scholarly journals Unusually low genetic divergence at COI barcode locus between two species of intertidalThalassaphorura(Collembola: Onychiuridae)

PeerJ ◽  
2018 ◽  
Vol 6 ◽  
pp. e5021 ◽  
Author(s):  
Xin Sun ◽  
Anne Bedos ◽  
Louis Deharveng
Keyword(s):  
Genetic Divergence ◽  
Dna Barcode ◽  
Intertidal Habitat ◽  
Species Classification ◽  
Arthropod Species ◽  
Fresh Material ◽  
Interspecific Divergence ◽  
Collembolan Species ◽  
Morphological Differences ◽  
Intertidal Ecosystems

Species classification is challenging when taxa display limited morphological differences. In this paper, we combined morphology and DNA barcode data to investigate the complicated taxonomy of two Onychiurid Collembolan species.Thalassaphorura thalassophilaandThalassaphorura debilisare among the most common arthropod species in intertidal ecosystems and are often considered to be synonymous. Based on morphological and barcode analyses of fresh material collected in their type localities, we redescribed and compared the two species. However, their morphological distinctiveness was supported by a molecular divergence much smaller than previously reported at the interspecific level among Collembola. This divergence was even smaller than inter-population divergences recognized in the related edaphic speciesT. zschokkei, as well as those known between MOTUs within many Collembolan species. Our results may indicate a link between low genetic interspecific divergence and intertidal habitat, as the only biological peculiarity of the two species of interest compared to other Collembolan species analyzed to date is their strict intertidal life.

Morphological and molecular systematic investigation of Laurencia karachiana sp. nov. (Ceramiales, Rhodophyta) from Karachi, Pakistan

Phytotaxa ◽  
2019 ◽  
Vol 404 (1) ◽  
pp. 23 ◽  
Author(s):  
RABIA BIBI ◽  
VALÉRIA CASSANO ◽  
ROSÂNGELA DA SILVA MEDEIROS ◽  
SHAHNAZ RASHID ◽  
MUNAWWER RASHEED
Keyword(s):  
Sri Lanka ◽  
Genetic Divergence ◽  
Novel Species ◽  
Systematic Investigation ◽  
Sensu Stricto ◽  
Molecular Systematic ◽  
Interspecific Divergence ◽  
Morphological Differences ◽  
Open Question ◽  
Rbcl Phylogeny

Laurencia karachiana sp. nov. is described from the Karachi coast of Pakistan, based on rbcL and COI-5P genes sequences. The molecular analyses for both markers positioned L. karachiana within Laurencia sensu stricto and it possesses all vegetative and reproductive structures typical of the genus. Laurencia karachiana grouped with Laurencia sp. from Sri Lanka for both markers. The genetic divergence between these taxa for rbcL was only 0.27%, whereas for COI-5P was much higher, 2.7%. The latter is within ranges of interspecific divergence for Laurencia s.s. The discrepancy of divergence between these markers and the lack of description and illustrations of Laurencia sp. from Sri Lanka for comparison leave the identity of Laurencia sp. as an open question. The rbcL phylogeny resolved L. karachiana and Laurencia sp. as sister to a subclade formed by sequences of Laurencia pumila and L. pumila var. dehoopiensis from South Africa, diverging by 1.7–1.8%. This genetic divergence and also morphological differences observed support the recognition of L. karachiana as a novel species. Our finding shows that this complex from Pakistan requires major revision, because its diversity is likely underestimated.

scholarly journals Resurrection of the Butterfly-winged Comber, Serranus papilionaceus Valenciennes, 1832 (Teleostei, Serranidae) and its phylogenetic position within genus Serranus

ZooKeys ◽  
2021 ◽  
Vol 1017 ◽  
pp. 111-126
Author(s):  
Adriana Vella ◽  
Noel Vella ◽  
Carolina Acosta-Díaz
Keyword(s):  
Conservation Status ◽  
Valid Species ◽  
Phylogenetic Position ◽  
Mitochondrial Coi ◽  
Interspecific Divergence ◽  
Population Conservation ◽  
Status Assessment ◽  
Morphological Differences ◽  
Species Specific ◽  
High Level

The family Serranidae is represented by 92 genera and 579 valid species, with the genus Serranus Cuvier, 1816, containing 30 species. In this study, specimens of Butterfly-winged Comber, Serranus papilionaceus Valenciennes, 1832, were collected from the Canary Islands and compared morphologically and genetically to Painted Comber, Serranus scriba (Linnaeus, 1758), from the Mediterranean Sea. Morphological differences, especially in the colour banding pattern, were corroborated by genetic differences in mitochondrial (COI and ND2) and nuclear (Rhod and PTR) markers. The mitochondrial DNA markers revealed a high level of divergence and no shared haplotypes between the two species (interspecific divergence: COI 4.31%; ND2 8.68%), and a phylogenetic analysis showed that these two species are closely related sister species sharing common ancestry. This study is therefore offering to resurrect S. papilionaceus Valenciennes, 1832 as a valid species increasing the number of eastern Atlantic Serranus species to 11. This should direct new species-specific research, including its population conservation status assessment across its distribution.

