Genome-wide analysis of ATP-binding cassette (ABC) transporters in the sweetpotato whitefly, Bemisia tabaci

Liu, Tian; Song, Tianxue; He, Rongjun; Zeng, Yang; Xie, Wen; Wu, Qingjun; Wang, Shaoli; Zhou, Xuguo; Zhang, Youjun

doi:10.1186/s12864-017-3706-6

Cited by 63 publications

(62 citation statements)

References 108 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…Forty-five and 50 putative ABC and CCE genes were annotated in the F. occidentalis genome, respectively ( Additional file 2: Table S15 and S16 ). The number of F. occidentalis ABC genes is on the lower side among those reported for other insect species ( Additional file 1: Section 7.2, Table S7.3 , [87, 88]), including Bemisia tabaci of the Hemiptera, the sister-group of the Thysanoptera [89]. Nevertheless, we did identify a lineage-specific expansion of ABCH genes within the F. occidentalis genome ( Additional file 1: Section 7.2, Figure S7.6 ).…”

Section: Plant Feedingmentioning

confidence: 95%

Genome-enabled insights into the biology of thrips as crop pests

Rotenberg

Baumann

Ben-Mahmoud

et al. 2020

Preprint

View full text Add to dashboard Cite

54Background: The western flower thrips, Frankliniella occidentalis (Pergande), is a globally 55 invasive pest and plant virus vector on a wide array of food, fiber and ornamental crops. While 56 there are numerous studies centered on thrips pest and vector biology, feeding behaviors, ecology, 57 and insecticide resistance, the underlying genetic mechanisms of the processes governing these 58 areas of research are largely unknown. To address this gap, we present the F. occidentalis draft 59 genome assembly and official gene set. 60Results: We report on the first genome sequence for any member of the insect order Thysanoptera. 61 Benchmarking Universal Single-Copy Ortholog (BUSCO) assessments of the genome assembly 62 (size = 415.8 Mb, scaffold N50 = 948.9 Kb) revealed a relatively complete and well-annotated 63 assembly in comparison to other insect genomes. The genome is unusually GC-rich (50%) 64 compared to other insect genomes to date. The official gene set (OGS v1.0) contains 16,859 genes, 65 of which ~10% were manually verified and corrected by our consortium. We focused on manual 66 annotation, phylogenetic and expression evidence analyses for gene sets centered on primary 67 themes in the life histories and activities of plant-colonizing insects. Highlights include: 1) 68 divergent clades and large expansions in genes associated with environmental sensing 69 (chemosensory receptors) and detoxification (CYP4, CYP6 and CCE enzymes) of substances 70 encountered in agricultural environments; 2) a comprehensive set of salivary gland-associated 71 genes supported by enriched expression; 3) apparent absence of members of the IMD innate 72 3 immune defense pathway; and 4) developmental-and sex-specific expression analyses of genes 73 associated with progression from larvae to adulthood through neometaboly, a distinct form of 74 maturation compared to complete metamorphosis in the Holometabola. 75 Conclusions: Analysis of the F. occidentalis genome offers insights into the polyphagous behavior 76 of this insect pest to find, colonize and survive on a widely diverse array of plants. The genomic 77 resources presented here enable a more complete analysis of insect evolution and biology, 78 providing a missing taxon for contemporary insect genomics-based analyses. Our study also offers 79 a genomic benchmark for molecular and evolutionary investigations of other thysanopteran 80 species. 81 KEY WORDS 82 Thysanoptera, western flower thrips, hemipteroid assemblage, insect genomics, tospovirus, 83 virus-vector interactions, salivary glands, chemosensory receptors, opsins, detoxification, innate 84 immunity 85 86 BACKGROUND 87Thrips are small, polyphagous and cosmopolitan insects that comprise the order Thysanoptera. 88Thysanoptera lies within the Paraneoptera, also commonly called the "hemipteroid assemblage" 89 which also includes the orders Hemiptera, Psocoptera, and Phthiraptera. Among the over 7,000 90 reported thrips species classified into nine families with an additional five identified from fossil 91 species [1]...

show abstract

Section: Plant Feedingmentioning

confidence: 95%

Genome-enabled insights into the biology of thrips as crop pests

Rotenberg

Baumann

Ben-Mahmoud

et al. 2020

Preprint

View full text Add to dashboard Cite

show abstract

“…In recent years, ABC transporters have become a major focus for research in arthropods. This is in part due to their overall role in xenobiotic transport and insecticide resistance [25,[47][48][49][50], but more specifically, due to their suspected role in susceptibility to Bt toxins [38,51,52]. For example, Gahan et al [53] reported genetic linkage of Heliothis virescens HvABCC2 with resistance to Cry1Ac, while changes in the structure, splicing, or expression level of ABCC2 orthologs were later associated with Cry1Ac resistance in Helicoverpa armigera [54], Bombyx mori [55], and Spodoptera exigua [56].…”

