of an eye tubercle, an originally adont hinge with a tendency to formation of an anterior tooth on the left valve and a posterior one on the right valve, a pronounced caudal process and reduction of fossa-mural sculpture. The volume of the genera that are included in the subfamily is determined. A review of 55 various species and forms mentioned in the literature in open nomenclature, whose taxonomic position has not been determined yet is presented. A total of 45 species close to Loxocauda are attributed to the new subfamily, but proper morphological investigations are necessary for their classification. Ten species that were referred earlier to the genera included in Loxocaudinae are excluded from this subfamily. Issues of functional morphology of Loxocaudinae shells and morphological evolution of their sculpture are considered.     

Hemibranchiate sphaeromatids (Crustacea: Isopoda) from Queensland, Australia, with a world-wide review of the genera discussed

All known Queensland species of the isopod family Sphaeromatidae, subfamily Sphaeromatinae (= hemibranchs), are discussed. The following new taxa are erected: Calcipila cornuta, gen. nov., sp. nov. ; Cymodoce tribullis, sp. nov. ; Cymodoce bipapilla, sp. nov. ; Paracilicaea aspera, sp. nov. ; Cilicaeopsis glebosa, sp. nov. ; Cilicaeopsis furculata, sp. nov. ; Cilicaea calcarifera, sp. nov. ; Zuzara curtispina, sp. nov. ; Zuzara digitata, sp. nov. ; and Clianella brucei, sp. nov. Exosphaeroma intermedium Baker is transferred to the genus Sphaeroma Latreille. The genus Dynoides Barnard is reviewed and its current synonymy is contested. With several new records, this brings the total number of sphaeromatid species known from Queensland to 49, 24 of which are in the subfamily Sphaeromatinae. A checklist of all sphaeromatid species occurring in Queensland waters is given. From the rest of Australia: Cymodoce tuberculata Haswell is given the replacement name Cymodoce haswelli, nom. nov. ; Cymodoce granulata Miers is made a junior synonym of Cerceis trispinosa (Haswell) (subfamily Dynameninae); Zuzara diadema Leach, Z. dicantha (Milne Edwards) and Z. Integra Haswell are made junior synonyms of Z. semipunctata Leach; Cilicaeopsis dakini Tattersall is tentatively transferred to the genus Paracilicaea Stebbing. The genera discussed are reviewed world-wide and among the non-Australian species: Exosphaeroma papillae Bayliff is transferred to the genus Sphaeroma; Sphaeroma irakiensis Ahmed is made a junior synonym of Sphaeroma annandalei annandalei Stebbing; Cymodoce richardsoniae Nobili is shown to be distinct from Cymodoce truncata Leach; Cymodoce eupyga Nobili is transferred to the genus Paracilicaea; Dynoides amblysinus Pillai, Dynoides castroi Loyola e Silva and Exosphaeroma globicaudum (Dana) are transferred to the genus Clianella Boone; Dynoides brasiliensis (Loyola e Silva; and Sphaeroma savignn Milne Edwards sensu Dana, 1853 are declared to be conspecific with Clianella castroi. The name Sorrentosphaera Verhoeff is made a junior synonym of Dynamene Leach (subfamily Dynameninae.     

A Review of the Genera Croconema Cobb, 1920 and Pseudochromadora Daday, 1899 (Nematoda, Desmodoroidea): New Species from the Coasts of Kenya and Australia

This article is a review of the subfamily Desmodorinae (Nematoda, Desmodoroidea) and two related genera within this subfamily, Croconema Cobb, 1920 and Pseudochromadora Daday, 1899 with keys to genus or species level, genus diagnoses and lists of valid species. An emended diagnosis of, and discussion on, Sibayinema Swart & Heyns, 1991, is presented. Three new species are described: Croconema floriani sp.n. from the coast of Kenya, Pseudochromadora galeata sp.n. and P. securis sp.n. from the coast of Australia.     

Oxfordian perisphinctid ammonites from Chacay Melehué, Argentina

A significant assemblage of Oxfordian perisphinctids was collected at Chacay Melehué, Neuquén, Argentina. It is composed of well preserved specimens belonging to the family Perisphinctidae:Perisphinctes aff.promiscuus Bukowski (Perisphinctinae),Tenuisphinctes herreroduclouxi (Leanza) (Perisphinctinae), andSubvinalesphinctes pseudokranaus n. sp. andS. prophetae (Gygi & Hillebrandt) (Vinalesphinctinae). The family Ataxioceratidae is represented byLithacosphinctes aff. janus (Choffat) (Ataxioceratinae). The subfamily VinalesphinctinaeMeléndez & Myczynski, 1987 is discussed and organized into three genera:Subvinalesphinctes Wierzbowski,Vinalesphinctes Spath andCubasphinctes Judoley & Furrazola, which seems to cover the whole of the subfamily, ranging, at least, from the lowerplicatilis to the lowerbifurcatus zones, Middle Oxfordian in Cuba, part of Mexico, Chile and Argentina. The root of the subfamily is most likelyS. pseudokranaus n. sp. The paleobiogeographic affinites are mainly Tethyan, and Tethyan-Caribbean during the Middle Oxfordian.     

