scholarly journals Species delimitation and life stage association of Propsilocerus Kieffer, 1923 (Diptera, Chironomidae) using DNA barcodes

ZooKeys ◽  
2020 ◽  
Vol 975 ◽  
pp. 79-86
Author(s):  
Hai-Jun Yu ◽  
Xiao-Long Lin ◽  
Rui-Lei Zhang ◽  
Qian Wang ◽  
Xin-Hua Wang
Keyword(s):  
Species Delimitation ◽  
Life Stage ◽  
Dna Barcodes ◽  
Neighbor Joining ◽  
Index Numbers ◽  
Nj Tree ◽  
Barcode Gap

The utility of COI DNA barcodes in species delimitation is explored as well as life stage associations of five closely related Propsilocerus species: Propsilocerus akamusi (Tokunaga, 1938), Propsilocerus paradoxus (Lundström, 1915), Propsilocerus saetheri Wang, Liu et Paasivirta, 2007, Propsilocerus sinicus Sæther et Wang, 1996, and Propsilocerus taihuensis (Wen, Zhou et Rong, 1994). Results revealed distinctly larger interspecific than intraspecific divergences and indicated a clear “barcode gap”. In total, 42 COI barcode sequences including 16 newly generated DNA barcodes were applied to seven Barcode Index Numbers (BINs). A neighbor-joining (NJ) tree comprises five well-separated clusters representing five morphospecies. Comments on how to distinguish the larvae of P. akamusi and P. taihuensis are provided.

scholarly journals Two New Records of Upeneus Spottocaudalis and U. Sundaicus (Perciformes: Mullidae) from the Northern South China Sea Based on the Morphology and DNA Barcoding

2021 ◽  
Author(s):  
Zhisen Luo ◽  
Murong Yi ◽  
Kangwen Qiu ◽  
Sibiao Liu ◽  
Sui Gu ◽  
...  
Keyword(s):  
South China Sea ◽  
South China ◽  
New Records ◽  
Northern South China Sea ◽  
Genetic Distances ◽  
Dna Barcodes ◽  
China Sea ◽  
Homologous Sequences ◽  
Nj Tree ◽  
Barcode Gap

Abstract In this study, two new records of goatfishes Upeneus spottocaudalis and U. sundaicus from the South China Sea, combing evidence from morphology and DNA barcodes for species identification. ML tree and NJ tree result showed that the sequences of U. spottocaudalis and U. sundaicus were clustered with the homologous sequences form GenBank, respectively, and the intraspecific genetic distances of U. spottocaudalis (0.2%) and U. sundaicus (0.3%) were less than 2%. Automatic Barcode Gap Discovery (ABGD) analysis also supported this result of classification.

scholarly journals A new species of Pima Hulst, 1888 from China (Lepidoptera, Pyralidae, Phycitinae), with a key to Holarctic species

ZooKeys ◽  
2020 ◽  
Vol 975 ◽  
pp. 111-124
Author(s):  
Linlin Yang ◽  
Yingdang Ren
Keyword(s):  
New Species ◽  
Species Delimitation ◽  
Dna Barcodes ◽  
Neighbor Joining ◽  
Distribution Map ◽  
Autonomous Region ◽  
Ningxia Hui Autonomous Region ◽  
Lepidoptera Pyralidae ◽  
A New Species ◽  
Holarctic Species

Pima tristriatasp. nov. is described as new to science based on specimens collected from the Ningxia Hui Autonomous Region, China, and P. boisduvaliella (Guenée, 1845) is also treated here for comparison. DNA barcodes of the two species are provided, together with a neighbor-joining tree for species delimitation. A key to the Holarctic species and a distribution map of the Chinese species are presented.

DNA barcodes for species delimitation in Chironomidae (Diptera): a case study on the genusLabrundinia

2013 ◽  
Vol 145 (6) ◽  
pp. 589-602 ◽  
Author(s):  
Fabio Laurindo da Silva ◽  
Torbjørn Ekrem ◽  
Alaide Aparecida Fonseca-Gessner
Keyword(s):  
Species Delimitation ◽  
Pupal Stage ◽  
Coi Gene ◽  
Life Stages ◽  
Dna Barcodes ◽  
Paulo State ◽  
Taxon Identification ◽  
Excellent Tool ◽  
Barcode Gap

AbstractIn this study, we analysed the applicability of DNA barcodes for delimitation of 79 specimens of 13 species of nonbiting midges in the subfamily Tanypodinae (Diptera: Chironomidae) from São Paulo State, Brazil. Our results support DNA barcoding as an excellent tool for species identification and for solving taxonomic conflicts in genusLabrundinia.Molecular analysis of cytochrome c oxidase subunit I (COI) gene sequences yielded taxon identification trees, supporting 13 cohesive species clusters, of which three similar groups were subsequently linked to morphological variation at the larval and pupal stage. Additionally, another cluster previously described by means of morphology was linked to molecular markers. We found a distinct barcode gap, and in some species substantial interspecific pairwise divergences (up to 19.3%) were observed, which permitted identification of all analysed species. The results also indicated that barcodes can be used to associate life stages of chironomids since COI was easily amplified and sequenced from different life stages with universal barcode primers.

