A phylogenetic assessment of the polyphyletic nature and intraspecific color polymorphism in the Bactrocera dorsalis complex (Diptera, Tephritidae)

Leblanc, Luc; M, San Jose; Barr, Norman B.; Rubinoff, Daniel

doi:10.3897/zookeys.540.9786

Cited by 38 publications

(37 citation statements)

References 30 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…(; for clarity when referencing this synonymization, we use the presynonymization names in all supplementary trees), but otherwise find that most members of this complex are distinct and phylogenetically disparate from B. dorsalis sec . Leblanc, San Jose, Barr, and Rubinoff () and Schutze et al. ().…”

Section: Discussionmentioning

confidence: 99%

HiMAP: Robust phylogenomics from highly multiplexed amplicon sequencing

Dupuis

Bremer

Kauwe

et al. 2018

Molecular Ecology Resources

Self Cite

View full text Add to dashboard Cite

High-throughput sequencing has fundamentally changed how molecular phylogenetic data sets are assembled, and phylogenomic data sets commonly contain 50- to 100-fold more loci than those generated using traditional Sanger sequencing-based approaches. Here, we demonstrate a new approach for building phylogenomic data sets using single-tube, highly multiplexed amplicon sequencing, which we name HiMAP (highly multiplexed amplicon-based phylogenomics) and present bioinformatic pipelines for locus selection based on genomic and transcriptomic data resources and postsequencing consensus calling and alignment. This method is inexpensive and amenable to sequencing a large number (hundreds) of taxa simultaneously and requires minimal hands-on time at the bench (<1/2 day), and data analysis can be accomplished without the need for read mapping or assembly. We demonstrate this approach by sequencing 878 amplicons in single reactions for 82 species of tephritid fruit flies across seven genera (384 individuals), including some of the most economically important agricultural insect pests. The resulting filtered data set (>150,000-bp concatenated alignment, ~20% missing character sites across all individuals and amplicons) contained >40,000 phylogenetically informative characters, and although some discordance was observed between analyses, it provided unparalleled resolution of many phylogenetic relationships in this group. Most notably, we found high support for the generic status of Zeugodacus and the sister relationship between Dacus and Zeugodacus. We discuss HiMAP, with regard to its molecular and bioinformatic strengths, and the insight the resulting data set provides into relationships of this diverse insect group.

show abstract

Section: Discussionmentioning

confidence: 99%

HiMAP: Robust phylogenomics from highly multiplexed amplicon sequencing

Dupuis

Bremer

Kauwe

et al. 2018

Molecular Ecology Resources

Self Cite

View full text Add to dashboard Cite

show abstract

“…The largest and most intesively studied is the Bactrocera dorsalis complex with 88 species; the group that, incidentally, also holds the largest number of pest species. This complex, like most others, is not monophyletic (Leblanc et al 2015b, Virgilio et al 2015, San Jose et al 2018 in press) and there has been synonymy of several significant pest species, such as B. papayae Drew & Hancock, 1994, and B. invadens Drew, Tsuruta & White, 2005 with B. dorsalis (San Jose et al 2013, Schutze et al 2015a, 2015b). To facilitate communication and progress of our understanding of the group, a reliable taxonomic starting point is badly needed and will enable further studies into the taxonomy and systematics of the tribe.…”

Section: Introductionmentioning

confidence: 87%

“…Species included in the list are ordered alphabetically by genus. We do not indicate subgeneric or species complex ranks because their biological significance is, at present, unclear (Leblanc et al 2015b). We do, however, provide the checklist also in spreadsheet form in supplementary material (S1) where these ranks are included and users can sort the species to their preference.…”

Section: Methodsmentioning

confidence: 99%

“…Their body colors, various combinations of black and yellow to red, are commonly thought to have resulted from wasp mimicry and may be under selective pressure (White 2006). Diagnostic body color patterns used to separate species are further confounded by considerable intraspecific variation (Leblanc et al 2015b). The combination of these factors has resulted in a long history of unstable classification and even though molecular phylogenetic studies are now reaching a general consensus, this has not fully trickled down to the nomenclatural level.…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

A global checklist of the 932 fruit fly species in the tribe Dacini (Diptera, Tephritidae)