Section: Discussionmentioning

confidence: 99%

Structural and functional insights into the Diabrotica virgifera virgifera ATP-binding cassette transporter gene family

Adedipe

Grubbs

Coates

et al. 2019

Preprint

View full text Add to dashboard Cite

Background The western corn rootworm, Diabrotica virgifera virgifera , is a pervasive pest of cultivated maize in North America and Europe, which has adapted to survive exposure to multiple insecticidal agents. Due to their role in insecticide transport, we sought to identify members of the ATP-binding cassette (ABC) transporter family in D. v. virgifera using a transcriptomics approach.Results In this study, 65 putative D. v. virgifera ABC ( Dvv ABC) transporters were identified within a combined transcriptome assembly generated from embryonic, larval, adult male, and adult female RNA-sequence libraries. Phylogenetic analysis placed the deduced amino-acid sequences of the Dvv ABC transporters into eight subfamilies (A to H). Of these, eight shared structural and functional conservation with Tribolium castaneum ABC transporter orthologs known to exhibit overt RNA interference (RNAi) knockdown phenotypes. Interestingly, depletion of DvvABCB_19147 and DvvABCG_3712 transcripts in adult females produced detrimental reproductive and developmental phenotypes (egg-laying or -hatching defects), demonstrating the potential of these genes as targets for RNAi-mediated insect control tactics.Conclusions By combining sequence data from four libraries covering three distinct life stages, we have produced a relatively comprehensive de novo transcriptome assembly for D. v. virgifera . Moreover, we have identified 65 members of the ABC transporter family, and provided the first insights into the developmental and physiological roles of ABC transporters in this pest species.

show abstract

“…RNA was quantified using a NanoDrop 2000 (Thermo Scientific, Wilmington, DE, USA), and purity was checked on 1% agarose gels. RNA‐seq libraries were constructed; the reads per kilobase per million mapped read values were calculated as previously described (He et al ., ; Tian et al ., ).…”

Section: Methodsmentioning

confidence: 97%

“…The candidate B. tabaci SDGs were confirmed using the blastx algorithm against the nonredundant protein sequence (NR) database of GenBank. The exon–intron boundary and start–stop codons of each SDG were identified from the genome and transcriptome dataset assembled from SRP064690 (He et al ., ; Tian et al ., ; Yang et al ., ). The deduced protein domains were determined using the NCBI Conserved Domain Search Service.…”

Section: Methodsmentioning

confidence: 99%

Genome‐wide dissection of sex determination genes in the highly invasive whitefly species Bemisia tabaci Q/MED

Liu

Xie

Guo

et al. 2019

Insect Molecular Biology

Self Cite

View full text Add to dashboard Cite

Sex determination genes are important regulators of reproduction as well as of the development of both behavioural and morphological sex characteristics. The sweetpotato whitefly, Bemisia tabaci (Gennadius) (Hemiptera: Aleyrodidae), is an emerging insect pest worldwide. The recent release of the genome sequence of the highly invasive B. tabaciQ/MED allows us to investigate the mechanisms and genes involved in sex determination. The combined genome and transcriptome‐wide analyses identified 26 genes putatively associated with sex determination in B. tabaciQ/MED. The temporal profiles of these genes exhibited a consistent expression pattern at all B. tabaci developmental stages: the highest transcript levels were detected in eggs (21 genes, 80.8%) and the lowest in adults (24 genes, 92.3%). The expression pattern was further validated by quantitative real‐time reverse transcription PCR analysis. Alternative splicing analysis found that (1) da and mle have sex‐specific isoforms in B. tabaci adults, whereas Imp does not, and (2) exon skipping is a common splicing mechanism involved in B. tabaci sex determination. This research provides a comprehensive list of genes involved in B. tabaci sex determination and provides an opportunity to further understand the mechanisms underlying sex determination in a globally invasive insect pest that reproduces both sexually and asexually.

show abstract

Genome-wide analysis of ATP-binding cassette (ABC) transporters in the sweetpotato whitefly, Bemisia tabaci

Cited by 63 publications

References 108 publications

Genome-enabled insights into the biology of thrips as crop pests

Genome-enabled insights into the biology of thrips as crop pests

Structural and functional insights into the Diabrotica virgifera virgifera ATP-binding cassette transporter gene family

Genome‐wide dissection of sex determination genes in the highly invasive whitefly species Bemisia tabaci Q/MED

Contact Info

Product

Resources

About