scholarly journals Revision of the land snail genus Landouria Godwin-Austen, 1918 (Gastropoda, Camaenidae) from Java

2019 ◽  
Author(s):  
Ayu Savitri Nurinsiyah ◽  
Marco T. Neiber ◽  
Bernhard Hausdorf
Keyword(s):  
Molecular Phylogeny ◽  
Dna Sequences ◽  
Land Snail ◽  
Monophyletic Group ◽  
Valid Species ◽  
Wallace’S Line ◽  
First Time

A revision of the land snail genus Landouria Godwin-Austin, 1918 (Camaenidae) from Java reveals that this group represents the most diverse land snail radiation on that island. Only six species of Landouria were recognized from Java in the last revision of the genus based on shell characters. Our investigation, which also considers the genitalia as well as DNA sequences, shows that the diversity in Java is much higher. Based on newly collected specimens as well as museum material, twenty-eight species of Landouria from Java are described and figured. To stabilize the nomenclature, neotypes are designated for L. winteriana (Pfeiffer, 1842) and L. rotatoria (Pfeiffer, 1842). Sixteen species are described as new to science, i.e., L. naggsi sp. nov., L. parahyangensis sp. nov., L. nusakambangensis sp. nov., L. petrukensis sp. nov., L. tholiformis sp. nov., L. madurensis sp. nov., L. abdidalem sp. nov., L. sewuensis sp. nov., L. tonywhitteni sp. nov., L. sukoliloensis sp. nov., L. nodifera sp. nov., L. pacitanensis sp. nov., L. zonifera sp. nov., L. pakidulan sp. nov., L. dharmai sp. nov. and L. menorehensis sp. nov. Landouria conoidea (Leschke, 1914) comb. nov., L. intumescens (Martens, 1867) comb. nov., L. moussoniana (Martens, 1867) comb. nov., L. schepmani (Möllendorff, 1897) comb. nov. and L. leucochila (Gude, 1905) comb. nov. are considered valid species of the genus Landouria for the first time. Plectotropis kraepelini Leschke, 1914 syn. nov. is considered a probable synonym of L. winteriana (Pfeiffer, 1842), P. trichotrochium Möllendorff, 1897 syn. nov. is a synonym of L. epiplatia (Möllendorff, 1897) and the preoccupied name Helix squamulosa Martens, 1867 syn. nov. is a synonym of L. madurensis sp. nov. We estimate that there are actually more than fifty species of Landouria in Java because many shell samples could not be classified and because no material is available from several regions of the island. A molecular phylogeny reveals that the species from Java do not form a monophyletic group, but that at least one species from Timor is nested within Javanese clades. This means that the Oriental Landouria crossed Wallace’s line, the supposed border between the Oriental and Australo-Papuan regions, at least twice and supports the conclusion that Wallace’s line does not represent a more severe barrier for terrestrial organisms than other straits through the archipelago. Within the Javanese clades, species from western and eastern Java are mixed, indicating frequent dispersals also within Java.

Systematics of the Boana semilineata species group (Anura: Hylidae), with a description of two new species from Amazonian Ecuador

2020 ◽  
Vol 190 (1) ◽  
pp. 149-180
Author(s):  
Marcel A Caminer ◽  
Santiago R Ron
Keyword(s):  
Dna Sequences ◽  
Phylogenetic Relationships ◽  
Species Group ◽  
Valid Species ◽  
Undescribed Species ◽  
Phenotypic Characters ◽  
Species Complexes ◽  
Candidate Species ◽  
Amazonian Ecuador ◽  
First Time

