scholarly journals A proposed order-level classification in Oligochaeta (Annelida, Clitellata)

Zootaxa ◽  
2021 ◽  
Vol 5040 (4) ◽  
pp. 589-591
Author(s):  
RÜDIGER M. SCHMELZ ◽  
CHRISTER ERSÉUS ◽  
PATRICK MARTIN ◽  
TON VAN HAAREN ◽  
TARMO TIMM
Keyword(s):  
Phylogenetic Relationships ◽  
Class Level ◽  
Molecular Phylogenetic ◽  
Biodiversity Databases

The purpose of our contribution is to propose a robust and practical order-level classification of the families of Oligochaeta, that is, non-leech Clitellata. The order level is mandatory in Linnaean rank-based classification and is also required in many internet-based biodiversity databases. However, it has received little attention in oligochaete systematics, and the few available order-level classifications of Oligochaeta no longer represent phylogenetic relationships adequately. Our proposal is based on corroborated molecular phylogenetic evidence and takes as benchmarks class level for Clitellata, subclass level for Oligochaeta and Hirudinea, and order level for Crassiclitellata, the monophylum that includes most of the earthworm taxa. As a result, eleven orders are proposed: Alluroidida Timm & Martin, 2015; Capilloventrida Timm, n. ordo; Crassiclitellata Jamieson, 1988; Enchytraeida Kasprzak, 1984; Haplotaxida Brinkhurst & Jamieson, 1971; Lumbriculida Brinkhurst & Jamieson, 1971; Moniligastrida Brinkhurst & Jamieson, 1971; Narapida Timm, n. ordo; Parvidrilida Timm, n. ordo; Randiellida Jamieson, 1988; Tubificida Jamieson, 1978. This order-level classification is robust and easily adaptable to future insights into phylogenetic relationships.  

Phylogenetic relationships and classification of the Malagasy pseudoxyrhophiine snake genera Geodipsas and Compsophis based on morphological and molecular data

Zootaxa ◽  
2007 ◽  
Vol 1517 (1) ◽  
pp. 53-62 ◽  
Author(s):  
FRANK GLAW ◽  
ZOLTÁN T. NAGY ◽  
MIGUEL VENCES
Keyword(s):  
Dna Sequences ◽  
Phylogenetic Relationships ◽  
Close Relationships ◽  
Original Description ◽  
Molecular Data ◽  
Morphological Data ◽  
Molecular Phylogenetic ◽  
Species Groups ◽  
Morphological And Molecular Data

Based on a specimen found at Montagne d'Ambre in northern Madagascar morphologically agreeing with Compsophis albiventris Mocquard, 1894, we report on the rediscovery of this enigmatic snake genus and species and its molecular phylogenetic relationships. Compsophis albiventris, considered to be the only representative of its genus and unreported since its original description, bears strong morphological similarities to species of Geodipsas Boulenger, 1896. A molecular phylogeny based on DNA sequences of three mitochondrial and nuclear genes (complete cytochrome b, fragments of 16S rRNA and c-mos) in Compsophis albiventris and three Geodipsas species corroborated close relationships between C. albiventris and Geodipsas boulengeri, and showed that the genera Compsophis and Geodipsas together form a monophyletic unit. Despite the general similarities, morphological data and chromatic features support the existence of two species groups, corresponding to Compsophis and Geodipsas. We consequently consider Geodipsas as a subgenus of Compsophis and transfer all species currently in Geodipsas into the genus Compsophis.

Systematics of Hymenophyllum subgenus Mecodium (Hymenophyllaceae) in Taiwan

2019 ◽  
Vol 44 (4) ◽  
pp. 753-767
Author(s):  
Tian-Chuan Hsu ◽  
Yu-Fang Huang ◽  
Yi-Shan Chao
Keyword(s):  
Phylogenetic Relationships ◽  
The Philippines ◽  
Common Element ◽  
Morphological Investigation ◽  
Eastern Asia ◽  
Type Specimens ◽  
The Status ◽  
Molecular Phylogenetic ◽  
A New Species ◽  
Independent Species

