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      DNA barcoding of selected Scirtothrips species (Thysanoptera) from India

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          Abstract

          The members of the genus Scirtothrips are highly polyphagous, including major pest and vector species. We applied both morphology and molecular approaches to delimit the selected Scirtothrips species from India. Out of 43 generated barcode sequences, six sequences of three species ( S. hitam, S. mangiferae, and S. malayensis) are the novel contribution in global database. The Bayesian (BA) phylogeny clearly distinguishes all the studied species with reciprocal monophyletic criteria and represents multiple clades in S. dorsalis and S. oligochaetus. The high Kimura-2-Parameter (K2P) genetic divergences were observed between the multiple clades of S. dorsalis (4.5–8.8%) and S. oligochaetus (6.4%), which indicating possible existence of cryptic diversity. The current study also provided the morphological keys for six Scirtothrips species including S. hitam as a new record to India.

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          MEGA6: Molecular Evolutionary Genetics Analysis version 6.0.

          Koichiro Tamura, Glen Stecher, Daniel Walter Peterson … (2013)
          We announce the release of an advanced version of the Molecular Evolutionary Genetics Analysis (MEGA) software, which currently contains facilities for building sequence alignments, inferring phylogenetic histories, and conducting molecular evolutionary analysis. In version 6.0, MEGA now enables the inference of timetrees, as it implements the RelTime method for estimating divergence times for all branching points in a phylogeny. A new Timetree Wizard in MEGA6 facilitates this timetree inference by providing a graphical user interface (GUI) to specify the phylogeny and calibration constraints step-by-step. This version also contains enhanced algorithms to search for the optimal trees under evolutionary criteria and implements a more advanced memory management that can double the size of sequence data sets to which MEGA can be applied. Both GUI and command-line versions of MEGA6 can be downloaded from www.megasoftware.net free of charge.
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            MrBayes 3: Bayesian phylogenetic inference under mixed models.

            Fredrik Ronquist, John P. Huelsenbeck (2003)
            MrBayes 3 performs Bayesian phylogenetic analysis combining information from different data partitions or subsets evolving under different stochastic evolutionary models. This allows the user to analyze heterogeneous data sets consisting of different data types-e.g. morphological, nucleotide, and protein-and to explore a wide variety of structured models mixing partition-unique and shared parameters. The program employs MPI to parallelize Metropolis coupling on Macintosh or UNIX clusters.
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              Ten species in one: DNA barcoding reveals cryptic species in the neotropical skipper butterfly Astraptes fulgerator.

              Paul Hebert, Erin H Penton, John M Burns … (2004)
              Astraptes fulgerator, first described in 1775, is a common and widely distributed neotropical skipper butterfly (Lepidoptera: Hesperiidae). We combine 25 years of natural history observations in northwestern Costa Rica with morphological study and DNA barcoding of museum specimens to show that A. fulgerator is a complex of at least 10 species in this region. Largely sympatric, these taxa have mostly different caterpillar food plants, mostly distinctive caterpillars, and somewhat different ecosystem preferences but only subtly differing adults with no genitalic divergence. Our results add to the evidence that cryptic species are prevalent in tropical regions, a critical issue in efforts to document global species richness. They also illustrate the value of DNA barcoding, especially when coupled with traditional taxonomic tools, in disclosing hidden diversity.
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                Author and article information

                Journal
                Journal ID (nlm-ta): Mitochondrial DNA B Resour
                Journal ID (iso-abbrev): Mitochondrial DNA B Resour
                Title: Mitochondrial DNA. Part B, Resources
                Publisher: Taylor & Francis
                ISSN (Electronic): 2380-2359
                Publication date (Electronic, pub): 24 July 2019
                Publication date (Electronic, collection): 2019
                Volume: 4
                Issue: 2
                Pages: 2710-2714
                Affiliations
                [a ]Centre for DNA Taxonomy, Molecular Systematics Division, Zoological Survey of India , New Alipore, India;
                [b ]School of Biotechnology, Kalinga Institute of Industrial Technology (KIIT), Deemed to be University , Bhubaneswar, India
                Author notes
                CONTACT Kaomud Tyagi kumud.tyagi5@ 123456gmail.com Centre for DNA Taxonomy, Molecular Systematics Division, Zoological Survey of India , New Alipore, Kolkata700053, India
                Author information
                https://orcid.org/0000-0002-0215-0120
                https://orcid.org/0000-0002-5488-4433
                https://orcid.org/0000-0001-9076-5442
                Article
                Publisher ID: 1644547
                DOI: 10.1080/23802359.2019.1644547
                PMC ID: 7706545
                SO-VID: b7ed1d49-d34f-4c48-a4a6-b942257ac581
                Copyright © © 2019 Zoological Survey of India. Published by Informa UK Limited, trading as Taylor & Francis Group.
                License:

                This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial License ( http://creativecommons.org/licenses/by-nc/4.0/), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

                History
                Page count
                Figures: 1, Tables: 1, Pages: 5, Words: 3001
                Categories
                Subject: Research Article
                Subject: Mito Communication

                Keywords: scirtothrips,taxonomic keys,dna barcoding,cryptic diversity,india
                Data availability:
                Keywords: scirtothrips, taxonomic keys, dna barcoding, cryptic diversity, india

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