Morphological and molecular characterisation of new and known species of Tripyla Bastian, 1865 (Triplonchida: Tripylidae) from northern Iran, with phylogenetic relationships, compendium and identification key

Nematology ◽  
2017 ◽  
Vol 19 (1) ◽  
pp. 21-56 ◽  
Author(s):  
Ramezan Asghari ◽  
Ali Eskandari ◽  
Zahra Tanha Maafi ◽  
Sergio Álvarez-Ortega ◽  
Zeng Qi Zhao
Keyword(s):  
Body Length ◽  
Common Ancestor ◽  
New Records ◽  
Phylogenetic Analyses ◽  
Vaginal Wall ◽  
Recent Common Ancestor ◽  
28S Rrna ◽  
Northern Iran ◽  
Long Tail ◽  
The Family

During a nematological survey of the family Tripylidae, two new and two known species of the genusTripyla, namelyT. paraffinissp. n.,T. parafilicaudatasp. n.,T. glomeransandT. setifera, were identified and described from soil samples collected from the rhizosphere of forest trees in northern Iran. Three populations ofT. paraffinissp. n., found in different locations, are described and morphometric data of the type and other populations provided.Tripyla paraffinissp. n. is characterised by its body length of 1.21-1.89 mm, dorsal tooth wedge-shaped and triangular, short outer labial and cephalic sensilla, tail bent ventrad and gradually tapering to the end, horn-shaped spicules bearing a distinct constriction in the middle, and presence of 16-20 ventromedian supplementary papillae.Tripyla parafilicaudatasp. n. is described and illustrated from four different locations. It is characterised by females with a body length of 1.48-1.95 mm, dorsal tooth hook-shaped, vaginal wall with a downward pointing tooth-like projection in the middle, long outer labial and setiform cephalic sensilla, long tail, sausage-shaped spermatozoa, males with horn-shaped spicules and 11-17 ventromedian supplementary papillae.Tripyla glomeransandT. setiferaare new records for the Iranian nematofauna. The results of phylogenetic analyses based on sequences of the partial 18S and D2-D3 expansion segments of 28S rRNA fromT. paraffinissp. n. andT. parafilicaudatasp. n. and other species in the genus clearly support the proposal ofT. paraffinissp. n. andT. parafilicaudatasp. n. as new species, as well as indicating thatTripylashares a more recent common ancestor withTobrilus,Tripylella,Prismatolaimus,Diphtherophoraand two trichodorids,TrichodorusandParatrichodorus. The Tripylidae is placed in a main clade within the Triplonchida.

scholarly journals Phylogenetic Relationships Within the Family Potyviridae: Wheat Streak Mosaic Virus and Brome Streak Mosaic Virus Are Not Members of the Genus Rymovirus

1998 ◽  
Vol 88 (8) ◽  
pp. 782-787 ◽  
Author(s):  
Drake C. Stenger ◽  
Jeffrey S. Hall ◽  
Il-Ryong Choi ◽  
Roy French
Keyword(s):  
Mosaic Virus ◽  
Type Species ◽  
Common Ancestor ◽  
Phylogenetic Analyses ◽  
Wheat Streak Mosaic Virus ◽  
Recent Common Ancestor ◽  
Amino Acid Residues ◽  
Most Recent Common Ancestor ◽  
The Family ◽  
Eriophyid Mites

The complete nucleotide sequence of wheat streak mosaic virus (WSMV) has been determined based on complementary DNA clones derived from the 9,384-nucleotide (nt) RNA of the virus. The genome of WSMV has a 130-nt 5′ leader and 149-nt 3′-untranslated region and is polyadenylated at the 3′ end. WSMV RNA encodes a single polyprotein of 3,035 amino acid residues and has a deduced genome organization typical for a member of the family Potyviridae (5′-P1/HC-Pro/P3/6K1/CI/6K2/VPg-NIa/NIb/CP-3′). Because WSMV shares with ryegrass mosaic virus (RGMV) the biological property of transmission by eriophyid mites, WSMV has been assigned to the genus Rymovirus, of which RGMV is the type species. Phylogenetic analyses were conducted with complete polyprotein or NIb protein sequences of 11 members of the family Potyviridae, including viruses of monocots or dicots and viruses transmitted by aphids, whiteflies, and mites. WSMV and the monocot-infecting, mite-transmitted brome streak mosaic virus (BrSMV) are sister taxa and share a most recent common ancestor with the whitefly-transmitted sweet potato mild mottle virus, the type species of the proposed genus “Ipomovirus.” In contrast, RGMV shares a most recent common ancestor with aphid-transmitted species of the genus Potyvirus. These results indicate that WSMV and BrSMV should be classified within a new genus of the family Potyviridae and should not be considered species of the genus Rymovirus.

