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Identification of odorant receptor protein genes in two Cephid stem borers (Hymenoptera: Cephidae) by high-throughput sequencing

Year 2023, , 307 - 316, 09.10.2023
https://doi.org/10.16970/entoted.1337346

Abstract

Insects are well adapted organisms to the terrestrial life on Earth. The evolution of the odorant receptor family is one of the causes underpinning this remarkable adaptation. Odorant receptors (ORs) sense aromas in the environment and cause the insect to respond. The ability of phytophagous insects to detect odor signals from their hosts is crucial for mating, oviposition, and feeding. The family of odorant receptor genes in Cephidae, pest on some economically important plants, is little understood. Bioinformatic tools were used to analyze the genomic data of the two pest species, Syrista parreyssii (Spinola, 1843) (Hymenoptera: Cephidae) (a rose pest) and Pachycephus smyrnensis J.P.E.F. Stein, 1876 (Hymenoptera: Cephidae), (a poppy pest), to determine their odorant receptors. The whole genome sequencing of P. smyrnensis collected in Sivas in 2020 was performed by next generation sequencing and short reads of S. parreyssii genome were obtained from previous studies. Following bioinformatic analyses, 67 and 82 putative odorant receptor genes were identified and annotated for P. smyrnensis and S. parreyssii, respectively. The ORs of these two species were found to be organized as repetitive genes in five separate clusters. No species-specific OR genes were identified in any of the investigated species. As a result, it was hypothesized that host specificity was acquired through the combined effect of multiple ORs.

Supporting Institution

Sivas Cumhuriyet University

Project Number

F-508

Thanks

This study is supported by the Scientific Research Project Fund of Sivas Cumhuriyet University under the project number F-508. The numerical calculations reported in this paper were partially performed at TÜBITAK ULAKBIM, High Performance and Grid Computing Center (TRUBA resources).

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İki Cephid sap arısında (Hymenoptera: Cephidae) koku reseptör protein genlerinin yüksek verimli dizileme ile tanımlanması

Year 2023, , 307 - 316, 09.10.2023
https://doi.org/10.16970/entoted.1337346

Abstract

Böcekler, Dünya'daki karasal yaşama iyi uyum sağlamış organizmalardır. Koku reseptör ailesinin evrimi, bu olağanüstü adaptasyonun altında yatan nedenlerden biridir. Koku reseptörleri (OR'ler) çevredeki aromaları algılar ve böceğin tepki vermesine neden olur. Fitofag böceklerin konukçularından gelen koku sinyallerini algılama yeteneği çiftleşme, yumurtlama ve beslenme için çok önemlidir. Ekonomik açıdan önemli bazı bitkilerde zararlı olan Cephidae'deki koku reseptör genleri ailesi çok az anlaşılmıştır. Biyoinformatik araçlar, iki zararlı türün, Syrista parreyssi (Spinola, 1843) (Hymenoptera: Cephidae) (bir gül zararlısı) ve Pachycephus smyrnensis J.P.E.F. Stein, 1876 (Hymenoptera: Cephidae), (bir haşhaş zararlısı), koku reseptörlerini belirlemek amacıyla genomik verilerini analiz etmek için kullanılmıştır. Sivas'ta 2020 yılında toplanan P. smyrnensis tüm genom dizilemesi yeni nesil dizileme ile yapılmış ve S. parreyssii genomuna ait kısa okumalar ise önceki çalışmalardan elde edilmiştir. Analizler sonucunda P. smyrnensis'ten 67 olası koku reseptörü geni ve S. parreyssii'den 82 olası koku reseptörü geni tanımlandı ve açıklandı. Bu iki türün OR'lerinin beş ayrı kümede tekrarlayan genler olarak organize olduğu bulunmuştur. İncelenen türlerin hiçbirinde türe özgü OR genleri tespit edilmemiştir. Sonuç olarak, konakçı özgüllüğünün birden fazla OR'nin birleşik etkisi yoluyla kazanıldığı varsayılmıştır.