Abstract—Hymenophyllum subg. Mecodium, composed of the taxonomically notorious H. polyanthos and approximately 15 other closely related taxa, is a common element of filmy fern communities in the tropical and subtropical moist forests. In Taiwan, although only H. polyanthos and one or two closely related taxa were recognized in recent studies, considerable morphological variation has been observed among populations throughout the island. Thus, we conducted an extensive morphological investigation, as well as a molecular phylogenetic analysis, to clarify the specific diversity and phylogenetic relationships within Hymenophyllum subg. Mecodium in Taiwan. Field and herbaria surveys helped in recognizing five morphs in Taiwan, mainly differentiated by the combination of certain traits, viz., the presence or absence of stipe wings, general frond size and shape, degree of laminar crispation, sori position, and involucre shape. The different morphs had diverse ecological preferences. The phylogenetic tree, inferred from the sequences of the plastid loci rbcL and rps4-trnS, demonstrated that Hymenophyllum subg. Mecodium materials in Taiwan comprise several well-supported lineages, mostly corresponding to the classification based on morphology. Comparing with the protologues and type specimens of 34 related scientific names, the five morphs are herein recognized as five independent species. A new species, Hymenophyllum exquisitum, is described here. Also, the status of H. paniculiflorum is reconfirmed and that of H. fujisanense, H. parallelocarpum, and H. punctisorum reinstated. Only H. exquisitum and H. parallelocarpum are endemic to Taiwan among all the species studied. In addition, the names Hymenophyllum blumeanum, H. integrum, H. microsorum, H. polyanthos, H. tenellum, and H. wrightii are now excluded from the regional flora, and several related taxa from China, Taiwan, and the Philippines are treated as synonyms. This study unravels the deep phylogenetic relationships within Hymenophyllum subg. Mecodium in Taiwan and Eastern Asia.

scholarly journals Phylogenetic relationships among accessions in Citrus and related genera based on the insertion polymorphism of the CIRE1 retrotransposon

2020 ◽  
Vol 5 (1) ◽  
pp. 243-251
Author(s):  
Akira Horibata ◽  
Tsuneo Kato
Keyword(s):  
Phylogenetic Relationships ◽  
Sweet Orange ◽  
Point Of View ◽  
Insertion Polymorphism ◽  
Navel Orange ◽  
Citrus Germplasm ◽  
Outgroup Species ◽  
Blood Orange

AbstractA total of 145 accessions of the genus Citrus and related genera, maintained in the Conservation Garden for Citrus Germplasm at the Experimental Farm of Kindai University, Yuasa, Wakayama, Japan, were examined for their phylogenetic relationships. The present classification was conducted using an inter-retrotransposon amplified polymorphism (IRAP) method based on the insertion polymorphism of a retrotransposon, CIRE1, identified in C. sinensis. The objective of this study was to evaluate the applicability of the IRAP method for citrus classification. The constructed dendrogram showed that the 145 accessions and two outgroup species were successfully classified into five major clades. A large number of C. sinensis accessions were divided into three traditional groups, navel orange, sweet orange, and blood orange, almost corresponding to the sub-clades in the dendrogram. Several other accessions belonging to the same species, and also many hybrid cultivars from crossbreeding, were localized into the respective sub-clades or near positions in the dendrogram. Several unclassified accessions could also be located in the dendrogram, suggesting novel relationships with other accessions. It was concluded that the IRAP method based on CIRE1 insertion polymorphism was suitable for the classification of citrus from a molecular point of view.

Tracing the origins of hybrids through history: monstrous cultivars and Napoléon Bonaparte’s exiled paper daisies (Asteraceae; Gnaphalieae)

2021 ◽  
Author(s):  
Timothy L Collins ◽  
Jeremy J Bruhl ◽  
Alexander N Schmidt-Lebuhn ◽  
Ian R H Telford ◽  
Rose L Andrew
Keyword(s):  
Gene Flow ◽  
Phylogenetic Analyses ◽  
Strong Support ◽  
Napoleon Bonaparte ◽  
Snp Data ◽  
Cast Doubt ◽  
Molecular Phylogenetic ◽  
St Helena ◽  
New Evidence

Abstract Golden everlasting paper daisies (Xerochrysum, Gnaphalieae, Asteraceae) were some of the earliest Australian native plants to be cultivated in Europe. Reputedly a favourite of Napoléon Bonaparte and Empress Joséphine, X. bracteatum is thought to have been introduced to the island of St Helena in the South Atlantic during Napoléon’s exile there. Colourful cultivars were developed in the 1850s, and there is a widely held view that these were produced by crossing Xerochrysum with African or Asian Helichrysum spp. Recent molecular phylogenetic analyses and subtribal classification of Gnaphalieae cast doubt on this idea. Using single-nucleotide polymorphism (SNP) data, we looked for evidence of gene flow between modern cultivars, naturalized paper daisies from St Helena and four Xerochrysum spp. recorded in Europe in the 1800s. There was strong support for gene flow between cultivars and X. macranthum. Paper daisies from St Helena were genotypically congruent with X. bracteatum and showed no indications of ancestry from other species or from the cultivars, consistent with the continuous occurrence of naturalized paper daisies introduced by Joséphine and Napoléon. We also present new evidence for the origin of colourful Xerochrysum cultivars and hybridization of congeners in Europe from Australian collections.