scholarly journals Tadpole types of Chinese megophryid frogs (Anura: Megophryidae) and implications for larval evolution

2011 ◽  
Vol 57 (1) ◽  
pp. 93-100 ◽  
Author(s):  
Cheng Li ◽  
Xian-Guang Guo ◽  
Yue-Zhao Wang
Keyword(s):  
Common Ancestor ◽  
Historical Change ◽  
Recent Common Ancestor ◽  
Type B ◽  
Oral Disc ◽  
Most Recent Common Ancestor ◽  
Mitochondrial Cytochrome B ◽  
The Family ◽  
Type C ◽  
Body Shapes

Abstract The larval body shapes and oral discs of 30 frog species from the family Megophryidae from China were examined. Using a phylogenetic framework derived from a Bayesian analysis of published mitochondrial cytochrome b and 16S rRNA gene sequences, we deduced a pattern of historical change among megophryid larval forms. These larvae were categorized into four types according to their body shapes and oral discs: (A) Leptobrachiini type, (B) Lalax type, (C) Brachytarsophrys type, and (D) Megophryini type, of which B and C are novel types. Type A is characterized by a typical oral disc with multiple rows of teeth, representing the tadpole type of the most recent common ancestor of the family Megophryidae. Type B has a typical oral disc with reduced tooth rows, an elongated labium, and integumentary glands. Type C has no labial teeth and a smaller umbelliform oral disc. Type D is characterized by a lack of labial teeth, an enlarged umbelliform oral disc, representing the tadpole of the most recent common ancestor of the subfamily Megophryinae. Our analysis supports the hypothesis that the umbelliform oral disc is apomorphic and also reveals the close association between morphology and microhabitat.

Rotylenchus castilloi n. sp. (Nematoda: Hoplolaimidae), a new species with long stylet from northern Iran

Zootaxa ◽  
2015 ◽  
Vol 3931 (1) ◽  
pp. 88 ◽  
Author(s):  
ATEFEH TALEZARI ◽  
EBRAHIM POURJAM ◽  
AHMAD KHEIRI ◽  
GRACIA LIÉBANAS ◽  
FARZAD ALIRAMAJI ◽  
...  
Keyword(s):  
New Species ◽  
Body Length ◽  
Phylogenetic Analyses ◽  
Molecular Data ◽  
Rrna Genes ◽  
Bisexual Species ◽  
Northern Iran ◽  
Stylet Length ◽  
A New Species ◽  
Specific Sequences

Rotylenchus castilloi n. sp., a new bisexual species is described and illustrated based on morphological, morphometric and molecular data. The new species is characterised by having a hemispherical, continuous lip region with an irregular corncob-like appearance under SEM, very long stylet (62–68 µm), vulva located at 49.7–62.2% of body length from anterior end, with a protruding double epiptygma, a rounded to convex-conoid (rarely bi-lobed) tail with 8–12 annuli and specific sequences of D2-D3 segments of 28S and ITS1-rRNA genes. Differences between the new species and four other species of the genus (R. mesorobustus, R. cazorlaensis, R. magnus and R. jaeni) are discussed. Morphologically, the new species can be separated from these species mostly by its body length, lip region characters, stylet length and location of phasmid. Phylogenetic analyses using 721 bp partial sequences of D2-D3 expansion segments of the 28S and 590 bp ITS1-rRNA genes revealed the new species forming a clade with two isolates of R. eximius and two isolates of R. unisexus, two morphologically unrelated species. 

scholarly journals A novel haplotype of ‘Candidatus Liberibacter solanacearum’ found in Apiaceae and Polygonaceae family plants

2019 ◽  
Vol 156 (2) ◽  
pp. 413-423 ◽  
Author(s):  
Minna Haapalainen ◽  
Satu Latvala ◽  
Annika Wickström ◽  
Jinhui Wang ◽  
Minna Pirhonen ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Sequence Analysis ◽  
Common Ancestor ◽  
Phylogenetic Analyses ◽  
Northern Europe ◽  
Wild Buckwheat ◽  
The Family ◽  
Candidatus Liberibacter ◽  
Sequence Types ◽  
Eastern Finland

