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2022. T. 127. Vyp. 5.
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2022. T. 127. Vyp. 5.

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Severova E.E., Krinitsina A.A., Omelchenko D.O., Kasianov A.S.

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pollen, grass, aeroallergenes, metabarcoding, phenology, cyclone trap

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Severova E.E., Krinitsina A.A., Omelchenko D.O., Kasianov A.S. , Identification of Grass Pollen in Aerobiological Samples by Metabarcoding // Byul. MOIP. Otd. biol. 2022. T. 127. Vyp. 5. S. 34-45

Identification of Grass Pollen in Aerobiological Samples by Metabarcoding

Poaceae pollen is the main aeroallergen in central Russia in the summer. The main goal of this study was to test the metabarcoding method to identify grass pollen to the level of genus in the air samples. Air sampling was carried out in June 2021 using a cyclone-type trap. For metagenomic analysis, nuclear markers ITS1, ITS2, and 5’-ETS were used, and the results of the analysis were compared with phenological observations. All marker sequences show good resolution of grass pollen to the genus level and allow to determine a qualitative composition of a sample. The best results were noted for the ITS1 and ITS2, and, to a lesser extent, for 5′-ETS. Discrepancies between the results of metagenomic analysis and phenological observations and their possible causes were discussed. It is shown that the use of pollen traps with a limited sampling time for grass monitoring seems to be inappropriate.

References

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  • Omelchenko D.O., Speranskaya A.S., Ayginin A.A., Khafizov K., Krinitsina A.A., Fedotova A.V., Pozdyshev D.V., Shtratnikova V.Y., Kupriyanova E.V., Shipulin G.A. et al. Improved protocols of ITS1-based metabarcoding and their application in the analysis of plant-containing products // Genes. 2019. Vol. 10. 122.
  • PollenLibrary.com – Allergen and Botanic Reference Library. URL: https://www.pollenlibrary.com
  • Polling M., Sin M., de Weger L. A., Speksnijder A. G., Koenders M. J., de Boer H., Gravendeel B. DNA metabarcoding using nrITS2 provides highly qualitative and quantitative results for airborne pollen monitoring // Science of the Total Environment. 2022. Vol. 806. Р. 150468.
  • Severova E., Volkova O. Sampling height in aerobiological monitoring // 11th International Congress on Aerobiology. Programme & Abstract book. 2018. P. 74.
  • Severova E., Volkova O. Variations and trends of Betula pollen seasons in Moscow (Russia) in relation to meteorological param-eters // Aerobiologia. 2017. Vol. 33. N 2. P. 253–264.
  • Speranskaya A.S., Khafizov K., Ayginin A.A., Krinitsina A.A., Omelchenko D.O., Nilova M.V., Severova E.E., Samokhina E.N., Shipulin G.A., Logacheva M.D. Comparative analysis of Illumina and ion torrent high-throughput sequencing platforms for identification of plant components in herbal teas // Food Control. 2018. Vol. 93. P. 315–324.
  • Traidl-Hoffmann C. Allergy – an environmental disease // Bundesgesundheitsblatt, Gesundheitsforschung, Gesundheitsschutz. 2017. Vol. 60. P. 584–591.
  • Volkova O., Severova E. Poaceae pollen season and associations with meteorological parameters in Moscow, Russia, 1994–2016 //Aerobiologia. 2019. Vol. 35. P. 73–84.

