Morphological description and DNA barcoding of Chaetocladius (Chaetocladius) elisabethae sp. nov. (Diptera: Chironomidae: Orthocladiinae) from the Moscow Region

Zootaxa ◽  
2018 ◽  
Vol 4403 (2) ◽  
pp. 378 ◽  
Author(s):  
EUGENYI A. MAKARCHENKO ◽  
MARINA A. MAKARCHENKO ◽  
ALEXANDER A. SEMENCHENKO ◽  
DMITRY M. PALATOV
Keyword(s):  
Dna Barcoding ◽  
Mitochondrial Gene ◽  
Interspecific Variation ◽  
Instar Larva ◽  
Molecular Data ◽  
Genetic Distances ◽  
Moscow Region ◽  
Morphological Description ◽  
Closely Related Species ◽  
Male Pupa

Illustrated descriptions of the adult male, pupa and fourth instar larva, as well as DNA barcoding results of Chaetocladius (Chaetocladius) elisabethae sp. nov. in comparison with closely related species of Chaetocladius s. str. from the Moscow Region are provided. A reference 658 bp barcode sequence from a fragment of the mitochondrial gene cytochrome oxidase I (COI) was used as a tool for species delimitation. Comparisons with corresponding regions of COI between C. (s. str.) elisabethae sp. nov. and other species of the subgenus produced K2P genetic distances of 0.11–0.16, values well associated with interspecific variation. The barcodes of the new species were identical to the Chaetocladius sp. 2ES in BOLD systems. Molecular data were also used for the reconstruction of the phylogenetic relationships within the subgenus Chaetocladius s. str. 

Morphological description and DNA barcoding of some Diamesinae (Diptera, Chironomidae) from the Severnaya Zemlya Archipelago and the Vaigach Island (Russian Arctic)

Zootaxa ◽  
2020 ◽  
Vol 4802 (3) ◽  
pp. 587-600
Author(s):  
ANDREY B. KRASHENINNIKOV ◽  
EUGENYI A. MAKARCHENKO ◽  
ALEXANDER A. SEMENCHENKO ◽  
MARIA V. GAVRILO ◽  
KRISTINA A. VSHIVKOVA
Keyword(s):  
Mitochondrial Gene ◽  
Interspecific Variation ◽  
Morphological Characters ◽  
Molecular Data ◽  
Genetic Distances ◽  
Morphological Description ◽  
Russian Arctic ◽  
Adult Males ◽  
Severnaya Zemlya ◽  
Severnaya Zemlya Archipelago

Chironomids of the Diamesinae subfamily from the Russian Arctic were studied using both morphological characters and molecular data. Adult males of Diamesa urvantsevi sp. nov., D. amplexivirilia Hansen, Arctodiamesa appendiculata (Lundström) from Severnaya Zemlya Archipelago and D. arctica (Boheman), Pseudokiefferiella sp. from Vaigach Island were described, redescribed, annotated and figured. A reference 658 bp barcode sequence from a fragment of the mitochondrial gene cytochrome oxidase I (COI) was used as a tool for species delimitation. For D. arctica (Boheman) and Pseudokiefferiella sp. close DNA barcodes from Norway were performed, which allowed to relate these specimens to the described species. Comparisons with corresponding regions of COI between each described species and close related congeneric species produced K2P genetic distances of 0.11–0.16, values well associated with interspecific variation. Phylogenetic relationships for genera Arctodiamesa Makarchenko and Pseudokiefferiella Zavřel were reconstructed for the first time. 