Project Number

F-508

References

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  • Chak, S. T. C., S. E. Harris, K. M. Hultgren, N. W. Jeffery & D. R. Rubenstein, 2021. Eusociality in snapping shrimps is associated with larger genomes and an accumulation of transposable elements. Proceedings of the National Academy of Sciences of the United States of America, 118 (24): e2025051118.
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  • Clyne, P. J., G. C. Warr, M. R. Freeman, D. Lessing, J. Kim & J. R. Carlson, 1999. A novel family of divergent deven-transmembrane proteins: candidate odorant receptors in Drosophila. Neuron, 22 (2): 327-338.
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  • Eyun, S., H. Y. Soh, M. Posavi, J. B. Munro, D. S. T. Hughes, S. C. Murali, J. Qu, S. Dugan, S.L. Lee, H. Chao, H. Dinh, Y. Han, H. Doddapaneni, K. C. Worley, D. M. Muzny, E. Park, J. C. Silva, R. A. Gibbs, S. Richards & C. E. Lee, 2017. Evolutionary history of chemosensory-related gene families across the Arthropoda. Molecular Biology and Evolution, 34 (8): 1838-1862.
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  • Ganley, A. R. D. & T. Kobayashi, 2007. Highly efficient concerted evolution in the ribosomal DNA repeats: Total rDNA repeat variation revealed by whole-genome shotgun sequence data. Genome Research, 17 (2): 184-191. Gauld, I. D. & B. Bolton, 1988. The Hymenoptera. British Museum (Natural History) & Oxford University Press, London, 332 pp.
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  • Gregory, T. R., 2004. Insertion-deletion biases and the evolution of genome size. Gene, 324 (1): 15-34.
  • Gress, J. C., H. M. Robertson, D.K. Weaver, M. Dlakić & K. W. Wanner, 2013. Odorant receptors of a primitive hymenopteran pest, the wheat stem sawfly. Insect Molecular Biology, 22 (6): 659-667.
  • Hallem, E. A. & J. R. Carlson, 2004. Coding of odors by a receptor repertoire. Cell, 125 (1): 143-160.
  • Hallem, E. A., M. G. Ho & J. R. Carlson, 2004. The molecular basis of odor coding in the Drosophila antenna. Cell, 117 (7): 965-979.
  • Hansson, B. S. & M. C. Stensmyr, 2011. Evolution of Insect Olfaction. Neuron, 72 (5): 698-711.
  • Haverkamp, A., B. S. Hansson & M. Knaden, 2018. Combinatorial codes and labeled lines: How insects use olfactory cues to find and judge food, mates, and oviposition sites in complex environments. Frontiers in Physiology, 9: Article ID 49.
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There are 64 citations in total.

Details

Primary Language English
Subjects Entomology, Entomology in Agriculture
Journal Section Articles
Authors

Mahir Budak 0000-0001-5610-486X

Project Number F-508
Early Pub Date October 7, 2023
Publication Date October 9, 2023
Submission Date August 3, 2023
Acceptance Date September 30, 2023
Published in Issue Year 2023

Cite

APA Budak, M. (2023). Identification of odorant receptor protein genes in two Cephid stem borers (Hymenoptera: Cephidae) by high-throughput sequencing. Turkish Journal of Entomology, 47(3), 307-316. https://doi.org/10.16970/entoted.1337346
AMA Budak M. Identification of odorant receptor protein genes in two Cephid stem borers (Hymenoptera: Cephidae) by high-throughput sequencing. TED. October 2023;47(3):307-316. doi:10.16970/entoted.1337346
Chicago Budak, Mahir. “Identification of Odorant Receptor Protein Genes in Two Cephid Stem Borers (Hymenoptera: Cephidae) by High-Throughput Sequencing”. Turkish Journal of Entomology 47, no. 3 (October 2023): 307-16. https://doi.org/10.16970/entoted.1337346.
EndNote Budak M (October 1, 2023) Identification of odorant receptor protein genes in two Cephid stem borers (Hymenoptera: Cephidae) by high-throughput sequencing. Turkish Journal of Entomology 47 3 307–316.
IEEE M. Budak, “Identification of odorant receptor protein genes in two Cephid stem borers (Hymenoptera: Cephidae) by high-throughput sequencing”, TED, vol. 47, no. 3, pp. 307–316, 2023, doi: 10.16970/entoted.1337346.
ISNAD Budak, Mahir. “Identification of Odorant Receptor Protein Genes in Two Cephid Stem Borers (Hymenoptera: Cephidae) by High-Throughput Sequencing”. Turkish Journal of Entomology 47/3 (October 2023), 307-316. https://doi.org/10.16970/entoted.1337346.
JAMA Budak M. Identification of odorant receptor protein genes in two Cephid stem borers (Hymenoptera: Cephidae) by high-throughput sequencing. TED. 2023;47:307–316.
MLA Budak, Mahir. “Identification of Odorant Receptor Protein Genes in Two Cephid Stem Borers (Hymenoptera: Cephidae) by High-Throughput Sequencing”. Turkish Journal of Entomology, vol. 47, no. 3, 2023, pp. 307-16, doi:10.16970/entoted.1337346.
Vancouver Budak M. Identification of odorant receptor protein genes in two Cephid stem borers (Hymenoptera: Cephidae) by high-throughput sequencing. TED. 2023;47(3):307-16.