Standard Percent DNA Sequence Difference for Insects Does Not Predict Species Boundaries

Cognato, Anthony I.

doi:10.1093/jee/99.4.1037

Cited by 157 publications

(130 citation statements)

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“…The reliability of such procedure depends on an effective distinction between intra-and interspecific variation, which is missing for several of the taxa studied, as indicated by significant juxtaposition of sequences (Meyer & Paulay 2005, Cognato 2006, Meier et al 2006, Whitworth et al 2007). This issue weakens the argument that DNA barcoding can effectively achieve one of its goals, that of accelerating the discovery http://www.biotaneotropica.org.br http://www.biotaneotropica.org.br/v10n2/en/abstract?thematic-review+bn03110022010…”

Section: Criticisms On the Foundations And Technical Aspects Of A Dnamentioning

confidence: 99%

DNA barcoding and traditional taxonomy unified through Integrative Taxonomy: a view that challenges the debate questioning both methodologies

Pires

Marinoni

2010

Biota Neotrop.

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PIRES, A.C. & MARINONI, L. DNA barcoding and traditional taxonomy unified through Integrative Taxonomy: a view that challenges the debate questioning both methodologies. Biota Neotrop. 10(2): http:// www.biotaneotropica.org.br/v10n2/en/abstract?thematic-review+bn03110022010. Abstract:The taxonomic crisis, emphasized in recent years, is marked by the lack of popularity (lack of interest in taxonomy) and financial incentives to study biodiversity. This situation, coupled with the issues involved with the necessity of knowing many yet undiscovered species, has meant that new technologies, including the use of DNA, have emerged to revitalize taxonomy. Part of the scientific community, however, has rejected the use of these innovative ideas. DNA barcoding has especially been the target of numerous criticisms regarding its application, as opposed to the use of morphology. This paper aims to highlight the inconsistency of the debate involving DNA versus morphology, since there is a proposal for the integration of traditional taxonomy and DNA barcoding -the integrative taxonomy. The positive and negative points of this proposal will be discussed, as well as its validity and application. From it, the importance of morphology is recognized and the revitalization of traditional taxonomy is achieved by the addition of technologies to overcome the taxonomic impediment. Resumo: A crise taxonômica, em destaque nos últimos anos, é marcada pela falta de popularidade (desinteresse pela formação taxonômica) e incentivos financeiros direcionados ao estudo da biodiversidade. Esta situação somada às questões envolvidas com a necessidade de se conhecer as inúmeras espécies ainda desconhecidas tem feito com que novas tecnologias, dentre elas o uso do DNA, tenham surgido como propostas para revitalização da taxonomia. Uma parte da comunidade científica, entretanto, tem rejeitado o uso dessas idéias inovadoras. O DNA barcoding, principalmente, tem sido alvo de inúmeras críticas quanto à sua aplicação em contraposição ao uso da morfologia. O presente artigo visa destacar a inconsistência do debate DNA versus morfologia, pela existência de uma proposta que corresponde à união entre a taxonomia tradicional e o DNA barcoding -a taxonomia integrativa. Os pontos favoráveis e desfavoráveis dessa proposta serão discutidos assim como a sua validade e aplicação. Com ela, a importância da morfologia é reconhecida e ao mesmo tempo tem-se a revitalização da taxonomia tradicional pela aderência das tecnologias incitadas para transposição do impedimento taxonômico. Palavras-chave: biodiversidade, COI, espécie, impedimento taxonômico, morfologia.

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Section: Criticisms On the Foundations And Technical Aspects Of A Dnamentioning

confidence: 99%

DNA barcoding and traditional taxonomy unified through Integrative Taxonomy: a view that challenges the debate questioning both methodologies

Pires

Marinoni

2010

Biota Neotrop.

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“…Johnson & Price 2006;Price & Johnson 2006a,b;Price et al 2008a,b,c;Price & Johnson 2009;Valim et al 2011;Valim & Weckstein 2013;Sychra et al 2014a,b). Therefore, we need to resolve taxonomic limits in the genetic data as well, considering that in some cases it is extremely difficult to find species boundaries with DNA data (see Cognato 2006).…”

Section: Introductionmentioning

confidence: 99%

Where are the species limits? Morphology versus genetics in Neotropical chewing lice of the genus Myrsidea (Phthiraptera: Menoponidae), with description of three new species

Kolencik

Sychra

Papoušek

et al. 2017

Zootaxa

898

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Eleven species of lice of the genus Myrsidea Waterston, 1915 (Phthiraptera: Menoponidae) from passerine birds (Passeriformes: Cardinalidae, Fringillidae, Thraupidae) in the Neotropical Region are recorded and discussed. They include three new species with hosts in the family Thraupidae from Paraguay, which are described and illustrated: Myrsidea flaveolae new species ex Sicalis flaveola, Myrsidea habiae new species ex Habia rubica, and Myrsidea sayacae new species ex Thraupis sayaca. Five other previously known Myrsidea species are included with new data on intraspecific morphological variability, hosts associations and geographical distribution, as follows: Myrsidea coronatae, M. lightae, M. rufi, M. seminuda, and M. violaceae. Three further species are recorded at genus level only due to lack of adequate material. A 379 bp portion of the mitochondrial cytochrome oxidase I (COI) gene was sequenced in order to assess relative genetic divergence among Myrsidea populations. The application of intra-and interspecific sequence divergences as predictor of species boundaries in the taxonomy of this megadiverse genus is discussed.