Descriptions of two new endemic and cryptic species of Sitana Cuvier, 1829 from peninsular India

Zootaxa ◽  
2018 ◽  
Vol 4434 (2) ◽  
pp. 327
Author(s):  
V. DEEPAK ◽  
AKSHAY KHANDEKAR ◽  
R. CHAITANYA ◽  
PRAVEEN KARANTH
Keyword(s):  
New Species ◽  
Cryptic Species ◽  
Genetic Divergence ◽  
Andhra Pradesh ◽  
Genetic Difference ◽  
Large Sample Size ◽  
Peninsular India ◽  
Two New Species ◽  
Morphological Differences ◽  
Species Descriptions

Two new cryptic species of the agamid genus Sitana Cuvier, 1829 from Peninsular India are described herein. Sitana gokakensis sp. nov. from Gokak, Karnataka closely resembles Sitana thondalu sp. nov. from Nagarjuna Sagar, Andhra Pradesh. The two species can be distinguished based on their subtle morphological differences, genetic difference and geographic distribution. Sitana gokakensis sp. nov. have a relatively depressed head compared to Sitana thondalu sp. nov. Additionally, the vertebral scale counts differ in females of the two new species (Sitana gokakensis sp. nov. 45–47 vs Sitana thondalu sp. nov. 49–53). Genetic divergence between them is comparable to those between previously described Sitana species. Furthermore, the two new species are distributed ca. 500 km apart and are endemic to their respective landscapes that lie in similar latitudes of peninsular India. We urge the use of large sample size in new species descriptions especially those dealing with cryptic species like Sitana. The discovery of the two new cryptic species from these rocky terrains in peninsular India highlights need for more herpetological exploration in this region. 

A new species of Strepsicrates Meyrick (Lepidoptera: Tortricidae) from the Atacama Desert of northern Chile previously misidentified as S. smithiana Walsingham

Zootaxa ◽  
2018 ◽  
Vol 4370 (5) ◽  
pp. 569 ◽  
Author(s):  
MARCELO VARGAS-ORTIZ ◽  
HÉCTOR A. VARGAS
Keyword(s):  
New Species ◽  
Mitochondrial Gene ◽  
Dna Barcode ◽  
Atacama Desert ◽  
Northern Chile ◽  
Cytochrome Oxidase Subunit ◽  
Native Tree ◽  
Morphological Differences ◽  
Additional Support ◽  
A New Species

The adult, larva, and pupa of Strepsicrates gattii Vargas-Ortiz & Vargas, sp. n. (Lepidoptera: Tortricidae: Olethreutinae: Eucosmini), are described and illustrated from the Atacama Desert of northern Chile. The larvae are leaf-tiers on the vulnerable native tree Morella pavonis (Myricaceae). As S. gattii was previously misidentified as S. smithiana Walsingham, morphological differences that enable the separation of the two species are highlighted. Sequences of the DNA barcode fragment of the cytochrome oxidase subunit I mitochondrial gene of the new species are provided and used in a Bayesian analysis with congeneric representatives to assess their relationships preliminarily. The divergence (K2P) with S. smithiana was 6.4–7.4%, providing additional support for separating the two species. 

New record of Epermenia (Calotripis) sinjovi Gaedike (Lepidoptera: Epermeniidae) in China: DNA barcode, adult, immature stages, host plant and biology

Zootaxa ◽  
2021 ◽  
Vol 5039 (2) ◽  
pp. 263-276
Author(s):  
YEHAO WANG ◽  
KAIJIAN TENG ◽  
TENGTENG LIU
Keyword(s):  
Host Plant ◽  
Far East ◽  
Dna Barcode ◽  
Biological Information ◽  
New Host ◽  
Morphological Variations ◽  
Intraspecific Variations ◽  
Kunashir Island ◽  
Morphological Differences ◽  
First Time

Epermenia (Calotripis) sinjovi Gaedike, 1993, feeding on Angelica pubescens Maxim. and A. ursina Maxim., was previously recorded in Russia (Far East, Southern Siberia and Transbaikalia), Kunashir Island and Japan. This species is for the first time reported in China by rearing from a new host plant A. polymorpha Maxim. The larva and pupa are illustrated and described for the first time. Available biological information associated with the new host plant is also reported. Reference DNA barcodes are provided for E. (C.) sinjovi, which confirms that forewing distinct colors and morphological differences found in venation and genitalia among individuals are intraspecific variations. The adult morphological variations within population are analyzed and discussed.  