Abstract The combination of genetic and phenotypic characters for species delimitation has allowed the discovery of many undescribed species of Neotropical amphibians. In this study, we used DNA sequences (genes 12S, 16S, ND1 and COI) and morphologic, bioacoustic and environmental characters of the Boana semilineata group to evaluate their phylogenetic relationships and assess their species limits. In addition, we included DNA sequences of several species of Boana to explore cryptic diversity in other groups. We found three Confirmed Candidate Species (CCS) within the B. semilineata group. Holotype examination of Hyla appendiculata shows that it is a valid species that corresponds to one of the CCS, which is here transferred to Boana. We describe the two remaining CCS. Our phylogeny highlights a number of secondary but meaningful observations that deserve further investigation: (1) populations of B. pellucens from northern Ecuador are more closely related to B. rufitela from Panama than to other Ecuadorian populations of B. pellucens; (2) we report, for the first time, the phylogenetic relationships of B. rubracyla showing that it is closely related to B. rufitela and B. pellucens; and (3) B. cinerascens and B. punctata form two species complexes consisting of several unnamed highly divergent lineages. Each of these lineages likely represents an undescribed species.

Corrigendum to: The phylogenetic placement of Australian Linderniaceae and implications for generic taxonomy

2018 ◽  
Vol 31 (4) ◽  
pp. 373
Author(s):  
Ed Biffin ◽  
W. R. (Bill) Barker ◽  
Bruce Wannan ◽  
Yi-Shuo Liang
Keyword(s):  
Phylogenetic Analysis ◽  
Molecular Phylogeny ◽  
Dna Sequences ◽  
Sister Relationship ◽  
Australian Species ◽  
Phylogenetic Placement ◽  
Generic Framework ◽  
Broad Concept ◽  
First Time ◽  
Name Changes

The taxonomy of Linderniaceae has been considered difficult, particularly in the establishment of a stable generic framework. The prevailing approach in Australia and globally has been to adopt a broad concept of Lindernia encompassing several segregates that have at various times been recognised as genera or subgeneric taxa. A recent global conspectus drawing on molecular phylogeny returned Lindernia to a narrower circumscription and also retained several long-recognised and more recently established genera. It included a polyphyletic Vandellia, encompassing many Australian species previously accepted as belonging in Lindernia. Here, we test these generic concepts using the phylogenetic analysis of plastid matK DNA sequences, including representatives of Australian Linderniaceae. We propose a generic taxonomy that resolves existing polyphyly and balances the need for name changes against the information conveyed by generic names. Our concept of Lindernia recognises three monophyletic subgenera. Evidence is insufficient to determine whether Micranthemum should be subsumed in Lindernia or remains a close ally with a sister relationship to it. In light of our findings, we return most of the Australian species to Lindernia; we also establish for the first time: Lindernia subg. Ilysanthes (Raf.) Wannan, W.R.Barker & Y.S.Liang, based on Ilysanthes Raf.; a replacement name Yamazakia W.R.Barker, Y.S.Liang & Wannan for Tittmannia Rchb. nom. rej., with consequential combinations Y. viscosa (Hornem.) W.R.Barker, Y.S.Liang & Wannan, based on Gratiola viscosa Hornem. and Y. pusilla W.R.Barker, Y.S.Liang & Wannan, based on Gratiola pusilla Willd.; and, in expanding Torenia, the combination Tor. anagallis (Burm.f.) Wannan, W.R.Barker & Y.S.Liang, based on Ruellia anagallis Burm.f.

Morphology and Molecular Phylogeny of the East and Southeast Asian Meghimatium slugs (Gastropoda: Pulmonata: Philomycidae) and description of a new species

Zootaxa ◽  
2011 ◽  
Vol 2890 (1) ◽  
pp. 1 ◽  
Author(s):  
CHI-LI TSAI ◽  
CHUNG-CHENG LU ◽  
HSIAO-WEI KAO
Keyword(s):  
New Species ◽  
Molecular Phylogeny ◽  
Ribosomal Rna ◽  
Dna Sequences ◽  
Phylogenetic Analyses ◽  
Monophyletic Group ◽  
Medium Size ◽  
Evolutionary Trend ◽  
Rna Genes ◽  
A New Species