Список литературы

  • Bannikova V. A. Tsvetenie i opylenie ezhi sbornoi. V: Ekologiya opyleniya: mezhvuz sb. nauch.tr. Perm’, 1975. S. 117–125.
  • Bannikova V. A. Tsvetenie i opylenie timofeevki lugovoi V: Ekologiya opyleniya: mezhvuz sb. nauch.tr. Perm’, 1980. S. 81–86.
  • Egorova V. N. Myatlik lugovoi / Biologicheskaya flora Moskovskoi oblasti, 1996. Vyp. 12. S. 22–38.
  • Klimat Moskvy (osobennosti klimata bol’shogo goroda / Red. A.A. Dmitriev, N.P. Bessonova Leningrad, 1969. 324 s.
  • Maevskii P. F. Flora srednei polosy evropeiskoi chasti Rossii. 11-e izd. M., 2014. 635 s.
  • Nikolaevskaya T. S., Kaicheva T. N. Osobennosti tsveteniya i opyleniya ovsyanitsy lugovoi pod vliyaniem selektsii. V: Ekologiya opyleniya: mezhvuz sb. nauch.tr. Perm’, 1980. S. 56–65.
  • Ponomarev A. P. Ekologiya tsveteniya i opyleniya zlakov i lyutserny // Botanicheskii zhurnal. 1954. T. 39. № 5. S.706–720.
  • Banchi E., Ametrano C. G., Tordoni E., Stanković D., Ongaro S., Tretiach, M., … & Lazzarin S. Environmental DNA assessment of airborne plant and fungal seasonal diversity // Science of the Total Environment. 2020. Vol. 738. P. 140249.
  • Bolger A.M., Lohse M., Usadel B. Trimmomatic: A flexible trimmer for Illumina sequence data // Bioinformatics. 2014. Vol. 30. P. 2114–2120.
  • Brennan G.L., Potter C., De Vere N., Griffith G.W., Skjøth C.A., Osborne N.J., … & Creer S. Temperate airborne grass pollen de-fined by spatio-temporal shifts in community composition // Nature Ecology & Evolution. 2019. Vol. 3. N 5. P. 750–754.
  • Campbell B. C., Al Kouba J., Timbrell V., Noor M. J., Massel K., Gilding E. K., … & Davies, J. M. Tracking seasonal changes in diversity of pollen allergen exposure: targeted metabarcoding of a subtropical aerobiome // Science of the Total Environment. 2020. Vol. 747. Р. 141189.
  • D’Amato G., Cecchi L., Bonini S., Nunes C., Annesi-Maesano I., Behrendt H., Liccardi G., Popov T., Cauwenberge P.V. Allergenic Pollen and Pollen Allergy in Europe // Allergy. 2007. Vol. 62. P. 976–990.
  • Galán C., Smith M., Thibaudon M., Frenguelli G., Oteros J., Gehrig R., Berger U., Clot B., Brandao R., EAS QC working group. Pollen monitoring: minimum requirements and reproducibility of analysis // Aerobiologia. 2014. Vol. 30. P. 385–395.
  • García-Mozo H. Poaceae pollen as the leading aeroallergen worldwide: A review //Allergy. 2017. Vol. 72. N 12. P. 1849–1858.
  • Ghitarrini S., Galán C., Frenguelli G., Tedeschini E. Phenological analysis of grasses (Poaceae) as a support for the dissection of their pollen season in Perugia (Central Italy) // Aerobiologia. 2017. Vol. 33. P. 1–11.
  • Ghitarrini S., Pierboni E., Rondini C., Tedeschini E., Tovo G.R., Frenguelli G., Albertini E. New Biomolecular Tools for Aerobiolog-ical Monitoring: Identification of Major Allergenic Poaceae Species through Fast Real-Time PCR. Ecol. Evol. 2018. 8, 3996–4010.
  • Keller A., Danner N., Grimmer G., Ankenbrand M., von der Ohe K., von der Ohe W., Steffan-Dewenter I. Evaluating multiplexed nextgeneration sequencing as a method in palynology for mixed pollen samples // Plant Biol. 2015. Vol. 17. P. 558–566.
  • Kraaijeveld K.; de Weger L.A.; García M.V., Buermans H.; Frank J.; Hiemstra P.S.; Dunnen J.T. Efficient and sensitive identifica-tion and quantification of airborne pollen using next-generation DNA sequencing // Mol. Ecol. Resour. 2015. Vol. 15. P. 8–16.
  • Leontidou K.; Vernesi C., De Groeve J., Cristofolini F., Vokou D., Cristofori A. DNA metabarcoding of airborne pollen: new pro-tocols for improved taxonomic identification of environmental samples // Aerobiologia. 2018. Vol. 34. P. 63–74.