AbstractA previously unknown haplotype of the plant pathogen ‘Candidatus Liberibacter solanacearum’ (Lso) was found in cultivated carrots and parsnips in eastern Finland. That same haplotype was found in western Finland, over 300 km away, in the family Polygonaceae, the species Fallopia convolvulus (wild buckwheat) and Persicaria lapathifolia (pale persicaria) growing as weeds within carrot and parsnip fields. The infected plants, both apiaceous and polygonaceous, showed symptoms of foliar discolouration. This is the first report of Lso bacteria in plants of the family Polygonaceae. The finding that the polygonaceous plants infected with a previously unknown haplotype of Lso were growing among the apiaceous plants infected with Lso haplotype C suggests that these two haplotypes might be transmitted by different vectors. Phylogenetic analyses showed that the new haplotype, called haplotype H, is distinct from the previously characterized haplotypes and appears to have diverged early from their common ancestor. Multi-locus sequence analysis revealed four different sequence types (strains) within the haplotype H. These findings suggest that the haplotype H is likely to be endemic in northern Europe and that the genetic diversity within the Lso species is higher than previously assumed.

The first troglobitic species of Gymnobisiidae (Pseudoscorpiones : Neobisioidea), from Table Mountain (Western Cape Province, South Africa) and its phylogenetic position

2016 ◽  
Vol 30 (1) ◽  
pp. 75 ◽  
Author(s):  
Mark S. Harvey ◽  
Joel A. Huey ◽  
Mia J. Hillyer ◽  
Erin McIntyre ◽  
Gonzalo Giribet
Keyword(s):  
South Africa ◽  
Phylogenetic Analyses ◽  
Mitochondrial Protein ◽  
Strong Support ◽  
Phylogenetic Position ◽  
28S Rrna ◽  
Cave System ◽  
Table Mountain ◽  
The Family ◽  
Afrotropical Region

Fully troglobitic pseudoscorpions are rare in the Afrotropical Region, and we explored the identity and phylogenetic relationships of specimens of a highly modified troglobite of the family Gymnobisiidae in the dark zone of the Wynberg Cave system, on Table Mountain, South Africa. This large pseudoscorpion – described as Gymnobisium inukshuk Harvey & Giribet, sp. nov. – lacks eyes and has extremely long appendages, and has been found together with other troglobitic fauna endemic only to this cave system. Phylogenetic analyses using the nuclear ribosomal genes 18S rRNA and 28S rRNA and the mitochondrial protein-encoding gene cytochrome c oxidase subunit I unambiguously place the new species with other surface Gymnobisium from South Africa. This placement receives strong support and is stable to analytical treatments, including static and dynamic homology, parsimony and maximum likelihood, and data removal for ambiguously aligned sites. This species is the first troglobitic species of the family and one of the most highly modified pseudoscorpions from the Afrotropical Region. http://zoobank.org/urn:lsid:zoobank.org:pub:5227092B-A64B-4DB3-AD90-F474F0BA6AED

An opisthorchiid concept of the genus Liliatrema (Trematoda: Plagiorchiida: Opisthorchioidea): an unexpected systematic position

2020 ◽  
Author(s):  
Sergey Sokolov ◽  
Evgeniy Frolov ◽  
Semen Novokreshchennykh ◽  
Dmitry Atopkin
Keyword(s):  
Phylogenetic Analyses ◽  
Sister Group ◽  
Systematic Position ◽  
Phylogenetic Position ◽  
Rrna Gene ◽  
28S Rrna ◽  
The Family ◽  
Using Data ◽  
Terminal Genitalia ◽  
Rdna Analysis