Morphological description and DNA barcoding of Hydrobaenus golovinensis sp. nov. (Diptera: Chironomidae: Orthocladiinae) from the Russian Far East

Zootaxa ◽  
2017 ◽  
Vol 4286 (2) ◽  
pp. 277
Author(s):  
EUGENYI A. MAKARCHENKO ◽  
MARINA A. MAKARCHENKO ◽  
ALEXANDER A. SEMENCHENKO ◽  
OLEG A. VELIAEV
Keyword(s):  
Dna Barcoding ◽  
Russian Far East ◽  
Far East ◽  
Instar Larva ◽  
Genetic Distances ◽  
Coi Gene ◽  
Morphological Description ◽  
Mitochondrial Coi ◽  
Mitochondrial Coi Gene ◽  
The Russian Far East

Illustrated descriptions of adult male, pupa and fourth instar larva, as well as DNA barcoding results of Hydrobaenus golovinensis sp. nov. in comparison with closely related species H. majus Makarchenko et Makarchenko and H. sikhotealinensis Makarchenko et Makarchenko from the Russian Far East are provided. Partial mitochondrial COI gene (DNA barcoding) of the new species has been sequenced and uploaded to GenBank. Comparisons with corresponding regions of COI between H. golovinensis and other species in the genus produce K2P genetic distances of 10.3–14.3%, the values well above those associated with intraspecific variation. In contrast, genetic distances among 18 specimens are all within the range of 0–3.5%. The ML tree is also constructed using DNA barcodes obtained in the present study and those of other species of Hydrobaenus Fries from GenBank. 

Morphological description and DNA barcoding of Hydrobaenus laticaudus Sæther, 1976 (Diptera: Chironomidae: Orthocladiinae) from Amur River basin (Russian Far East)

Zootaxa ◽  
2019 ◽  
Vol 4674 (2) ◽  
pp. 225-234
Author(s):  
EUGENYI A.  MAKARCHENKO ◽  
MARINA A. MAKARCHENKO ◽  
ALEXANDER A. SEMENCHENKO
Keyword(s):  
Dna Barcoding ◽  
Mitochondrial Gene ◽  
Russian Far East ◽  
Far East ◽  
Sequence Divergence ◽  
Instar Larva ◽  
Morphological Description ◽  
Amur River Basin ◽  
Amur River ◽  
First Time

Illustrated redescription of adult male and description for the first time of pupa and fourth instar larva, as well as DNA barcoding, of Hydrobaenus laticaudus Sæther in comparison with close related known species of Hydrobaenus Fries, and an updated part of a key to species of Hydrobaenus from the Russian Far East are provided. A reference 658 bp barcode sequence from a fragment of the mitochondrial gene cytochrome oxidase I (COI) was used as a tool for species delimitation. For the estimation of interspecific distances and constructing detailed Bayesian tree within Hydrobaenus, we have obtained DNA barcoding for the two other species, H. distinctus and Hydrobaenus sp.1. The intraspecific sequence divergence of H. laticaudus based on the Kimura-2-parameter (K2P) distance ranged from 0.0–0.031, whereas the interspecific sequence divergence based on the K2P distance ranged from 0.106-0.197% between H. laticaudus and other species of genus Hydrobaenus. The well-supported monophyly as well as results of an ABGD analysis confirms the validity of H. laticaudus. 

Description of new apterous winter species of Leuctra (Plecoptera: Leuctridae) based morphology and DNA barcoding and further records to stonefly fauna of the Caucasus, Georgia 

Zootaxa ◽  
2019 ◽  
Vol 4585 (3) ◽  
pp. 547
Author(s):  
VALENTINA A. TESLENKO ◽  
DMITRY M. PALATOV ◽  
ALEXANDER A. SEMENCHENKO
Keyword(s):  
New Species ◽  
Dna Barcoding ◽  
Interspecific Variation ◽  
Genetic Distances ◽  
Dna Barcodes ◽  
The Caucasus ◽  
Diagnostic Characters ◽  
Males And Females ◽  
Lesser Caucasus ◽  
First Time