  • Linneberg A., Dam Petersen K., Hahn-Pedersen J., Hammerby E., Serup-Hansen N., Boxall N. Burden of allergic respiratory dis-ease: a systematic review // Clinical and Molecular Allergy. 2016. Vol. 14. P. 1–14.
  • Longhi S., Cristofori A., Gatto P., Cristofolini F., Gran- do M.S., Gottardini E. Biomolecular identification of aller-genic pollen: a new perspective for aerobiological monitoring? // Annals of Allergy, Asthma & Immunology. 2009. Vol. 103. N 6. P. 508–514.
  • Marcello A. Nuovi criteri per le osservazioni fenologiche // Nuovo Giornale Botanico Italiano. 1953. Vol. 42. P. 543–556.
  • Meier U. Growth stages of mono-and dicotyledonous plants. BBCH Monograph. Blackwell Wissenschafts-Verlag, 1997. 204 p.
  • Mohanty R. P., Buchheim M. A., Anderson J., Levetin E. Molecular analysis confirms the long-distance transport of Juniperus ashei pollen // PLoS One. 2017. Vol. 12. N 3. e0173465.
  • Newson RB, van Ree R, Forsberg B, Janson C, Lötvall J, Dahlen S-E, Toskala EM, Bælum J, Brozek GM, Kasper L, Kowalski ML, Howarth PH, Fokkens WJ, Bachert C, Keil T, Krämer U, Bislimovska J, Gjomarkaj M, Loureiro C, Burney PGJ, Jarvis D. Geographical variation in the prevalence of sensitization to common aeroallergens in adults: the GA2LEN survey // Allergy. 2014. Vol. 69. P. 643–651.
  • Núñez A., Amo de Paz G., Rastrojo A., García A. M., Alcamí A., Gutiérrez-Bustillo A. M., Moreno D. A. Monitoring of airborne biological particles in outdoor atmosphere. Part 2: Metagenomics applied to urban environments // International Microbiology. 2016. Vol.19. P. 69–80.
  • Omelchenko D. O., Krinitsina A. A., Kasianov A. S., Speranskaya A. S., Chesnokova O. V., Polevova S. V., Severova E. E. As-sessment of ITS1, ITS2, 5′-ETS, and trnL-F DNA barcodes for metabarcoding of Poaceae pollen // Diversity. 2022. Vol.14. 191.
  • Omelchenko D.O., Speranskaya A.S., Ayginin A.A., Khafizov K., Krinitsina A.A., Fedotova A.V., Pozdyshev D.V., Shtratnikova V.Y., Kupriyanova E.V., Shipulin G.A. et al. Improved protocols of ITS1-based metabarcoding and their application in the analysis of plant-containing products // Genes. 2019. Vol. 10. 122.
  • PollenLibrary.com – Allergen and Botanic Reference Library. URL: https://www.pollenlibrary.com
  • Polling M., Sin M., de Weger L. A., Speksnijder A. G., Koenders M. J., de Boer H., Gravendeel B. DNA metabarcoding using nrITS2 provides highly qualitative and quantitative results for airborne pollen monitoring // Science of the Total Environment. 2022. Vol. 806. Р. 150468.
  • Severova E., Volkova O. Sampling height in aerobiological monitoring // 11th International Congress on Aerobiology. Programme & Abstract book. 2018. P. 74.
  • Severova E., Volkova O. Variations and trends of Betula pollen seasons in Moscow (Russia) in relation to meteorological param-eters // Aerobiologia. 2017. Vol. 33. N 2. P. 253–264.
  • Speranskaya A.S., Khafizov K., Ayginin A.A., Krinitsina A.A., Omelchenko D.O., Nilova M.V., Severova E.E., Samokhina E.N., Shipulin G.A., Logacheva M.D. Comparative analysis of Illumina and ion torrent high-throughput sequencing platforms for identification of plant components in herbal teas // Food Control. 2018. Vol. 93. P. 315–324.
  • Traidl-Hoffmann C. Allergy – an environmental disease // Bundesgesundheitsblatt, Gesundheitsforschung, Gesundheitsschutz. 2017. Vol. 60. P. 584–591.
  • Volkova O., Severova E. Poaceae pollen season and associations with meteorological parameters in Moscow, Russia, 1994–2016 //Aerobiologia. 2019. Vol. 35. P. 73–84.