Abstract Liliatrema is a small genus of trematodes consisting of two species. Its systematic position has long been debated, partly because of the confusing reports about the structure of male terminal genitalia. Here we test the phylogenetic position of the genus Liliatrema using data on complete 18S rRNA and partial 28S rRNA gene sequences obtained for Liliatrema skrjabini. We also provide a detailed description of terminal genitalia in adult specimens of L. sobolevi and metacercariae of both Liliatrema species. The results of the 28S rDNA-based phylogenetic analysis indicate that Liliatrema falls within a well-supported clade, which also includes Apophallus and traditional opisthorchiids. This clade, in turn, is nested within a well-supported clade, containing Euryhelmis, Cryptocotyle and Scaphanocephalus. In the 18S+8S rDNA analysis, Liliatrema appears as a sister-taxon to the Cryptocotyle + Euryhelmis group. The Liliatrema + (Cryptocotyle + Euryhelmis) clade is a well-supported sister-group to the traditional opisthorchiids. The morphology of the terminal genitalia of the liliatrematids also corresponds to that of the opisthorchioids. Thus, the results of our morphological and phylogenetic analyses favour an unexpected conclusion that the genus Liliatrema belongs to the Opisthorchioidea. We propose that the genera Liliatrema, Apophallus, Euryhelmis, Cryptocotyle and Scaphanocephalus belong, respectively, within the subfamilies Liliatrematinae, Apophallinae, Euryhelminthinae and Cryptocotylinae of the family Opisthorchiidae.

Data on some members of the family Tylenchidae (Nematoda: Tylenchina) from Iran

Biologia ◽  
2015 ◽  
Vol 70 (10) ◽  
Author(s):  
Yousef Panahandeh ◽  
Ebrahim Pourjam ◽  
Farzad Aliramaji ◽  
Majid Pedram
Keyword(s):  
Body Length ◽  
Phylogenetic Analyses ◽  
Tail Length ◽  
Iranian Population ◽  
Lateral Field ◽  
Rdna Sequences ◽  
The Family ◽  
Molecular Phylogenetic ◽  
28S Rdna Sequences ◽  
Stylet Length

AbstractThree species belonging to the family Tylenchidae, Malenchus nanellus, M. undulatus and Tylenchus naranensis, are reported for the first time for Iran. These species are characterized based on morphological and morphometric data. The Iranian population of M. nanellus is characterized by its body length ranging from 410-485 μm, cuticle annuli 1.1- 1.5 μm wide at mid-body and lateral field with two crenate lines, starting at the mid-region of procorpus and ending near 1/3 of tail length. The population of M. undulatus is characterized by its 458-526 μm body length, cuticle coarsely annulated, annuli 1.8-2.4 μm wide at mid-body, lateral field with crenate incisures, beginning at about half of the stylet length, ending at middle of tail, head narrower than adjacent body, median bulb well developed with prominent valve plates and functional males in population. Iranian population of T. naranensis, is characterized by having a 631-774 μm body length, lateral field with four lines, outer lines crenate, a stylet length ranging from 10-11 μm and a tail of 102-131 μm long. Molecular phylogenetic analyses based on partial 28S rDNA sequences of T. naranensis revealed its close affinity with the genus Filenchus. Other Tylenchidae genera, such as Aglenchus (including the newly sequenced isolate from Iran) and Coslenchus were sister taxa and formed a well-supported clade. Malenchus exiguus, a previously reported species from Iran and sequenced in the present study, formed a monophyletic clade with other species of Malenchus and Lelenchus leptosoma.

scholarly journals Origin and evolution of papillomavirus (onco)genes and genomes

2019 ◽  
Vol 374 (1773) ◽  
pp. 20180303 ◽  
Author(s):  
Anouk Willemsen ◽  
Ignacio G. Bravo
Keyword(s):  
Common Ancestor ◽  
Current Knowledge ◽  
Phylogenetic Analyses ◽  
Genotypic Diversity ◽  
Human Papillomaviruses ◽  
Recent Common Ancestor ◽  
Origin And Evolution ◽  
Most Recent Common Ancestor ◽  
E6 And E7 ◽  
E7 Proteins

Papillomaviruses (PVs) are ancient viruses infecting vertebrates, from fishes to mammals. Although the genomes of PVs are small and show conserved synteny, PVs display large genotypic diversity and ample variation in the phenotypic presentation of the infection. Most PV genomes contain two small early genes E6 and E7 . In a bunch of closely related human papillomaviruses (HPVs), the E6 and E7 proteins provide the viruses with oncogenic potential. The recent discoveries of PVs without E6 and E7 in different fish species place a new root on the PV tree, and suggest that ancestral PVs consisted of the minimal PV backbone E1-E2-L2-L1 . Bayesian phylogenetic analyses date the most recent common ancestor of the PV backbone to 424 million years ago (Ma). Common ancestry tests on extant E6 and E7 genes indicate that they share a common ancestor dating back to at least 184 Ma. In AlphaPVs infecting Old World monkeys and apes, the appearance of the E5 oncogene 53–58 Ma concurred with (i) a significant increase in substitution rate, (ii) a basal radiation and (iii) key gain of functions in E6 and E7. This series of events was instrumental to construct the extant phenotype of oncogenic HPVs. Our results assemble the current knowledge on PV diversity and present an ancient evolutionary timeline punctuated by evolutionary innovations in the history of this successful viral family. This article is part of the theme issue ‘Silent cancer agents: multi-disciplinary modelling of human DNA oncoviruses’.

