Mitochondrial COI Gene Sequence Analyses of Puntius ticto and Compared with Seven Species of Genus Puntius of Family Cyprinidae: A Finding for Phylogenetic Positioning and DNA Barcoding as Model Study for Cryptic Species

2017 ◽  
Vol 10 (9) ◽  
Author(s):  
RK Garg ◽  
Nidhi Dubey ◽  
N Batav ◽  
Pooja Pandey ◽  
RK Singh
Keyword(s):  
Cryptic Species ◽  
Dna Barcoding ◽  
Gene Sequence ◽  
Coi Gene ◽  
Sequence Analyses ◽  
Mitochondrial Coi ◽  
Model Study ◽  
Mitochondrial Coi Gene

scholarly journals Italian Odonates in the Pandora’s Box: A Comprehensive DNA Barcoding Inventory Shows Taxonomic Warnings at the Holarctic Scale

2020 ◽  
Author(s):  
Andrea Galimberti ◽  
Giacomo Assandri ◽  
Davide Maggioni ◽  
Fausto Ramazzotti ◽  
Daniele Baroni ◽  
...  
Keyword(s):  
Cryptic Species ◽  
Dna Barcoding ◽  
Genetic Divergence ◽  
Species Delimitation ◽  
Coi Gene ◽  
Dna Barcodes ◽  
Mitochondrial Coi ◽  
Haplotype Networks ◽  
Mitochondrial Coi Gene

AbstractThe Odonata are considered among the most endangered freshwater faunal taxa. Their DNA-based monitoring relies on validated reference datasets that are often lacking or do not cover important biogeographical centres of diversification. This study presents the results of a DNA barcoding campaign on Odonata, based on the standard 658 bp 5’ end region of the mitochondrial COI gene, involving the collection of 812 specimens (409 of which barcoded) from peninsular Italy and its main islands (328 localities), belonging to all the 88 species (31 Zygoptera and 57 Anisoptera) known from the country. Additional BOLD and GenBank data from Holarctic samples expanded the dataset to 1294 DNA barcodes. A multi-approach species delimitation analysis involving two distance (OT and ABGD) and four tree-based (PTP, MPTP, GMYC, bGMYC) methods were used to explore these data. Of the 88 investigated morphospecies, 75 (85%) unequivocally corresponded to distinct Molecular Operational Units, whereas the remaining ones were classified as ‘warnings’ (i.e., showing a mismatch between morphospecies assignment and DNA-based species delimitation). These results are in contrast with other DNA barcoding studies on Odonata showing up to 95% of identification success. The species causing warnings were grouped in three categories depending on if they showed low, high, or mixed genetic divergence patterns. The analysis of haplotype networks revealed unexpected intraspecific complexity at the Italian, Palearctic, and Holarctic scale, possibly indicating the occurrence of cryptic species. Overall, this study provides new insights into the taxonomy of odonates and a valuable basis for future DNA and eDNA-based monitoring studies.

DNA barcoding and phylogenetic analysis of bagrid catfish in China based on mitochondrial COI gene

2020 ◽  
Vol 31 (2) ◽  
pp. 73-80
Author(s):  
Rui Zou ◽  
Cong Liang ◽  
Mengmeng Dai ◽  
Xiaodong Wang ◽  
Xiuyue Zhang ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Dna Barcoding ◽  
Coi Gene ◽  
Mitochondrial Coi ◽  
Mitochondrial Coi Gene

DNA barcodes for Cladocera and Copepoda from Mexico and Guatemala, highlights and new discoveries

Zootaxa ◽  
2008 ◽  
Vol 1839 (1) ◽  
pp. 1 ◽  
Author(s):  
MANUEL ELÍAS-GUTIÉRREZ ◽  
FERNANDO MARTÍNEZ JERÓNIMO ◽  
NATALIA V. IVANOVA ◽  
MARTHA VALDEZ-MORENO ◽  
PAUL D. N. HEBERT
Keyword(s):  
Dna Barcoding ◽  
Classification Systems ◽  
Coi Gene ◽  
Aquatic Environments ◽  
Dna Barcodes ◽  
Chydorus Sphaericus ◽  
Mitochondrial Coi ◽  
Mitochondrial Coi Gene ◽  
Current Classification ◽  
Excellent Tool

