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DNA and RNA kits by sample

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Nucleic Acid extraction kits

DNA extraction

RNA extraction

  • Mosquitos - TRIzol LS (Invitrogen) – purified with RNeasy MinElute Cleanup Kit (Qiagen)(Ali et al., 2021)
  • Sea Water - RNeasy mini kit (Qiagen)(Martínez-Pérez et al., 2022)
  • Antarctic ticks - MagMax mirVana™ Total RNA isolation Kit (ThermoFisher Scientific)(Willis et al., 2020)
  • Soil - PowerMax soil DNA isolation kit (Mo Bio)(Xu et al., 2021)
  • Cervical samples - Smarter stranded total RNA-seq kit v2—pico input mammalian (Takara Bio)(Arroyo Mühr et al., 2021)
  • Viral DNA & RNA - AllPrep DNA/RNA Mini kit (Qiagen)(Liang et al., 2020)
  • Viral RNA - QIAmp Viral RNA kit (Qiagen)(Goolam Mahomed et al., 2021)
  • Cerebellum, hippocampus and visual cortex - Uneasy Plus Universal Mini Kit (Qiagen) - in house protocol provided by Justine Vandendorpe
  • Bile samples - ZymoBIOMICS DNA/RNA Miniprep Kit - in house protocol provided by Nicole Treichel
  • mouse small intestine content - ZymoBIOMICS DNA/RNA Miniprep Kit - in house protocol provided by Nicole Treichel


