DNA barcoding and species delimitation of Chaitophorinae (Hemiptera, Aphididae)

Zhu, Xinming; Chen, Jing; Chen, Rui; Jiang, Li‐Yun; Qiao, Ge‐Xia

doi:10.3897/zookeys.656.11440

Cited by 27 publications

(22 citation statements)

References 77 publications

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“…According to our results, the choice of GMYC method of lineage‐based to delimit species was more efficient than distance method and clearly, for the morphospecies, the COI lineage‐based GMYC approach supports conclusions that would not always be supported by comparison of distance. Authors such Zhu, Chen, Chen, Jiang, and Qiao () and Yu, Rao, Matsui, and Yang () also compared distance‐based methods with GMYC approach in their datasets and concluded that GMYC method presented higher accuracy on delimiting species.…”

Section: Discussionmentioning

confidence: 99%

Diversity in the genusRhabdias(Nematoda, Rhabdiasidae): Evidence for cryptic speciation

et al. 2018

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Lungworms from the genus Rhabdias are common parasites of amphibians and reptiles distributed worldwide. To assess the diversity of Rhabdias spp., we performed molecular analyses of 35 specimens sampled in different regions of Brazil. Molecular analyses were based on the internal transcribed spacer (ITS), large subunit (28S) ribosomal and the cytochrome oxidase I (COI) mitochondrial genes. DNA sequence divergence was compared among ribosomal and mitochondrial genes, analyses using the general mixed Yule-coalescent (GMYC) method based on the COI gene were used to identify possible cryptic diversity, and phylogenetic analyses using concatenated ITS and 28S ribosomal genes were used to test the monophyly of Rhabdiasidae.We revealed five morphospecies: R. cf. stenocephala, R. breviensis, R. pseudosphaerocephala and two new species, Rhabdias sp.4 and Rhabdias sp.5. DNA sequence levels of divergence among genes ITS, 28S and COI were compared, and the efficiency of the molecular markers to identify species (ITS and COI) and lineages (COI) was tested. GMYC was assigned to 17 well-supported clades (i.e., 17 species), and cryptic diversity was detected in the Neotropical region as evidenced by the multiple lineages in R. breviensis and R. pseudosphaerocephala. In addition, our results suggest evidence for host-parasite cophylogeny in the R. pseudosphaerocephala complex and dispersal events among their populations. Phylogenetic analyses supported the monophyly of Rhabdiasidae and improved the resolution of main clades. Rhabdias breviensis is closely related to Rhabdias cf. africanus, Rhabdias cf. stenocephala, R. pseudosphaerocephala, Rhabdias sp.4 and Rhabdias sp.5 grouping together in a main clade with Neotropical-related species. The large geographical distribution appeared to be a phylogenetic pattern among the species of Rhabdias from the neotropics. 596 | MÜLLER Et aL.

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Section: Discussionmentioning

confidence: 99%

Diversity in the genusRhabdias(Nematoda, Rhabdiasidae): Evidence for cryptic speciation

et al. 2018

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“…In recent years, the usability of DNA barcoding in aphid species identification has been tested in several studies [12,[41][42][43][44][45]. In aphid species, researchers used DNA barcoding for exploring species diversity [45], identification of species with morphological ambiguity and detection of cryptic species [41,43,[46][47][48], and even phylogenetic relationships [49,50]. Most of the DNA barcode sequences from previous studies or barcoding projects of aphids have been submitted to publicly available databases such as GenBank and the Barcode of Life Data Systems [51].…”

Section: Introductionmentioning

confidence: 99%

DNA Barcoding Subtropical Aphids and Implications for Population Differentiation

Deng

Cui

et al. 2019

Insects

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DNA barcoding has proven its worth in species identification, discovering cryptic diversity, and inferring genetic divergence. However, reliable DNA barcode reference libraries that these applications depend on are not available for many taxonomic groups and geographical regions. Aphids are a group of plant sap sucking insects, including many notorious pests in agriculture and forestry. The aphid fauna of the subtropical region has been understudied. In this study, based on extensive sampling effort across main subtropical areas, we sequenced 1581 aphid specimens of 143 morphospecies, representing 75 genera, and 13 subfamilies, to build the first comprehensive DNA barcode library for subtropical aphids. We examined the utility of DNA barcodes in identifying aphid species and population differentiation and evaluated the ability of different species delimitation methods (automatic barcode gap discovery (ABGD), generalized mixed Yule-coalescent (GMYC), and Bayesian Poisson tree processes (bPTP)). We found that most aphid species demonstrated barcode gaps and that a threshold value of 2% genetic distance is suitable for distinguishing most species. Our results indicated that ten morphospecies may have species divergence related to factors such as host plant or geography. By using two pest species Aphis spiraecola and A. gossypii as examples, we also discussed the effect of the sampling scale of host plants on the results and reliability of DNA barcoding of phytophagous insects. This DNA barcode library will be valuable for future studies and applications.