Leuctra adjariae sp. n. and Leuctra georgiae sp. n. (Plecoptera: Leuctridae) are described as two new apterous stonefly species from the Meskheti Range (Lesser Caucasus) in southwestern Georgia. Descriptions and illustrations are provided for both sexes and diagnostic characters are discussed. Males and females of the two species are associated by DNA barcodes. Comparisons with corresponding regions of COI between L. adjariae sp. n. and L. georgiae sp. n. produced K2P genetic distances of 8.38%, values well associated with interspecific variation. The well-supported monophyly as well as results of an ABGD analysis confirms the validity of both new species. Capnioneura gouanerae Vinçon & Sivec, 2011, previously described and known only from Turkey, is reported for the first time for the Caucasus. 

scholarly journals DNA barcoding cannot reliably identify species of the blowfly genus Protocalliphora (Diptera: Calliphoridae)

2007 ◽  
Vol 274 (1619) ◽  
pp. 1731-1739 ◽  
Author(s):  
T.L Whitworth ◽  
R.D Dawson ◽  
H Magalon ◽  
E Baudry
Keyword(s):  
New Species ◽  
Dna Barcoding ◽  
Mitochondrial Gene ◽  
Introgressive Hybridization ◽  
Species Number ◽  
Closely Related Species ◽  
Endosymbiotic Bacteria ◽  
Limited Success ◽  
Mtdna Introgression ◽  
Mtdna Haplotype

In DNA barcoding, a short standardized DNA sequence is used to assign unknown individuals to species and aid in the discovery of new species. A fragment of the mitochondrial gene cytochrome c oxidase subunit 1 is emerging as the standard barcode region for animals. However, patterns of mitochondrial variability can be confounded by the spread of maternally transmitted bacteria that cosegregate with mitochondria. Here, we investigated the performance of barcoding in a sample comprising 12 species of the blow fly genus Protocalliphora , known to be infected with the endosymbiotic bacteria Wolbachia . We found that the barcoding approach showed very limited success: assignment of unknown individuals to species is impossible for 60% of the species, while using the technique to identify new species would underestimate the species number in the genus by 75%. This very low success of the barcoding approach is due to the non-monophyly of many of the species at the mitochondrial level. We even observed individuals from four different species with identical barcodes, which is, to our knowledge, the most extensive case of mtDNA haplotype sharing yet described. The pattern of Wolbachia infection strongly suggests that the lack of within-species monophyly results from introgressive hybridization associated with Wolbachia infection. Given that Wolbachia is known to infect between 15 and 75% of insect species, we conclude that identification at the species level based on mitochondrial sequence might not be possible for many insects. However, given that Wolbachia -associated mtDNA introgression is probably limited to very closely related species, identification at the genus level should remain possible.

Descriptions of two new species of Hemileucinae (Lepidoptera: Saturniidae) from the region of Muzo in Colombia—evidence from morphology and DNA barcodes

Zootaxa ◽  
2008 ◽  
Vol 1944 (1) ◽  
pp. 34-52 ◽  
Author(s):  
THIBAUD DECAËNS ◽  
RODOLPHE ROUGERIE
Keyword(s):  
New Species ◽  
Dna Barcoding ◽  
Male Genitalia ◽  
Mitochondrial Gene ◽  
Detailed Examination ◽  
Species Group ◽  
Genetic Distances ◽  
Ground Colour ◽  
Two New Species ◽  
Additional Support

Two new species of Hemileucinae are described from the region of Muzo (Boyaca department) in the Eastern Cordillera of Colombia. Leucanella bonillensis, new species, is a small greyish species whose closest relatives are L. newmani (Lemaire) and L. acutissima (Walker). It can be distinguished from those two species by several subtle differences in wing pattern and coloration as well as a few characters of the male genitalia, which are overall very conserved within the genus. Cerodirphia zulemae, new species, belongs to the very uniform species-group of C. speciosa (Cramer), characterised by a pink ground colour and the presence of a “Y”-shaped discal mark on the forewing. Based on its male genitalia, the new species is related to C. brunnea (Draudt) and C. apunctata Dias & Lemaire. It may be distinguished from the former by its more vivid ground colour, but detailed examination of the male genitalia are necessary to differentiate it from C. apunctata. Colour pictures of the habitus of the new species and their relatives are provided, and their genital structures are figured as well, including both sexes for C. zulemae. We also provide additional support to these descriptions based on genetic data obtained in the context of a global DNA barcoding campaign recently initiated for saturniid moths. Both L. bonillensis and C. zulemae are unambiguously distinguished from closest relatives based on genetic distances (no intraspecific distances in either case; interspecific distance ranges 5.6–6.6% and 6.7–12.5%, respectively) and inference of phylogenetic hypotheses based on partial sequences of the COI mitochondrial gene. These results emphasize the potential of DNA barcoding to support taxonomic work in species-groups considered difficult to address through morphology.