  1. Ruocco, N., Esposito, R., Zagami, G., Bertolino, M., De Matteo, S., Sonnessa, M., Andreani, F., Crispi, S., Zupo, V., & Costantini, M. (2021). Microbial diversity in Mediterranean sponges as revealed by metataxonomic analysis. Scientific Reports, 11(1).
  2. Cebriá-Mendoza, M., Arbona, C., Larrea, L., Díaz, W., Arnau, V., Peña, C., Bou, J. V., Sanjuán, R., & Cuevas, J. M. (2021). Deep viral blood metagenomics reveals extensive anellovirus diversity in healthy humans. Scientific Reports, 11(1).
  3. Martínez-Pérez, C., Greening, C., Bay, S. K., Lappan, R. J., Zhao, Z., De Corte, D., Hulbe, C., Ohneiser, C., Stevens, C., Thomson, B., & et al. (2022). Phylogenetically and functionally diverse microorganisms reside under the Ross Ice Shelf. Nature Communications, 13(1).
  4. Gao, L., Kang, M., Zhang, M. J., Reza Sailani, M., Kuraji, R., Martinez, A., Ye, C., Kamarajan, P., Le, C., Zhan, L., & et al. (2020). Polymicrobial periodontal disease triggers a wide radius of effect and unique virome. Npj Biofilms and Microbiomes, 6(1).
  5. Majumder, R., Sutcliffe, B., Taylor, P. W., & Chapman, T. A. (2020). Fruit host-dependent fungal communities in the microbiome of wild Queensland fruit fly larvae. Scientific Reports, 10(1).
  6. Ellison, S., Knapp, R., & Vredenburg, V. (2021). Longitudinal patterns in the skin microbiome of wild, individually marked frogs from the Sierra Nevada, California. ISME Communications, 1(1).
  7. Kim, H.-J., Oh, H. N., Park, T., Kim, H., Lee, H. G., An, S., & Sul, W. J. (2022). Aged related human skin microbiome and mycobiome in Korean women. Scientific Reports, 12(1).
  8. Ogai, K., Nana, B. C., Lloyd, Y. M., Arios, J. P., Jiyarom, B., Awanakam, H., Esemu, L. F., Hori, A., Matsuoka, A., Nainu, F., & et al. (2022). Skin microbiome profile of Healthy Cameroonians and Japanese. Scientific Reports, 12(1).
  9. Chaudhari, D. S., Dhotre, D. P., Agarwal, D. M., Gaike, A. H., Bhalerao, D., Jadhav, P., Mongad, D., Lubree, H., Sinkar, V. P., Patil, U. K., & et al. (2020). Gut, oral and skin microbiome of Indian patrilineal families reveal perceptible association with age. Scientific Reports, 10(1).
  10. Scanes, E., Parker, L. M., Seymour, J. R., Siboni, N., Dove, M. C., O’Connor, W. A., & Ross, P. M. (2021). Microbiomes of an oyster are shaped by metabolism and environment. Scientific Reports, 11(1).
  11. Sousa, R., Vasconcelos, J., Vera-Escalona, I., Delgado, J., Freitas, M., González, J. A., & Riera, R. (2021). Major ocean currents may shape the microbiome of the Topshell Phorcus sauciatus in the NE Atlantic Ocean. Scientific Reports, 11(1).
  12. Mulec, J., Oarga-Mulec, A., Holko, L., Pašić, L., Kopitar, A. N., Eleršek, T., & Mihevc, A. (2021). Microbiota entrapped in recently-formed ice: Paradana ice cave, Slovenia. Scientific Reports, 11(1).
  13. Goolam Mahomed, T., Peters, R. P., Allam, M., Ismail, A., Mtshali, S., Goolam Mahomed, A., Ueckermann, V., Kock, M. M., & Ehlers, M. M. (2021). Lung microbiome of stable and exacerbated COPD patients in Tshwane, South Africa. Scientific Reports, 11(1).
  14. Custodio, M., Espinoza, C., Peñaloza, R., Peralta-Ortiz, T., Sánchez-Suárez, H., Ordinola-Zapata, A., & Vieyra-Peña, E. (2022). Microbial diversity in intensively farmed lake sediment contaminated by heavy metals and identification of microbial taxa bioindicators of environmental quality. Scientific Reports, 12(1).
  15. Kursa, O., Tomczyk, G., Sawicka-Durkalec, A., Giza, A., & Słomiany-Szwarc, M. (2021). Bacterial communities of the upper respiratory tract of turkeys. Scientific Reports, 11(1).
  16. Satjarak, A., Golinski, G. K., Trest, M. T., & Graham, L. E. (2022). Microbiome and related structural features of Earth’s most archaic plant indicate early plant symbiosis attributes. Scientific Reports, 12(1).
  17. Park, J. Y., Seo, H., Kang, C.-S., Shin, T.-S., Kim, J. W., Park, J.-M., Kim, J. G., & Kim, Y.-K. (2022). Dysbiotic change in gastric microbiome and its functional implication in gastric carcinogenesis. Scientific Reports, 12(1).
  18. Eun, Y.-G., Lee, J.-W., Kim, S. W., Hyun, D.-W., Bae, J.-W., & Lee, Y. C. (2021). Oral microbiome associated with lymph node metastasis in oral squamous cell carcinoma. Scientific Reports, 11(1).
  19. Shetty, S. A., Kuipers, B., Atashgahi, S., Aalvink, S., Smidt, H., & de Vos, W. M. (2022). Inter-species metabolic interactions in an in-vitro minimal human gut microbiome of core bacteria. Npj Biofilms and Microbiomes, 8(1).
  20. Hannula, S. E., Heinen, R., Huberty, M., Steinauer, K., De Long, J. R., Jongen, R., & Bezemer, T. M. (2021). Persistence of plant-mediated microbial soil legacy effects in soil and inside roots. Nature Communications, 12(1).
  21. Zheng, X., Jahn, M. T., Sun, M., Friman, V.-P., Balcazar, J. L., Wang, J., Shi, Y., Gong, X., Hu, F., & Zhu, Y.-G. (2022). Organochlorine contamination enriches virus-encoded metabolism and pesticide degradation associated auxiliary genes in soil microbiomes. The ISME Journal, 16(5), 1397–1408.
  22. Morin, L., Goubet, A., Madigou, C., Pernelle, J.-J., Palmier, K., Labadie, K., Lemainque, A., Michot, O., Astoul, L., Barbier, P., & et al. (2020). Colonization Kinetics and implantation follow-up of the sewage microbiome in an urban wastewater treatment plant. Scientific Reports, 10(1).
  23. Yahara, K., Suzuki, M., Hirabayashi, A., Suda, W., Hattori, M., Suzuki, Y., & Okazaki, Y. (2021). Long-read metagenomics using Promethion uncovers oral bacteriophages and their interaction with host bacteria. Nature Communications, 12(1).
  24. Lee, C. Z., Zoqratt, M. Z., Phipps, M. E., Barr, J. J., Lal, S. K., Ayub, Q., & Rahman, S. (2022). The Gut Virome in two indigenous populations from Malaysia. Scientific Reports, 12(1).
  25. Liang, G., Zhao, C., Zhang, H., Mattei, L., Sherrill-Mix, S., Bittinger, K., Kessler, L. R., Wu, G. D., Baldassano, R. N., DeRusso, P., & et al. (2020). The stepwise assembly of the neonatal virome is modulated by breastfeeding. Nature, 581(7809), 470–474.
  26. Chehoud, C., Dryga, A., Hwang, Y., Nagy-Szakal, D., Hollister, E. B., Luna, R. A., Versalovic, J., Kellermayer, R., & Bushman, F. D. (2016). Transfer of viral communities between human individuals during fecal microbiota transplantation. MBio, 7(2).
  27. Zhang, F., Zuo, T., Yeoh, Y. K., Cheng, F. W., Liu, Q., Tang, W., Cheung, K. C., Yang, K., Cheung, C. P., Mo, C. C., & et al. (2021). Longitudinal dynamics of gut bacteriome, mycobiome and Virome after fecal microbiota transplantation in graft-versus-host disease. Nature Communications, 12(1).
  28. Humphrey, P. T., & Whiteman, N. K. (2020). Insect herbivory reshapes a native leaf microbiome. Nature Ecology &Amp; Evolution, 4(2), 221–229.
  29. Ali, R., Jayaraj, J., Mohammed, A., Chinnaraja, C., Carrington, C. V., Severson, D. W., & Ramsubhag, A. (2021). Characterization of the virome associated with Haemagogus Mosquitoes in Trinidad, West Indies. Scientific Reports, 11(1).
  30. Willis, K. A., Postnikoff, C. K., Freeman, A., Rezonzew, G., Nichols, K., Gaggar, A., & Lal, C. V. (2020). The closed eye harbours a unique microbiome in dry eye disease. Scientific Reports, 10(1).
  31. Xu, L., Dong, Z., Chiniquy, D., Pierroz, G., Deng, S., Gao, C., Diamond, S., Simmons, T., Wipf, H. M.-L., Caddell, D., & et al. (2021). Genome-resolved metagenomics reveals role of iron metabolism in drought-induced rhizosphere microbiome dynamics. Nature Communications, 12(1).
  32. Arroyo Mühr, L. S., Dillner, J., Ure, A. E., Sundström, K., & Hultin, E. (2021). Comparison of DNA and RNA sequencing of total nucleic acids from human cervix for metagenomics. Scientific Reports, 11(1).