scholarly journals Triticum mosaic virus: A Distinct Member of the Family Potyviridae with an Unusually Long Leader Sequence

2009 ◽  
Vol 99 (8) ◽  
pp. 943-950 ◽  
Author(s):  
Satyanarayana Tatineni ◽  
Amy D. Ziems ◽  
Stephen N. Wegulo ◽  
Roy French
Keyword(s):  
Amino Acid ◽  
Mosaic Virus ◽  
Phylogenetic Analyses ◽  
Amino Acid Identity ◽  
Recent Common Ancestor ◽  
Acid Identity ◽  
Most Recent Common Ancestor ◽  
Nontranslated Region ◽  
The Family ◽  
Distinct Member

The complete genome sequence of Triticum mosaic virus (TriMV), a member in the family Potyviridae, has been determined to be 10,266 nucleotides (nt) excluding the 3′ polyadenylated tail. The genome encodes a large polyprotein of 3,112 amino acids with the “hall-mark proteins” of potyviruses, including a small overlapping gene, PIPO, in the P3 cistron. The genome of TriMV has an unusually long 5′ nontranslated region of 739 nt with 12 translation initiation codons and three small open reading frames, which resemble those of the internal ribosome entry site containing 5′ leader sequences of the members of Picornaviridae. Pairwise comparison of 10 putative mature proteins of TriMV with those of representative members of genera in the family Potyviridae revealed 33 to 44% amino acid identity within the highly conserved NIb protein sequence and 15 to 29% amino acid identity within the least conserved P1 protein, suggesting that TriMV is a distinct member in the family Potyviridae. In contrast, TriMV displayed 47 to 65% amino acid sequence identity with available sequences of mature proteins of Sugarcane streak mosaic virus (SCSMV), an unassigned member of the Potyviridae. Phylogenetic analyses of the complete polyprotein, NIa-Pro, NIb, and coat protein sequences of representative species of six genera and unassigned members of the family Potyviridae suggested that TriMV and SCSMV are sister taxa and share a most recent common ancestor with tritimoviruses or ipomoviruses. These results suggest that TriMV and SCSMV should be classified in a new genus, and we propose the genus Poacevirus in the family Potyviridae, with TriMV as the type member.

scholarly journals First Report of Three Tylenchidae Taxa from Southern Alberta, Canada

Horticulturae ◽  
2021 ◽  
Vol 7 (11) ◽  
pp. 449
Author(s):  
Maria Munawar ◽  
Dmytro P. Yevtushenko ◽  
Pablo Castillo
Keyword(s):  
New Records ◽  
Phylogenetic Analyses ◽  
Integrative Taxonomy ◽  
Complete Picture ◽  
Taxonomic Resolution ◽  
Morphometric Characteristics ◽  
First Report ◽  
Southern Alberta ◽  
The Family ◽  
Nematode Diversity

Members of the family Tylenchidae are highly abundant in soil habitats, including agricultural settings, where they play key ecological roles. In the present study, we identified three Tylenchidae species, namely Basiria bhabi, Coslenchus acceptus, and Filenchus vulgaris, using integrative taxonomy. The detailed morphological and morphometric characteristics, distribution, and host associations of each species were also discussed. Phylogenetic analyses of these populations with other Tylenchidae nematodes indicated the presence of divergent lineages in Filenchus and Basiria, whereas Coslenchus appeared to be a monophyletic genus. Herein, we aim to grow awareness about this common but least studied group of nematodes. The species reported in this study are new records for Canada, revealing that the identified nematode diversity in our cultivated areas is relatively underrepresented. Our analyses also provided greater taxonomic resolution and captured rare taxa that might have been missed or misidentified in prior nematode inventory surveys. These findings will add to our understanding of the nematofauna of southern Alberta, thereby providing a more complete picture of existing nematode diversity present in the fields of this highly cultivated region.

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