Guidelines for DNA barcoding of coralline algae, focusing on Lithophylloideae (Corallinales) from Brazil

2018 ◽  
Vol 61 (2) ◽  
pp. 127-140 ◽  
Author(s):  
Beatriz N. Torrano-Silva ◽  
Bruno R. Vieira ◽  
Rafael Riosmena-Rodríguez ◽  
Mariana C. Oliveira
Keyword(s):  
New Species ◽  
Species Delimitation ◽  
Morphological Traits ◽  
Dna Barcode ◽  
Molecular Data ◽  
Coralline Algae ◽  
Integrative Approach ◽  
Interspecific Divergence ◽  
Algorithmic Approaches ◽  
Barcode Gap

AbstractMultiple-marker (COI-5P, UPA,psbA andrbcL-3P) and two algorithmic approaches [automatic barcode gap discovery (ABGD) and Poisson tree process (PTP)] were used for species delimitation of Lithophylloideae in Brazil. The integrative approach was mostly congruent between markers and algorithmic methods of species delimitation, suggesting the occurrence of 24 species. Based on morphology and molecular data,Amphiroa rigida,Amphiroa vanbosseae,Lithophyllum atlanticum,Lithophyllum kaiseri,Lithophyllum margaritae,Titanoderma pustulatum,Titanoderma prototypumandPaulsilvella huveorum, which were previously reported for Brazil, are confirmed in this work. Six new species are distinguished by both molecular and morphological traits, and they are provisionally named asAmphiroasp. 1,Amphiroasp. 2,Amphiroasp. 3,Lithophyllumsp. 1,Lithophyllumsp. 2 andLithophyllumsp. 3. Another 10 species are cryptic and cannot be distinguished based on traditionally used morphological traits. These includeAmphiroasp. 4,Lithophyllumsp. 4, three species that are morphologically named underAmphiroa beauvoisii, and six that share the morphology described forAmphiroa fragilissima. All four markers used were useful for species delimitation. However, a combination of practical aspects and levels of intra- and interspecific divergence values led us to propose the use ofrbcL-3P as a standard DNA barcode marker for the Corallinales.

scholarly journals Lineage diversity, morphological and genetic divergence in Daphnia magna (Crustacea) among Chinese lakes at different altitudes

2020 ◽  
Vol 89 (4) ◽  
pp. 450-470
Author(s):  
Xiaolin Ma ◽  
Yijun Ni ◽  
Xiaoyu Wang ◽  
Wei Hu ◽  
Mingbo Yin
Keyword(s):  
Tibetan Plateau ◽  
Daphnia Magna ◽  
Genetic Divergence ◽  
Source Region ◽  
Geographical Area ◽  
Body Width ◽  
Genetic Diversity And Structure ◽  
Morphological Differences ◽  
Insight Into ◽  
Lineage Diversity

The biogeography and genetic structure of aquatic zooplankton populations remains understudied in the Eastern Palearctic, especially the Qinghai-Tibetan Plateau. Here, we explored the population-genetic diversity and structure of the cladoceran waterflea Daphnia magna found in eight (out of 303 investigated) waterbodies across China. The three Tibetan D. magna populations were detected within a small geographical area, suggesting these populations have expanded from refugia. We detected two divergent mitochondrial lineages of D. magna in China: one was restricted to the Qinghai-Tibetan Plateau and the other was present in lowland China. Several different haplotypes in the Qinghai-Tibetan Plateau were most similar to those from various parts of Siberia, suggesting that as a source region. We also found substantial genetic differentiation between D. magna populations from the Qinghai-Tibetan Plateau and those from lowland China. Moreover, significant morphological differences were identified: D. magna from the Qinghai-Tibetan Plateau had a larger head length, body length and body width than did those from lowland China. Geographical and environmental factors were correlated with the observed morphological variation and genetic divergence of D. magna in China. Our data offer an insight into the divergence of freshwater zooplankton due to the uplift of the Qinghai-Tibetan Plateau.

scholarly journals Discovery of Eubasilissa signata Wiggins, 1998 (Trichoptera, Phryganeidae) from Taiwan

Zoosymposia ◽  
2019 ◽  
Vol 14 (1) ◽  
pp. 103-107
Author(s):  
RYOICHI B. KURANISHI ◽  
LI-PENG HSU
Keyword(s):  
Dna Barcode ◽  
Species Group ◽  
Coi Gene ◽  
Single Female ◽  
Separate Species ◽  
Other Information ◽  
Group A ◽  
Morphological Differences ◽  
Male Morphology ◽  
First Time