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“…Coalescent theory predicts that both intraspecific sequence diversity and the probability of shared barcode sequences among discrete biological species will be 130 sensitive to population demography, particularly species age and past effective population size (Moritz & Cicero 2004;Meyer & Paulay 2005;Hickerson et al 2006;Nielsen & Matz 2006;Knowles & Carstens 2007). Young species with large effective population sizes are predicted not to be monophyletic for their barcode sequence, and where past population sizes vary substantially within a group of taxa, a single threshold divergence is unlikely to separate 135 6 intraspecific variation from varation among species -in other words, there may be no barcoding gap (Funk & Omland 2003;DeSalle et al, 2005;Meyer & Paulay, 2005;Cognato 2006; Vogler & Monaghan, 2006;Rubinoff, 2006). Heteroplasmy, introgression (with or without selective sweeps imposed by Wolbachia and other symbionts), potential selection on nucleotides, and the existence of nuclear pseudogenes can all lead to conflicts between 140 species membership and grouping by DNA barcode Hurst & Jiggins, 2005).…”

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confidence: 99%

Phylogeny and DNA barcoding of inquiline oak gallwasps (Hymenoptera: Cynipidae) of the Western Palaearctic

Ács

Challis

Bihari

et al. 2010

Molecular Phylogenetics and Evolution

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The NERC and CEH trade marks and logos ('the Trademarks') are registered trademarks of NERC in the UK and other countries, and may not be used without the prior written consent of the Trademark owner. We examine phylogenetic relationships within the Synergus complex of herbivorous 50 inquiline gallwasps associated with (Hymenoptera; Cynipidae; Synergini) associated with cynipid host galls on oak, a biologically diverse group whose genus-level morphological taxonomy has long been considered stable but whose species level taxonomy is problematic.We incorporate data for over 80% of recognised Western Palaearctic species in 5 morphology-based genera (Ceroptres, Saphonecrus, Synergus, Synophrus, Ufo), comprising 55 sequence for two mitochondrial two mitochondrial loci (coxI, cytb) and one nuclear locus (28S D2). In particular, we assess the evidence for monophyly of two long-established, morphology-defined sections within the genus Synergus that differ in a range of biological traits between-generation polymorphism and impact on the host gall inducer (lethal versus non-lethal). To aid analyses of ecological interactions within oak cynipid communities, we 60 also consider the utility of cytochrome oxidase I (coxI) DNA barcodes in the oak inquilines.In this assessment, we do not assume that species are delineated at a single threshold value of sequence divergence for a single gene, but examine concordance in the composition of molecular operational Taxonomic units (MOTUs) across a range of sequence divergences in each gene and across genes. We also assess the impact of sampling effort on MOTU stability. 65Phylogenetic reconstructions for all three loci support monophyly for Synergus and Synophrus, but reject monophyly for Saphonecrus and for the two sections within Synergus.The suites of traits associated with the two sections of the genus Synergus are thus homoplasious. All three loci also reject monophyly for three Synergus species (S. hayneanus, S. pallipes, S. umbraculus). Sequences for each locus identify robust MOTUs that are largely 70 concordant across loci for a range of cut-off values. Though many MOTU's correspond to recognised Linnean species, there is significant, multigene disagreement between groupings supported by morphology and sequence data, with both allocation of different morphospecies to the same MOTU and allocation of the same morphospecies to multiple MOTUs, regardless 3 of cutoff value. Our results imply that while DNA barcoding has considerable utility within 75 this group, morphology-based identification needs major revision at both genus and species levels. Further, lifehistory traits currently attributed to single morphospecies probably confound attributes of multiple lineages. Revealing patterns of character state evolution in Synergus requires collection of new host association and life history data explicitly linked to DNA barcode data for the specimens concerned. 80

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Standard Percent DNA Sequence Difference for Insects Does Not Predict Species Boundaries

Cited by 157 publications

References 9 publications

DNA barcoding and traditional taxonomy unified through Integrative Taxonomy: a view that challenges the debate questioning both methodologies

DNA barcoding and traditional taxonomy unified through Integrative Taxonomy: a view that challenges the debate questioning both methodologies

Where are the species limits? Morphology versus genetics in Neotropical chewing lice of the genus Myrsidea (Phthiraptera: Menoponidae), with description of three new species

Phylogeny and DNA barcoding of inquiline oak gallwasps (Hymenoptera: Cynipidae) of the Western Palaearctic

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