Assessment of Variation Among Thrips tabaci Populations from Georgia and Peru Based on Polymorphisms in Mitochondrial Cytochrome Oxidase I and Ribosomal ITS2 Sequences

Srinivasan, Rajagopalbabu; FuZhen, Guo; Riley, David G.; Diffie, Stan; Gitaitis, R. D.; Sparks, Alton N.; Jeyaprakash, Ayyamperumal

doi:10.18474/0749-8004-46.3.191

Cited by 8 publications

(13 citation statements)

References 33 publications

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“…The elevated ITS2 intragenomic variation found in S. dorsalis and T. palmi appears to have two principle consequences, both apparently diminishing utility for molecular characterization: 1) elevated intragenomic variation leads to uncertainty about the “true” or “dominant” sequence of an individual ( Figure 1 and Figure 2 ), elevated intragenomic variation confounds inter-individual relationships ( Figure 2 a,b), and, as such, may impact population level comparisons within a species. This is consistent with the inference of Srinivasan et al [ 51 ] that ITS2 might not be suitable for such comparisons in a different thrips species, T. tabaci , due to the high diversity found within each geographic region.…”

Section: Discussionsupporting

confidence: 92%

Unexpected High Intragenomic Variation in Two of Three Major Pest Thrips Species Does Not Affect Ribosomal Internal Transcribed Spacer 2 (ITS2) Utility for Thrips Identification

Kumar

Dickey

Seal

et al. 2017

IJMS

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Abstract:The mitochondrial cytochrome oxidase I gene (mtCO1) and the ribosomal internal transcribed spacer 2 region (ITS2) are among the most widely used molecular markers for insect taxonomic characterization. Three economically important species of thrips, Scirtothrips dorsalis, Thrips palmi, and Frankliniella occidentalis were selected to examine the extent of intragenomic variation within these two marker regions in the family Thripidae, and determine if this variation would affect the utility of markers in thrips molecular diagnostics. For each species, intragenomic (within individual) variation and intergenomic (among individuals) variation was assessed by cloning and sequencing PCR-amplified copies. Intergenomic variation was generally higher than intragenomic variation except in cases where intergenomic variation was very low, as in mtCO1 from S. dorsalis and F. occidentalis. Intragenomic variation was detected in both markers in all three of the thrips species, however, 2-3 times more intragenomic variation was observed for ITS2 than mtCO1 in both S. dorsalis and T. palmi. Furthermore, levels of intragenomic variation were low for both of the genes in F. occidentalis. In all of the three thrips species, no sex-based clustering of haplotypes was observed in either marker. Unexpected high intragenomic variation in ITS2 for two of three thrips species did not interfere with thrips diagnostics. However, caution should be taken in applying ITS2 to certain studies of S. dorsalis and T. palmi when high levels of intragenomic variation could be problematic or confounding. In such studies, mtCO1 may be a preferable marker. Possible reasons for discrepancies in intragenomic variation among genomic regions are discussed.

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Section: Discussionsupporting

confidence: 92%

Unexpected High Intragenomic Variation in Two of Three Major Pest Thrips Species Does Not Affect Ribosomal Internal Transcribed Spacer 2 (ITS2) Utility for Thrips Identification

Kumar

Dickey

Seal

et al. 2017

IJMS

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“…Since Brunner et al’s [7] phylogenic analysis that identified three major genetic lineages for T. tabaci (i.e., Leek 1, Leek 2 and Tobacco strains), numerous similar analyses from around the world have followed [4] , [6] , [16] , [17] , [28] . All T. tabaci in our study were from a single leek clade that included individuals collected from an array of hosts representing seven plant families and multiple locations spanning five continents (clade number 2 in Figure 3 ).…”

Section: Discussionmentioning

confidence: 99%

“…Knowledge about T. tabaci population genetics is important for developing management strategies, especially those that mitigate insecticide resistance. Mitochondrial DNA markers have been successfully used to identify genetic differentiation among T. tabaci populations [4] – [7] , [16] , [17] . In our study, molecular markers from the mitochondrial cytochrome oxidase subunit I (COI) gene were used to analyze T. tabaci populations collected from onion and cabbage fields in New York to examine 1) the differentiation between T. tabaci populations from these crops and how they relate to conspecifics from other reproductive modes, hosts and locations, and 2) seasonal changes in T. tabaci population genetic structure from onion and cabbage cropping systems.…”

Section: Introductionmentioning

confidence: 99%

Seasonal Changes in Thrips tabaci Population Structure in Two Cultivated Hosts

2014

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Thrips tabaci is a major pest of high-value vegetable crops and understanding its population genetics will advance our knowledge about its ecology and management. Mitochondrial cytochrome oxidase subunit I (COI) gene sequence was used as a molecular marker to analyze T. tabaci populations from onion and cabbage fields in New York. Eight COI haplotypes were identified in 565 T. tabaci individuals collected from these fields. All T. tabaci were thelytokous and genetically similar to those originating from hosts representing seven plant families spanning five continents. The most dominant haplotype was NY-HT1, accounting for 92 and 88% of the total individuals collected from onion fields in mid-summer in 2005 and 2007, respectively, and 100 and 96% of the total in early fall in 2005 and 2007, respectively. In contrast, T. tabaci collected from cabbage fields showed a dynamic change in population structure from mid-summer to early fall. In mid-summer, haplotype NY-HT2 was highly abundant, accounting for 58 and 52% of the total in 2005 and 2007, respectively, but in early fall it decreased drastically to 15 and 7% of the total in 2005 and 2007, respectively. Haplotype NY-HT1 accounted for 12 and 46% of the total in cabbage fields in mid-summer of 2005 and 2007, respectively, but became the dominant haplotype in early fall accounting for 81 and 66% of the total in 2005 and 2007, respectively. Despite the relative proximity of onion and cabbage fields in the western New York landscape, T. tabaci populations differed seasonally within each cropping system. Differences may have been attributed to better establishment of certain genotypes on specific hosts or differing colonization patterns within these cropping systems. Future studies investigating temporal changes in T. tabaci populations on their major hosts in these ecosystems are needed to better understand host-plant utilization and implications for population management.

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“…It is likely that a new biotype of the onion thrips established in this region . Genetic analyses of T. tabaci from the Vidalia region in recent years do not exclude Peru as a possible source of its introduction (Srinivasan et al 2011). The competition studies conducted with the T. tabaci collected from Peruvian onion cull piles indicate that this species has the potential to successfully compete with the F. fusca under warm conditions (25 °C).…”

Section: Commercial Onion Surveymentioning

confidence: 99%

Thrips Species Composition on Onions in the Vidalia Production Region of Georgia

Sparks

Diffie

Riley

2011

Journal of Entomological Science

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Assessment of Variation Among Thrips tabaci Populations from Georgia and Peru Based on Polymorphisms in Mitochondrial Cytochrome Oxidase I and Ribosomal ITS2 Sequences

Cited by 8 publications

References 33 publications

Unexpected High Intragenomic Variation in Two of Three Major Pest Thrips Species Does Not Affect Ribosomal Internal Transcribed Spacer 2 (ITS2) Utility for Thrips Identification

Unexpected High Intragenomic Variation in Two of Three Major Pest Thrips Species Does Not Affect Ribosomal Internal Transcribed Spacer 2 (ITS2) Utility for Thrips Identification

Seasonal Changes in Thrips tabaci Population Structure in Two Cultivated Hosts

Thrips Species Composition on Onions in the Vidalia Production Region of Georgia

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