Meghimatium is a group of terrestrial slugs distributed in Asia. 185 specimens were collected from Taiwan, China, Okinawa (Japan), Thailand and Malaysia. Phylogenetic analyses using concatenated DNA sequences of cytochrome C oxidase subunit I, 16S ribosomal RNA and nuclear 28S ribosomal RNA genes revealed that clades in the resulting molecular phylogeny of Meghimatium are largely congruent with taxa identified on the basis of their genitalia. Four monophyletic groups, i.e., the M. fruhstorferi, M. burchi, M. uniforme and M. striatum complexes, with moderate to strong statistical supports (86/53/0.98/66, 100/100/1.00/100, 100/100/1.00/100, 100/100/1.00/100) were identified. M. pictum is paraphyletic and is clustered with M. bilineatum to constitute an additional monophyletic group (100/100/1.00/100). Body size does not show an evolutionary trend either from small to large or vice versa, based on the phylogenetic tree. A new species, M. baoshanense sp. nov., is named based on the included specimens constituting a monophyletic group, its medium size (40.1–52.7 mm in body length) and its genitalia with 10–18 papillae at the lower end of the spermathecal duct where it connects to the uterus and vagina.

A preliminary molecular phylogeny of the genus Riccia L. (Ricciaceae) in Australia

2016 ◽  
Vol 29 (3) ◽  
pp. 197 ◽  
Author(s):  
D. Christine Cargill ◽  
Will C. Neal ◽  
Ish Sharma ◽  
Cécile Gueidan
Keyword(s):  
Molecular Phylogeny ◽  
Molecular Data ◽  
Northern Territory ◽  
Species Concepts ◽  
Monophyletic Group ◽  
Tree Reconstruction ◽  
Cosmopolitan Distribution ◽  
Plastid Markers ◽  
Morphological Species ◽  
First Time

Several Australian Riccia taxa have been sequenced for the first time, with the majority from the monsoon tropics of the Northern Territory, north of 18° latitude. This allowed testing of several infrageneric groupings within the genus as well as morphological species concepts. Molecular data from one nuclear and four plastid markers support the genus as a monophyletic group. However, the monophyly of the two largest subgenera, subgenus Riccia and subgenus Ricciella, are not supported, with the latter being polyphyletic and well nested within subgenus Riccia. Several currently accepted species such as Riccia inflexa and Riccia lamellosa were also found to be polyphyletic. A second tree reconstruction using only trnL–F sequences allowed comparison to several taxa collected outside of Australia. This showed that some species have a truly cosmopolitan distribution, whereas others have not.

The phylogenetic placement of Australian Linderniaceae and implications for generic taxonomy

2018 ◽  
Vol 31 (3) ◽  
pp. 241 ◽  
Author(s):  
Ed Biffin ◽  
W. R. (Bill) Barker ◽  
Bruce Wannan ◽  
Yi-Shuo Liang
Keyword(s):  
Phylogenetic Analysis ◽  
Molecular Phylogeny ◽  
Dna Sequences ◽  
Sister Relationship ◽  
Australian Species ◽  
Phylogenetic Placement ◽  
Generic Framework ◽  
Broad Concept ◽  
First Time ◽  
Name Changes

The taxonomy of Linderniaceae has been considered difficult, particularly in the establishment of a stable generic framework. The prevailing approach in Australia and globally has been to adopt a broad concept of Lindernia encompassing several segregates that have at various times been recognised as genera or subgeneric taxa. A recent global conspectus drawing on molecular phylogeny returned Lindernia to a narrower circumscription and also retained several long-recognised and more recently established genera. It included a polyphyletic Vandellia, encompassing many Australian species previously accepted as belonging in Lindernia. Here, we test these generic concepts using the phylogenetic analysis of plastid matK DNA sequences, including representatives of Australian Linderniaceae. We propose a generic taxonomy that resolves existing polyphyly and balances the need for name changes against the information conveyed by generic names. Our concept of Lindernia recognises three monophyletic subgenera. Evidence is insufficient to determine whether Micranthemum should be subsumed in Lindernia or remains a close ally with a sister relationship to it. In light of our findings, we return most of the Australian species to Lindernia; we also establish for the first time: Lindernia subg. Ilysanthes (Raf.) Wannan, W.R.Barker & Y.S.Liang, based on Ilysanthes Raf.; a replacement name Yamazakia W.R.Barker, Y.S.Liang & Wannan for Tittmannia Rchb. nom. rej., with consequential combinations Y. viscosa (Hornem.) W.R.Barker, Y.S.Liang & Wannan, based on Gratiola viscosa Hornem. and Y. pusilla W.R.Barker, Y.S.Liang & Wannan, based on Gratiola pusilla Willd.; and, in expanding Torenia, the combination Tor. anagallis (Burm.f.) Wannan, W.R.Barker & Y.S.Liang, based on Ruellia anagallis Burm.f.