scholarly journals Toward a comprehensive COI DNA barcode library for Swiss Stoneflies (Insecta: Plecoptera) with special emphasis on the genus Leuctra

Zoosymposia ◽  
2016 ◽  
Vol 11 ◽  
pp. 135-155 ◽  
Author(s):  
JEAN-LUC GATTOLLIAT ◽  
GILLES VINÇON ◽  
SOFIA WYLER ◽  
JAN PAWLOWSKI ◽  
MICHEL SARTORI
Keyword(s):  
Mitochondrial Gene ◽  
Dna Barcode ◽  
Pcr Amplification ◽  
Species Group ◽  
Genetic Distances ◽  
Gene Trees ◽  
Closely Related Species ◽  
Additional Tool ◽  
Non Destructive ◽  
Level Identification

The Swiss Barcode of Life initiative (SwissBOL) aims to inventory the genetic biodiversity in Switzerland using a short DNA sequence. DNA barcoding provides an additional tool for species identification that complements traditional morphological approaches. We report on the establishment of a DNA barcode library for Plecoptera, taxa that are of great importance as bioindicators of water quality and that often present difficulties in species-level identification for larvae and female specimens. Non-destructive DNA extraction, PCR amplification and sequencing of part of the mitochondrial gene Cytochrome Oxidase I (COI) was conducted for 440 individuals (one to eight per species) belonging to 90 species (of the 112 reported from Switzerland). Intra and interspecific distances were calculated and gene trees reconstructed. In most cases, COI was efficient in delimiting stonefly species. Some doubtful specimens were subsequently re-examined and a few misidentifications were found, especially in some problematic groups in the genus Leuctra Stephens, 1836. Larger genetic distances in some species (e.g. Leuctra nigra (Olivier 1811)) indicate the possible presence of sibling species, while in a few cases closely related species are genetically difficult to separate (within the Leuctra fusca species group).

Review of the genus Shilovia Makarchenko (Diptera: Chironomidae: Diamesinae: Boreoheptagyiini) from the mountains of Central Asia, with morphological description and DNA barcoding of known species

Zootaxa ◽  
2020 ◽  
Vol 4895 (2) ◽  
pp. 196-210
Author(s):  
EUGENYI A.  MAKARCHENKO ◽  
ALEXANDER A. SEMENCHENKO ◽  
DMITRY M. PALATOV
Keyword(s):  
Central Asia ◽  
Dna Barcoding ◽  
Morphological Study ◽  
Morphological Characters ◽  
Molecular Data ◽  
Morphological Description ◽  
Autonomous Region ◽  
Bayesian Inferences ◽  
East Kazakhstan ◽  
Coi Sequences

Chironomids of the genus Shilovia Makarchenko (Diamesinae, Boreoheptagyiini) from the mountains of Central Asia are revised using both morphological characters and molecular data. Illustrated descriptions of the adult male Shilovia xinhuawangi sp. nov. from Xinjiang Uygur Autonomous Region of China, S. yakovlevi sp. nov. from East Kazakhstan and redescription of S. rara Makarchenko from Tajikistan and Kyrgyzstan are provided. The result of morphological study is congruent with DNA barcoding analyses using COI sequences. The average K2P interspecific nucleotide distances within S. xinhuawangi sp. nov. and S. yakovlevi sp. nov. are 0.03% and 0.3% respectively. The nucleotide distances between the two new species and S. rara can be considered interspecific. Phylogenetic analysis using Maximum likelihood (ML) and Bayesian inferences (BI) support the placement of S. xinhuawangi sp. nov. and S. yakovlevi sp. nov. within the monophyletic genus Shilovia. 