Molecular phylogenetic relationships within the Phrynocephalus maculatus‐arabicus species complex (Sauria: Agamidae) in Iran

2021 ◽  
Vol 59 (7) ◽  
pp. 1583-1588
Author(s):  
Farnaz Ebrahimipour ◽  
Nasrullah Rastegar‐Pouyani ◽  
Eskandar Rastegar‐Pouyani ◽  
Seyyed Saeed Hosseinian Yousefkhani ◽  
Kamran Kamali
Keyword(s):  
Phylogenetic Relationships ◽  
Species Complex ◽  
Molecular Phylogenetic

scholarly journals Noteworthy record of the Ethiopian genet, Genetta abyssinica, (Carnivora, Viverridae) from Djibouti informs its phylogenetic position within Genetta

Mammalia ◽  
2019 ◽  
Vol 83 (2) ◽  
pp. 180-189 ◽  
Author(s):  
Adam W. Ferguson ◽  
Houssein R. Roble ◽  
Molly M. McDonough
Keyword(s):  
Phylogenetic Relationships ◽  
Sequence Data ◽  
Alternative Hypothesis ◽  
Phylogenetic Analyses ◽  
Phylogenetic Position ◽  
Sister Relationship ◽  
Molecular Sequence Data ◽  
Molecular Sequence ◽  
Molecular Phylogenetic ◽  
Relationship Of

AbstractThe molecular phylogeny of extant genets (Carnivora, Viverridae,Genetta) was generated using all species with the exception of the Ethiopian genetGenetta abyssinica. Herein, we provide the first molecular phylogenetic assessment ofG. abyssinicausing molecular sequence data from multiple mitochondrial genes generated from a recent record of this species from the Forêt du Day (the Day Forest) in Djibouti. This record represents the first verified museum specimen ofG. abyssinicacollected in over 60 years and the first specimen with a specific locality for the country of Djibouti. Multiple phylogenetic analyses revealed conflicting results as to the exact relationship ofG. abyssinicato otherGenettaspecies, providing statistical support for a sister relationship to all other extant genets for only a subset of mitochondrial analyses. Despite the inclusion of this species for the first time, phylogenetic relationships amongGenettaspecies remain unclear, with limited nodal support for many species. In addition to providing an alternative hypothesis of the phylogenetic relationships among extant genets, this recent record provides the first complete skeleton of this species to our knowledge and helps to shed light on the distribution and habitat use of this understudied African small carnivore.

scholarly journals Sequence Analysis and Classification of Apparent Recombinant Begomoviruses Infecting Tomato in the Nile and Mediterranean Basins

2005 ◽  
Vol 95 (5) ◽  
pp. 549-555 ◽  
Author(s):  
C. M. Fauquet ◽  
S. Sawyer ◽  
A. M. Idris ◽  
J. K. Brown
Keyword(s):  
Sequence Analysis ◽  
Phylogenetic Relationships ◽  
Tomato Yellow Leaf ◽  
Viral Diseases ◽  
Yellow Leaf ◽  
Recombination Hotspots ◽  
Molecular Biodiversity ◽  
Leaf Curl Virus ◽  
Leaf Curl

Numerous whitefly-transmitted viral diseases of tomato have emerged in countries around the Nile and Mediterranean Basins the last 20 years. These diseases are caused by monopartite geminiviruses (family Gemini viridae) belonging to the genus Begomovirus that probably resulted from numerous recombination events. The molecular biodiversity of these viruses was investigated to better appreciate the role and importance of recombination and to better clarify the phylogenetic relationships and classification of these viruses. The analysis partitioned the tomato-infecting begomoviruses from this region into two major clades, Tomato yellow leaf curl virus and Tomato yellow leaf curl Sardinia virus. Phylogenetic and pairwise analyses together with an evaluation for gene conversion were performed from which taxonomic classification and virus biodiversity conclusions were drawn. Six recombination hotspots and three homogeneous zones within the genome were identified among the tomatoinfecting isolates and species examined here, suggesting that the recombination events identified were not random occurrences.

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