Molecular phylogenetics of the Chytridiomycota supports the utility of ultrastructural data in chytrid systematics

2000 ◽  
Vol 78 (3) ◽  
pp. 336-350 ◽  
Author(s):  
Timothy Y James ◽  
David Porter ◽  
Celeste A Leander ◽  
Rytas Vilgalys ◽  
Joyce E Longcore
Keyword(s):  
Molecular Phylogeny ◽  
Ribosomal Dna ◽  
Dna Sequences ◽  
Molecular Phylogenetics ◽  
Small Subunit ◽  
Aquatic Fungi ◽  
Monophyletic Group ◽  
Divergence Times ◽  
Subunit Gene ◽  
Fungal Phylogeny

The chytrids (Chytridiomycota) are morphologically simple aquatic fungi that are unified by their possession of zoospores that typically have a single, posteriorly directed flagellum. This study addresses the systematics of the chytrids by generating a phylogeny of ribosomal DNA sequences coding for the small subunit gene of 54 chytrids, with emphasis on sampling the largest order, the Chytridiales. Selected chytrid sequences were also compared with sequences from Zygomycota, Ascomycota, and Basidiomycota to derive an overall fungal phylogeny. These analyses show that the Chytridiomycota is probably not a monophyletic group; the Blastocladiales cluster with the Zygomycota. Analyses did not resolve relationships among chytrid orders, or among clades within the Chytridiales, which suggests that the divergence times of these groups may be ancient. Four clades were well supported within the Chytridiales, and each of these clades was coincident with a group previously identified by possession of a common subtype of zoospore ultrastructure. In contrast, the analyses revealed homoplasy in several developmental and zoosporangial characters.Key words: zoospore ultrastructure, Chytridiales, molecular phylogeny, Chytridiomycota, operculum.

Molecular Phylogeny of Coprophanaeus (Megaphanaeus) d’Olsoufieff, 1924 (Coleoptera: Scarabaeidae: Scarabaeinae) and the position of C. bellicosus

2020 ◽  
Vol 51 (2) ◽  
pp. 241-255 ◽  
Author(s):  
Maria E. Maldaner ◽  
Fernando Z. Vaz-de-Mello ◽  
Daniela M. Takiya ◽  
Daniela C. Ferreira
Keyword(s):  
Bayesian Inference ◽  
Maximum Likelihood ◽  
Molecular Phylogeny ◽  
Maximum Parsimony ◽  
Phylogenetic Inference ◽  
Sister Group ◽  
Monophyletic Group ◽  
Valid Species ◽  
Nuclear Marker

Coprophanaeus (Megaphanaeus) d’Olsoufieff, 1924 has four valid species: C. lancifer (Linné, 1767), C. ensifer (Germar, 1821), C. bonariensis (Gory, 1844) and C. bellicosus (Olivier, 1789). However, authors disagree about the placement of C. bellicosus. Thus, our aims were (I) to test if Megaphanaeus is a monophyletic group and (II) verify to which subgenus C. bellicosus belongs. We sequenced three mitochondrial and one nuclear marker for ten Phanaeini species: COI (672bp), COI-II (1326bp), 16S (527bp) and 28S (994bp). For fifteen species we sequenced two markers, COI (681pb) and 16S (532pb). Both matrices were analyzed under three methods of phylogenetic inference: Maximum Parsimony, Maximum Likelihood, and Bayesian Inference. Megaphanaeus is here considered monophyletic including C. bellicosus as sister-group to (C. bonariensis (C. lancifer + C. ensifer)). All analyses recovered the non-monophyly of both C. lancifer and C. ensifer, because of a population of C. lancifer grouped with C. ensifer specimens.