Doorenweerd¹,

Leblanc²,

Norrbom³

et al. 2018

Self Cite

View full text Add to dashboard Cite

The correct application of the scientific names of species is neither easy nor trivial. Mistakes can lead to the wrong interpretation of research results or, when pest species are involved, inappropriate regulations and limits on trade, and possibly quarantine failures that permit the invasion of new pest species. Names are particularly challenging to manage when groups of organisms encompass a large number of species, when different workers employ different philosophical views, or when species are in a state of taxonomic flux. The fruit fly tribe Dacini is a species-rich taxon within Tephritidae and contains around a fifth of all known species in the family. About 10% of the 932 currently recognized species are pests of commercial fruits and vegetables, precipitating quarantines and trade embargos. Authoritative species lists consist largely of scattered regional treatments and outdated online resources. The checklist presented here is the first global overview of valid species names for the Dacini in almost two decades, and includes new lure records. By publishing this list both in paper and digitally, we aim to provide a resource for those studying fruit flies as well as researchers studying components of their impact on agriculture. The list is largely a consolidation of previous works, but following the results from recent phylogenetic work, we transfer one subgenus and eight species to different genera: members of the Bactrocera subgenus Javadacus Hardy, considered to belong to the Zeugodacus group of subgenera, are transferred to genus Zeugodacus; Bactrocera pseudocucurbitae White, 1999, stat. rev., is transferred back to Bactrocera from Zeugodacus; Zeugodacus arisanicus Shiraki, 1933, stat. rev., is transferred back to Zeugodacus from Bactrocera; and Z. brevipunctatus (David & Hancock, 2017), comb. n.; Z. javanensis (Perkins, 1938), comb. n.; Z. montanus (Hardy, 1983), comb. n.; Z. papuaensis (Malloch, 1939), comb. n.; Z. scutellarius (Bezzi, 1916), comb. n.; Z. semisurstyli (Drew & Romig, 2013), comb. n.; and Z. trilineatus (Hardy, 1955), comb. n. are transferred from Bactrocera to Zeugodacus.

show abstract

“…Bactroceraadamantea belongs to the (polyphagous) B.dorsalis complex of notoriously difficult to identify species (Leblanc et al 2015c), defined by having a mostly dark scutum, a costal band that does not expand apically, and a black T shaped pattern on the abdomen. It can easily be differentiated from all congeners however by the yellow diamond shaped medial vitta on the scutum (Figure 12B).…”

Section: Resultsmentioning

confidence: 99%

Descriptions of four new species of Bactrocera and new country records highlight the high biodiversity of fruit flies in Vietnam (Diptera, Tephritidae, Dacinae)

Leblanc¹,

Doorenweerd²,

Jose³

et al. 2018

Self Cite

View full text Add to dashboard Cite

Recent snap-shot surveys for fruit flies in Vietnam in 2015 and 2017 using traps baited with the male Dacinae fruit fly lures methyl eugenol, cue-lure and zingerone, collected 56 species, including 11 new country records and another 11 undescribed species, four of which are described in this paper. This increases the number of described species known to occur in Vietnam from 78 to 93. Species accumulation curves, based on the Chao 2 mean estimate, suggest that we collected 60–85 % of the local fauna at the sites sampled, and that species diversity decreases with increasing latitude. The four new species are named: Bactrocera (Tetradacus) ernesti Leblanc & Doorenweerd sp. n., B. (Asiadacus) connecta Leblanc & Doorenweerd sp. n., B. (Parazeugodacus) clarifemur Leblanc & Doorenweerd sp. n., and B. (Bactrocera) adamantea Leblanc & Doorenweerd sp. n. In addition to morphological data COI DNA sequence data of both the COI-5P and COI-3P mitochondrial DNA gene regions is provided. Three of the four newly described species are morphologically and genetically easily distinguished from all other members of Dacini. Bactroceraclarifemursp. n. is superficially similar to B.pendleburyi (Perkins) based on morphology, but there are several apomorphic characters to distinguish the two. Both COI and a segment of the nuclear gene Elongation Factor 1 alpha separate the two species as well.

show abstract

A phylogenetic assessment of the polyphyletic nature and intraspecific color polymorphism in the Bactrocera dorsalis complex (Diptera, Tephritidae)

Cited by 38 publications

References 30 publications

HiMAP: Robust phylogenomics from highly multiplexed amplicon sequencing

HiMAP: Robust phylogenomics from highly multiplexed amplicon sequencing

A global checklist of the 932 fruit fly species in the tribe Dacini (Diptera, Tephritidae)

Descriptions of four new species of Bactrocera and new country records highlight the high biodiversity of fruit flies in Vietnam (Diptera, Tephritidae, Dacinae)

Contact Info

Product

Resources

About