DNA barcodes of Plecoptera from China: The preliminary dataset and its performance in species delimitation

Zootaxa ◽  
2020 ◽  
Vol 4751 (2) ◽  
pp. 345-356 ◽  
Author(s):  
ZHI-TENG CHEN ◽  
CHAO JIANG ◽  
YUAN-SEN-YU LI
Keyword(s):  
Species Identification ◽  
Species Delimitation ◽  
Population Genetic ◽  
Life Stage ◽  
Dna Barcode ◽  
Genetic Distances ◽  
Species Number ◽  
Dna Barcodes ◽  
Gene Trees ◽  
Genetic Studies

The DNA barcodes of Chinese Plecoptera project has a goal to promote species identification, life stage association, systematic, conservation, biodiversity, and population genetic studies for stoneflies of China. In this study, we sequenced and analyzed 19 DNA barcode sequences belonging to 19 stonefly species, increasing the Chinese barcoded stonefly species number to 53. Genetic distances were calculated and the gene trees constructed, suggesting the efficiency of delimiting Chinese stonefly species using DNA barcodes. 

COI mtDNA barcoding and morphology for species delimitation in the spider genus Ixchela Huber (Araneae: Pholcidae), with the description of two new species from Mexico

Zootaxa ◽  
2020 ◽  
Vol 4747 (1) ◽  
pp. 54-76
Author(s):  
ALEJANDRO VALDEZ-MONDRAGÓN
Keyword(s):  
New Species ◽  
Central America ◽  
Species Delimitation ◽  
Mitochondrial Cytochrome ◽  
Neighbor Joining ◽  
Molecular Analyses ◽  
North Eastern ◽  
Two New Species ◽  
Males And Females ◽  
Barcode Gap

The spider genus Ixchela Huber 2000, is comprised of 22 species distributed from north-eastern Mexico to Central America, including the two new species described herein from Mexico: Ixchela panchovillai sp. nov. and Ixchela zapatai sp. nov., both from the state of Oaxaca and described for both sexes. DNA barcoding utilizing mitochondrial cytochrome c oxidase subunit 1 (COI) and morphology were used for species delimitation. Molecular analyses and species delimitation included four methods: 1) corrected p-distances under neighbor-joining (NJ), 2) general mixed yule coalescent model (GMYC), 3) automatic barcode gap discovery (ABGD), and 4) Poisson tree processes (bPTP). All molecular methods and morphology were consistent in delimiting and recognizing the two new species describing herein. The average inter-specific genetic distance (p-distance) within the genus Ixchela is 12%. Ixchela panchovillai sp. nov. is closely related in the NJ analysis with I. placida, with an average p-distance of 7.9%, whereas I. zapatai sp. nov. is closely related to I. taxco, with an average p-distance of 8.4% between both species. Additionally, identification keys for males and females of the genus Ixchela are presented. 

Species delimitation and population structure in three Onosma (Boraginaceae) species

Biologia ◽  
2015 ◽  
Vol 70 (10) ◽  
Author(s):  
Masoud Sheidai ◽  
Samira Sadeghi ◽  
Mahnaz-Arab Ameri ◽  
Ahmad-Reza Mehrabeian
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Species Delimitation ◽  
Genetic Difference ◽  
Morphological Variability ◽  
Morphological Diversity ◽  
Mantel Test ◽  
Geographical Distance ◽  
Nj Tree ◽  
Issr Molecular Markers

AbstractThe present study aimed to reveal genetic diversity and population structure in three Onosma species i.e., Onosma bulbotrichum DC., O. elwendicum Wettst. and O. sericeum Willd. (Boraginaceae) growing in Iran. This study was performed to check if the ISSR molecular markers could be used in the Onosma species delimitation. We also investigated the infra-specific morphological variability and if we can identify infra-species taxonomic forms. The present study revealed within species genetic and morphological diversity. ISSR data could delimit the studied species as they were separated from each other in NJ tree, maximum parsimony and STRUCTURE analysis. AMOVA and Hickory tests produced significant genetic difference among the studied species. The Mantel test showed no correlation between genetic distance and geographical distance of the populations for all three species. Reticulation analysis and Nm estimation showed gene flow among these populations. We could identify a few ISSR loci that are adaptive. Data obtained can be used in conservation of these medicinal plants in Iran.