scholarly journals Molecular phylogeny and biogeographic history of the Neotropical tribe Glandulocaudini (Characiformes: Characidae: Stevardiinae)

2018 ◽  
Vol 16 (1) ◽  
Author(s):  
Priscila Camelier ◽  
Naércio Aquino Menezes ◽  
Guilherme José Costa-Silva ◽  
Claudio Oliveira
Keyword(s):  
Molecular Clock ◽  
Dna Sequences ◽  
Valid Species ◽  
Molecular Evidence ◽  
Sea Level Fluctuations ◽  
Biogeographic History ◽  
History Of ◽  
Clock Analysis ◽  
First Time ◽  
Atlantic Coastal

ABSTRACT Although former studies on systematics and biogeography represent a progress on the knowledge of the tribe Glandulocaudini, none was grounded on molecular evidence. Thus, the first hypothesis of relationships for the tribe based on a multilocus analysis is presented, including all genera and most of the valid species. DNA sequences of Glandulocauda caerulea and Mimagoniates sylvicola were analyzed for the first time. A molecular clock analysis was used to estimate the origin of the Glandulocaudini and the approximate timing of cladogenetic events within the group. Glandulocaudini was recovered as monophyletic. No hypothesis recovered Glandulocauda as monophyletic, since G. melanopleura is sister to Lophiobrycon weitzmani while G. caerulea is closely related to Mimagoniates. The relationships within the latter genus were resolved. The molecular clock results indicate the origin of the Glandulocaudini during the Miocene with diversification in the group occurring from Neogene to Pleistocene. These results corroborated the hypothesis that its origin took place on the Brazilian crystalline shield with the subsequent occupation of the Atlantic Coastal drainages. Apparently, Pleistocene sea-level fluctuations might have shaped the distribution pattern of some species in Glandulocaudini.

scholarly journals TERRA: A Novel Biomarker of Embryo Quality and Art Outcome

Genes ◽  
2021 ◽  
Vol 12 (4) ◽  
pp. 475
Author(s):  
Maria Santa Rocca ◽  
Ludovica Dusi ◽  
Andrea Di Nisio ◽  
Erminia Alviggi ◽  
Benedetta Iussig ◽  
...  
Keyword(s):  
Telomere Length ◽  
Dna Sequences ◽  
Male Fertility ◽  
Embryo Quality ◽  
Assisted Reproductive Technologies ◽  
Biological Clock ◽  
Reproductive Technologies ◽  
Age Related ◽  
Non Coding Rna ◽  
First Time

Telomeres are considered to be an internal biological clock, and their progressive shortening has been associated with the risk of age-related diseases and reproductive alterations. Over recent years, an increasing number of studies have focused on the association between telomere length and fertility, identifying sperm telomere length (STL) as a novel biomarker of male fertility. Although typically considered to be repeated DNA sequences, telomeres have recently been shown to also include a long non-coding RNA (lncRNA) known as TERRA (telomeric repeat-containing RNAs). Interestingly, males with idiopathic infertility show reduced testicular TERRA expression, suggesting a link between TERRA and male fertility. The aim of this study was to investigate the role of seminal TERRA expression in embryo quality. To this end, STL and TERRA expression were quantified by Real Time qPCR in the semen of 35 men who underwent assisted reproductive technologies (ART) and 30 fertile men. We found that TERRA expression in semen and STL was reduced in patients that underwent ART (both p < 0.001). Interestingly, TERRA and STL expressions were positively correlated (p = 0.010), and TERRA expression was positively associated with embryo quality (p < 0.001). These preliminary findings suggest a role for TERRA in the maintenance of sperm telomere integrity during gametogenesis, and for the first time, TERRA expression was found as a predictive factor for embryo quality in the setting of assisted reproduction.

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