Molecular Support for the Placement of Saiga and Procapra in Antilopinae (Artiodactyla, Bovidae)

The evolutionary history of the bovid subfamily Antilopinae is unclear. Traditionally, this subfamily is subdivided into two tribes: Neotragini (dwarf antelopes) and Antilopini (gazelles and their relatives). Here, we report new sequences for the 12S and 16S rRNA genes in the enigmatic antilopine taxa Procapra gutturosa and Saiga tatarica and analyze the phylogenetic relationships of these taxa relative to other antilopines. Our study demonstrates the close affinity of the saiga antelope to Gazella despite the conventional systematic allocation of Saiga to the Caprinae subfamily. The second member of the Saigini tribe, Pantholops hodgsoni (Tibetan gazelle), falls within Caprinae. In all of our analyses, Procapra gutturosa occupied a basal position in the Antilopinae clade or was a sister-group to the dwarf antelope Madoqua. This suggests early separation of Procapra from other antelopes.     

The Lepocreadiidae (Digenea) of fishes from the north-east Atlantic: Profundivermis intercalarius n. g., n. sp. from the marine fish Coryphaenoides (Nematonurus) armatus (Hector) (Macrouridae) from the Porcupine Abyssal Plain

A new genus and species, Profundivermis intercalarius, is described from the deep-sea fish Coryphaenoides (Nematonurus) armatus from 4,850 m deep on the Porcupine Abyssal Plain, NE Atlantic. The genus is characterized by an inter-testicular ovary and is the only member of the subfamily Lepidapedinae to show this feature. The relationships of the members of the subfamily are analysed phylogenetically. Members of the subfamily are often found in deep-sea gadiforms.     

A STUDY ON THE GENUS DONACIOLAGRIA PIC (COLEOPTERA: LA-GRIIDAE) FROM CHINA*

Abstract The genus Donaciolagria Pic is transferred from the subfamily Lagriinae to the subfamily Statirinae. The species Donaciolagria femoralis (brchmann) is redescribed. Two new species, D. viridimetallica sp. nov. and D. flavitibialis sp. nov. are described. A key to Chinese species of the genus is given. With 22 original pictures.     

Phylogenetic analysis of the subfamily Alpinioideae (Zingiberaceae), particularly Etlingera Giseke, based on nuclear and plastid DNA

Parsimony analyses based on DNA sequence data of the plastid group II intron rps16 and the internal transcribed spacer (ITS) were performed in order to examine the relationship of the pantropical subfamily Alpinioideae in Zingiberaceae (Zingiberales). Special emphasis was given to the large genus Etlingera placed in the tribe Alpinieae. A total of 50 taxa were included in the analysis. The strict consensus tree obtained by combining all data (280 parsimony informative characters of ITS, rps16, and coded indels) is well resolved with strongly supported clades. The subfamily Alpinioideae (excluding Pommereschea and Rhynchanthus) is strongly supported as monophyletic. The basal part of the tree is unresolved but a clade containing the derived genera of Alpinieae (Geocharis, Amomum, Hornstedtia, and Etlingera) is strongly supported. The establishment of Etlingera as the inclusive name for Achasma, Geanthus, and Nicolaia is also strongly supported: Etlingera is monophyletic with Hornstedtia as sister group.     

A New Species of Chelipoda Macquart,with a Key to the Species from China (Diptera: Empididae)

Chelipoda nigraristata sp. n., a new aquatic dance fly of the subfamily Hemerodromiinae (Diptera, Empididae) is described from China. Relationships with other described species are discussed. A key to the species of the genus Chelipoda from China is presented for the first time.     

Characterization of the calmodulin gene family in wheat: structure, chromosomal location, and evolutionary aspects

Calmodulin is a ubiquitous transducer of calcium signals in eukaryotes. In diploid plant species, several isoforms of calmodulin have been described. Here, we report on the isolation and characterization of calmodulin cDNAs corresponding to 10 genes from hexaploid (bread) wheat (Triticum aestivum). These genes encode three distinct calmodulin isoforms; one isoform is novel in that it lacks a conserved calcium binding site. Based on their nucleotide sequences, the 10 cDNAs were classified into four subfamilies. Using subfamily-specific DNA probes, calmodulin genes were identified and the chromosomal location of each subfamily was determined by Southern analysis of selected aneuploid lines. The data suggest that hexaploid wheat possesses at least 13 calmodulin-related genes. Subfamilies 1 and 2 were both localized to the short arms of homoeologous-group 3 chromosomes; subfamily 2 is located on all three homoeologous short arms (3AS, 3BS and 3DS), whereas subfamily 1 is located only on 3AS and 3BS but not on 3DS. Further analysis revealed thatAegilops tauschii, the presumed diploid donor of the D-genome of hexaploid wheat, lacks a subfamily-1 calmodulin gene homologue, whereas diploid species related to the progenitors of the A and B genomes do contain such genes. Subfamily 3 was localized to the short arm of homoeologous chromosomes 2A, 2B and 2D, and subfamily 4 was mapped to the proximal regions of 4AS, 4BL and 4DL. These findings suggest that the calmodulin genes within each subfamily in hexaploid wheat represent homoeoallelic loci. Furthermore, they also suggest that calmodulin genes diversified into subfamilies before speciation ofTriticum andAegilops diploid species.