New or little-known species of Chaetocladius s. str. Kieffer, 1911 (Diptera: Chironomidae: Orthocladiinae) from the Amur River basin (Russian Far East)

Zootaxa ◽  
2017 ◽  
Vol 4247 (3) ◽  
pp. 313 ◽  
Author(s):  
EUGENYI A. MAKARCHENKO ◽  
MARINA A. MAKARCHENKO ◽  
ALEXANDER A. SEMENCHENKO
Keyword(s):  
River Basin ◽  
Mitochondrial Gene ◽  
Russian Far East ◽  
Far East ◽  
Interspecific Variation ◽  
Molecular Data ◽  
Amur River Basin ◽  
Adult Males ◽  
Amur River ◽  
The Amur River

Chironomids of the subgenus Chaetocladius s. str. from the Amur River basin are revised using both morphological characters and molecular data. Three new species, C. egorych sp. nov., C. lopatinskiy sp. nov. and C. yavorskayae sp. nov., are described and figured. The pupa of C. fedotkin is described for the first time. Adult males of C. ligni and C. piger, little-known in the Far East, are redescribed and annotated, and key to males of the Chaetocladius s. str. from the Amur River basin is provided. A reference 658 bp barcode sequence from a fragment of the mitochondrial gene cytochrome oxidase I (COI) was used as a tool for species delimitation. Comparisons with corresponding regions of COI between 5 species in the subgenus produced K2P genetic distances of 8.3–12.6%, values well associated with interspecific variation. Molecular data were also used for the reconstruction of the phylogenetic relationships within the subgenus Chaetocladius s. str. 

scholarly journals DNA Barcoding of Penaeidae (Decapoda; Crustacea): Non-Distance-Based Species Delimitation of the Most Economically Important Shrimp Family

Diversity ◽  
2021 ◽  
Vol 13 (10) ◽  
pp. 460
Author(s):  
Jorge L. Ramirez ◽  
Luisa Simbine ◽  
Carla G. Marques ◽  
Eliana Zelada-Mázmela ◽  
Lorenzo E. Reyes-Flores ◽  
...  
Keyword(s):  
Dna Barcoding ◽  
Species Delimitation ◽  
Mitochondrial Gene ◽  
Single Gene ◽  
Penaeid Shrimp ◽  
Genetic Distances ◽  
Structured Populations ◽  
Nominal Species ◽  
Data Set ◽  
Shrimp Fishery

The Penaeidae family includes some of the most economic and ecological important marine shrimp, comprising hundreds of species. Despite this importance and diversity, the taxonomic classification for penaeid shrimp has constantly been revised, and issues related to the species identification are common. In this study, we implemented DNA barcoding analyses in addition to single-gene species delimitation analyses in order to identify molecular operational taxonomy units (MOTUs) and to generate robust molecular information for penaeid shrimp based on the cytochrome oxidase subunit I (COI) mitochondrial gene. Our final data set includes COI sequences from 112 taxa distributed in 23 genera of penaeids. We employed the general mixed Yule coalescent (GMYC) model, the Poisson tree processes (PTP), and the Bayesian PTP model (bPTP) for MOTUs delimitation. Intraspecific and interspecific genetic distances were also calculated. Our findings evidenced a high level of hidden diversity, showing 143 MOTUs, with 27 nominal species not agreeing with the genetic delimitation obtained here. These data represent potential new species or highly structured populations, showing the importance of including a non-distance-based species delimitation approach in biodiversity studies. The results raised by this study shed light on the Penaeidae biodiversity, addressing important issues about taxonomy and mislabeling in databases and contributing to a better comprehension of the group, which can certainly help management policies for shrimp fishery activity in addition to conservation programs.

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