The phylogenetic analysis of Dalbergia (Fabaceae: Papilionaceae) based on different DNA barcodes

Holzforschung ◽  
2017 ◽  
Vol 71 (12) ◽  
pp. 939-949 ◽  
Author(s):  
Qiwei Li ◽  
Jihong Wu ◽  
Yesheng Wang ◽  
Xiaoming Lian ◽  
Feilong Wu ◽  
...  
Keyword(s):  
Internal Transcribed Spacer ◽  
Reliable Method ◽  
Dna Barcodes ◽  
Illegal Logging ◽  
Good Discrimination ◽  
Close Match ◽  
Discrimination Ability ◽  
Overall Performance ◽  
Resources Conservation ◽  
Barcode Gap

AbstractThe genusDalbergiacontains approximately 250 species with many valuable trees being destroyed by targeted and illegal logging. DNA barcoding is a reliable method for the molecular identification of different species and resources conservation. In the present study, the specimen discrimination ability of internal transcribed spacer (ITS),matK,rbcL andpsbA-trnH barcoding were tested onDalbergiasequences, downloaded from the National Center for Biotechnology Information (NCBI), and the combined barcoding ITS+matK+rbcL was used to identify unknown specimens. It was found that ITS+matK+rbcL have good discrimination rates based on the analysis methods best match (BM) and best close match (BCM). These barcodes also have the best performance concerning barcode gap distribution, and are able to discriminate unknown specimens from South-China. Furthermore, it was demonstrated thatD. tamarindifoliaandD. rubiginosaare also relatively close to sister-speciesD. pinnataandD. candenatensiswithin the phylogeneticDalbergiatree. Considering the overall performance of these barcodes, we suggest that the ITS+matK+rbcL region is a suitable barcode for identifyingDalbergiaspecies.

Phyllocnistis podocarpa sp. nov. (Lepidoptera, Gracillariidae), a buddhist pine leaf-miner from Japan: taxonomy, DNA barcodes, damage and parasitoids

Zootaxa ◽  
2018 ◽  
Vol 4422 (4) ◽  
pp. 558 ◽  
Author(s):  
TENGTENG LIU ◽  
JIE SUN ◽  
BO CAI ◽  
YING WU
Keyword(s):  
Economic Value ◽  
Iucn Red List ◽  
Red List ◽  
Leaf Miner ◽  
Dna Barcodes ◽  
Neighbor Joining ◽  
Parasitoid Species ◽  
Frontal Process ◽  
Podocarpus Macrophyllus ◽  
Garden Plant

Phyllocnistis podocarpa sp. nov., is described from mines in Podocarpus macrophyllus (Family Podocarpaceae). The host plant P. macrophyllus, also known as buddhist pine on the IUCN Red List, is a noticeable garden plant and thus of high economic value. Buddhist pine has been introduced to many other countries from its native habitat in southern Japan. Special attention has been paid for it during the overseas import in China. The morphology of the pupae of P. podocarpa, particularly the frontal process of the head and the spine clusters on terga, ones of the most useful diagnostic characters for species identification of Phyllocnistis on morphology, is demonstrated using SEM. Two parasitoid species of Eulophidae (Hymenoptera) are identified and illustrated. COI barcode sequences are provided along with a Neighbor Joining Tree covering related species for aiding identification. 

One new species of the genus Etielloides Shibuya, 1928 from China (Lepidoptera, Pyralidae, Phycitinae)

Zootaxa ◽  
2021 ◽  
Vol 4990 (2) ◽  
Author(s):  
LINLIN YANG ◽  
HONGXIA LIU ◽  
YINGDANG REN
Keyword(s):  
New Species ◽  
Related Species ◽  
Species Delimitation ◽  
Dna Barcodes ◽  
Lepidoptera Pyralidae ◽  
One New Species

One new species, Etielloides luniformis sp. nov. is described based on specimens collected from Mt. Leigong, Qiandongnan Miao and Dong Autonomous Prefecture, Guizhou of China. Adults, venation, head and genitalia structures of both sexes are described and illustrated, along with a key to all the known species of the genus Etielloides. DNA barcodes of the new species and its related species are provided for species delimitation.

Morphological and molecular characters reveal the status of Pedesta rubella (Devyatkin, 1996) stat. n. and P. similissima (Devyatkin, 2002) syn. n. (Lepidoptera, Hesperiidae)

Zootaxa ◽  
2020 ◽  
Vol 4743 (2) ◽  
pp. 217-231
Author(s):  
MENG LI ◽  
ALEXANDER L. MONASTYRKII ◽  
KIRILL A. KOLESNICHENKO ◽  
ZIHAO LIU ◽  
GUOXI XUE ◽  
...  
Keyword(s):  
Neighbor Joining ◽  
Distribution Map ◽  
Separate Species ◽  
Outgroup Species ◽  
Wing Patterns ◽  
The Status ◽  
Nj Tree ◽  
The Mean ◽  
Coi Sequences ◽  
Molecular Characters

To clarify the relationships of Pedesta submacula (Leech, 1890), P. submacula rubella (Devyatkin, 1996) and P. similissima (Devyatkin, 2002), specimens from various localities in China and Vietnam, including the type materials of P. submacula rubella and P. similissima were examined. A neighbor-joining (NJ) tree was also reconstructed based upon partial COI sequences of 24 ingroup specimens and 4 outgroup species. The result shows that P. similissima is a synonym of P. submacula, and P. submacula rubella belongs to a separate species. The mean Kimura-2-Parameter genetic distance between P. submacula and P. rubella stat. n. is 4.4%. Wing patterns and genitalic structures of these taxa are illustrated and compared. A distribution map of both species is provided. 

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