The phryganeid caddisfly Eubasilissa signata Wiggins, 1998 was originally described based on a single female specimen from Korea, and no other information on the species was available. Here we record an additional five male and five female specimens of E. signata from Taiwan and describe the male morphology for the first time. Based on morphological differences with other Eubasilissa species, E. signata should be regarded as a separate species and also not a member of the “tibetana” species group. A 658-bp fragment of the mitochondrial cytochrome c oxidase subunit I (COI) gene of the new specimens of E. signata is provided as a DNA barcode.

scholarly journals The Taxa of the Hyponephele lycaon – H. lupina Species Complex (Lepidoptera, Nymphalidae, Satyrinae): Deep DNA Barcode Divergence despite Morphological Similarity

2021 ◽  
Vol 69 (1) ◽  
pp. 11-21
Author(s):  
Vladimir A. Lukhtanov ◽  
Elena A. Pazhenkova
Keyword(s):  
Male Genitalia ◽  
Species Complex ◽  
Dna Barcode ◽  
Type Material ◽  
Wing Pattern ◽  
Dna Barcodes ◽  
Morphological Similarity ◽  
Phenotypic Similarity ◽  
Interspecific Divergence ◽  
Accepted Standard

The genus Hyponephele includes about 40 species distributed throughout the southern part of the Palaearctic area. Within this genus, the taxa of the H. lycaon – H. lupina species complex are similar with respect to the wing pattern and genitalia structure. Here we revise this group using analysis of butterfly morphology, DNA barcodes, and study of the type material. We show that, with a few exceptions, the species in this group are allopatric in distribution. Allopatry in combination with phenotypic similarity may be theoretically interpreted as evidence for the conspecifity of these taxa. Here we falsify this hypothesis by using DNA barcode analysis. We show that the species of this complex are genetically very distant and cannot be combined together as a polytypic species. We also demonstrate that H. lupina consists of two deeply diverged allopatric clades, H. lupina s. s. and H. mauritanica comb. & stat. nov. The barcode p-distance between these taxa (3.4-4.9%) is significantly higher than the generally accepted 'standard' minimum interspecific divergence (2.0-3.0% ) threshold. These two clades can also be distinguished by the color of the upperside of the wing in males (brown with conspicuous golden reflection in H. lupina ; dark brown without golden reflection in H. mauritanica) and by details in male genitalia and male androconia structures. Syntypes of Hyponephele sifanica, H. cheena cheena, H. cheena iskander, and H. cheena kashmirica are studied and figured.

scholarly journals Selection of suitable fragment from rbcL gene for DNA barcode analysis of family Halymeniaceae, Rhodophyta

2019 ◽  
Vol 19 (4A) ◽  
pp. 201-213
Author(s):  
Nguyen Xuan Vy ◽  
Nguyen Nhat Nhu Thu ◽  
Nguyen Trung Hieu ◽  
Nguyen Thi Xuan Thuy
Keyword(s):  
Phylogenetic Analysis ◽  
Phylogenetic Trees ◽  
Large Subunit ◽  
Dna Barcode ◽  
Full Length ◽  
Species Classification ◽  
Gene Encoding ◽  
Bisphosphate Carboxylase ◽  
Marine Algal ◽  
The Cost

Among the members of Halymeniaceae family, Grateloupia sensu lato occupies the largest composition in species. Classification based on morphological traits is difficult due to the highly variable terete to blade-like thalli among the members of this genus that usually leads to misidentification. Molecular systematics has been applied to classify Grateloupia sensu lato so that the taxonomists acquire a better understanding of the species diversity in general. The plastid gene encoding the large subunit of ribulose-1,5-bisphosphate-carboxylase-oxygenase (rbcL) was the focus of numerous marine algal studies concerning phylogeny and molecular evolution. However, using the full length of rbcL showed disadvantages such as cost and time consuming due to two times of sequencing and two times of PCR. In the present study, the shorter sequence, fragment 773 bp at 5’ end and fragment 579 bp at 3’ end of rbcL were applied and compared for the phylogenetic analysis of Halymeniaceae members. The results indicated there are no differences of topological phylogenetic trees, species resolution within genus and genus resolution within the family between fragment 773 bp at 5’ and the full length of rbcL. Therefore, we conclude that fragment 773 bp at 5’ should be used as DNA barcodes for the Halymeniaceae to reduce the cost and time during phylogenetic analysis. Two taxa Grateloupia newly collected in Vietnam were grouped to the known Phyllymenia, a new genus in Vietnam.

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