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“…The mitochondrial cytochrome oxidase c subunit 1 (COI) gene is considered to be the most suitable molecular marker that determines genetic distances among aphid species (Komazaki et al, 2010;Lee et al, 2011;Shufran and Puterka, 2011;Rebijith et al, 2013;Coeur d' Acier et al, 2014;Rakauskas, 2014;Chen et al, 2016;Zhu et al, 2017).…”

Section: Resultsmentioning

confidence: 99%

“…The coding region of the COI gene was 605 bp, which included 40 variable sites, 565 conserved sites, 37 singletons, and 3 parsimonyinformative sites (219th, 300th, and 321st nucleotides). The sequences in all M. cerasi populations had an average nucleotide composition of 41.3% T, 33.9% A, 12.8% C, and 12.1% G. Commonly, the majority of the nucleotide composition in aphids is composed of adenine and thymine (Rebijith, 2013;Rakauskas et al, 2014;Zhu et al, 2017).…”

Section: Resultsmentioning

confidence: 99%

“…DNA barcoding technology has been widely used for identifying aphid species through BLAST sequence comparisons and has also taken part in pest management and plant quarantine (Komazaki et al, 2010;Lee et al, 2010;Shufran and Puterka, 2011;Chen et al, 2012;Rebijith et al, 2013;Coeur d' Acier et al, 2014;Rakauskas et al, 2014;Chen et al, 2016;Zhu et al, 2017). Based on the partial sequences of the mitochondrial cytochrome oxidase (COI) gene, M. cerasi samples form two major clades corresponding to two host-specific black cherry aphid taxa.…”

Section: Introductionmentioning

confidence: 99%

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DNA barcoding of black cherry aphid Myzus cerasi (Fabricus, 1775) (Hemiptera: Aphididae) populations collected from Prunus avium and Prunus cerasus

İnal¹,

Kandemi̇r²

2020

Turk J Zool

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Sequences of the mitochondrial cytochrome oxidase I (COI) gene of one Greek and 25 Turkish Myzus cerasi (Fabricus) (Hemiptera: Aphididae) populations collected from Prunus avium and Prunus cerasus were analyzed. The partial coding region of COI studied is 605 bp for all the populations, from which 565 nucleotides were conserved, 40 were variable, 37 were singleton, and 3 were parsimony-informative. Four haplotypes were identified based on nucleotide substitutions and the mean of intraspecific divergence was calculated to be 0.3%. Phylogenetic trees were constructed using maximum likelihood, neighbor joining, and minimum evolution. Myzus persicae (Sulzer) and Myzus borealis Ossiannilson were included as outgroups. The population of M. cerasi from Isparta diverged from the rest of the groups and formed a clade (Haplotype B) with Myzus borealis. The rest of the haplotype diversity included Haplotype A and Haplotype C with individuals characterized as Myzus cerasi pruniavium and Haplotype D with Myzus cerasi cerasi. M. cerasi diverged into two subspecies and it must be reevaluated whether this pest is monophagous or oligophagous in terms of plant type dependence. Further studies will be required for a complete barcoding and host-specific status of black cherry aphid.

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DNA barcoding and species delimitation of Chaitophorinae (Hemiptera, Aphididae)

Cited by 27 publications

References 77 publications

Diversity in the genusRhabdias(Nematoda, Rhabdiasidae): Evidence for cryptic speciation

Diversity in the genusRhabdias(Nematoda, Rhabdiasidae): Evidence for cryptic speciation

DNA Barcoding Subtropical Aphids and Implications for Population Differentiation

DNA barcoding of black cherry aphid Myzus cerasi (Fabricus, 1775) (Hemiptera: Aphididae) populations collected from Prunus avium and Prunus cerasus

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