DNA barcoding, based on sequence diversity in the mitochondrial COI gene, has proven an excellent tool for identifying species in many animal groups. Here, we report the first barcode studies for freshwater zooplankton from Mexico and Guatemala and discuss the taxonomic and biological implications of this work. Our studies examined 61 species of Cladocera and 21 of Copepoda, about 40% of the known fauna in this region. Sequence divergences among conspecific individuals of cladocerans and copepods averaged 0.82% and 0.79%, respectively, while sequence divergences among congeneric taxa were on average 15-20 times as high. Barcodes were successful in discriminating all species in our study, but sequences for Mexican Daphnia exilis overlapped with those of D. spinulata from Argentina. Our barcode data revealed evidence of many species overlooked by current classification systems —for example, based on COI genotypes the Diapahanosoma birgei group appears to include 5 species, while Ceriodaphnia cf. rigaudi, Moina cf. micrura, Mastigodiaptomus albuquerquensis and Mastigodiaptomus reidae all include 2–3 taxa. The barcode results support recent taxonomic revisions, such as recognition of the genus Leberis, and the presence of several species in the D. birgei and Chydorus sphaericus complexes. The present results indicate that DNA barcoding will provide powerful new insights into both the incidence of cryptic species and a better understanding of zooplankton distributions, aiding evaluation of the factors influencing competitive outcomes, and the colonization of aquatic environments.

Classification of Pelteobagrus fish in Poyang Lake based on mitochondrial COI gene sequence

2015 ◽  
Vol 27 (6) ◽  
pp. 4635-4637
Author(s):  
Bin Zhong ◽  
Ting-Ting Chen ◽  
Rui-Yue Gong ◽  
Zhe-Xia Zhao ◽  
Binhua Wang ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Poyang Lake ◽  
Coi Gene ◽  
Mitochondrial Coi ◽  
Mitochondrial Coi Gene

Molecular analysis reveals a new cryptic species in a limpet Lottia kogamogai (Patellogastropoda: Lottiidae) from Japan

Zootaxa ◽  
2017 ◽  
Vol 4277 (2) ◽  
pp. 237 ◽  
Author(s):  
RYO NAKAYAMA ◽  
TAKENORI SASAKI ◽  
TOMOYUKI NAKANO
Keyword(s):  
New Species ◽  
Cryptic Species ◽  
Intraspecific Variation ◽  
Molecular Analysis ◽  
Coi Gene ◽  
Northern Population ◽  
Mitochondrial Coi ◽  
Mitochondrial Coi Gene ◽  
Shell Sculpture

A group of small lottiid species in Japan, the Lottia kogamogai complex, was phylogenetically analyzed based on the mitochondrial COI gene. As a result, L. kogamogai is subdivided into two geographic clades. Lottia kogamogai s.s. is limited to southern temperate Japan. The northern population formerly considered an intraspecific variation of the species is shown to be a distinct new species, here described as Lottia goshimai n. sp. The new species is distinguishable from L. kogamogai not only genetically, but in radular morphology and shell sculpture. 

scholarly journals RETRACTED ARTICLE: DNA barcoding identification of Pseudococcidae (Hemiptera: Coccoidea) using the mitochondrial COI gene

2018 ◽  
Vol 3 (1) ◽  
pp. 419-423 ◽  
Author(s):  
Sizhu Zheng ◽  
Yang Li ◽  
Xiaojun Yang ◽  
Jingyun Chen ◽  
Jing Hua ◽  
...  
Keyword(s):  
Dna Barcoding ◽  
Coi Gene ◽  
Mitochondrial Coi ◽  
Mitochondrial Coi Gene ◽  
Retracted Article

scholarly journals First record of Zaprionus indianus (Gupta, 1970) (Diptera Drosophilidae) from Bangladesh

2011 ◽  
Vol 11 (3) ◽  
pp. 757-760
Author(s):  
Sadniman Rahman ◽  
Deponkor Kumar Roy ◽  
Mohammad Shamimul Alam
Keyword(s):  
Gene Sequence ◽  
First Record ◽  
Coi Gene ◽  
Zaprionus Indianus ◽  
Mitochondrial Coi ◽  
Mitochondrial Coi Gene

Zaprionus indianus (Gupta, 1970) (Diptera Drosophilidae), also known as African fig fly, isconsidered as the primary pest only to fig fruits along with secondary pest to other fruits. Its oc-currence has been reported from many countries but not previously reported from Bangladesh.With this note, we report here the first observation of Z. indianus from Bangladesh. Fly sampleswere collected by using yeast-banana traps. The species was identified by morphological char-acteristics and mitochondrial COI gene sequence.

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