SavedAdd your journal

Journals / Communications Faculty of Sciences University of Ankara Series C Biology / 2023 / Cilt: 32 Sayı: 2

Profiling the genes associated with osmoadaptation and their variation by seasonally in Tuz Lake

Suzan SAHİN DOGAN
Aytaç KOCABAŞ
Pages
174–191
Publication Date
2023-12-30
DOI
—
🏛️Bibliographic metadata and full text access for this article are provided via DergiPark.
DergiPark Record ↗
✨

AI Summary & Key Takeaways

AI Insight
⚡ TL;DR(Too Long; Didn't Read)

The abundance of bacteriorhodopsin and halorhodopsin were increased in summer and spring, respectively.

📌 3 Key Takeaways

🎯
Objective & Hypothesis:Hypersaline environments are one of the extreme habitats in the world.
📊
Key Findings & Data:Microorganisms living in a hypersaline environment have developed various molecular adaptation strategies to overcome these extreme conditions.
💡
Conclusion & Impact:The abundance of bacteriorhodopsin and halorhodopsin were increased in summer and spring, respectively.
🔬Design:Research Article
📍Scope:Comprehensive Sample
⚙️Variables:Tuz Lake · PICRUSt2 · hypersaline

Abstract

Hypersaline environments are one of the extreme habitats in the world. Microorganisms living in a hypersaline environment have developed various molecular adaptation strategies to overcome these extreme conditions. The study aims to investigate the genes associated with osmoadaptation seasonal variation in Tuz Lake by PICRUSt2. Dada2 pipelines were applied for filtering, dereplication, chimera identification, and merging paired-end reads to construct table.qza and rep_seqs.qza files. Therefore, the PICRUSt2 was applied to analyze the metabolic function of archaeal and bacterial diversity in Tuz Lake by using table.qza and rep_seqs.qza files. As a result of metabolic functions based on 16S rDNA amplicon data, the genes related to potassium accumulation played an important role in osmoregulation in Tuz Lake, where the archaea population was dominant. Furthermore, bacteriorhodopsin, halorhodopsin, and sensory rhodopsin functions were determined. The abundance of bacteriorhodopsin and halorhodopsin were increased in summer and spring, respectively.

🔖

Cite This Article

DOGAN, S. S., KOCABAŞ, A. (2023). Profiling the genes associated with osmoadaptation and their variation by seasonally in Tuz Lake. Communications Faculty of Sciences University of Ankara Series C Biology, Cilt: 32 Sayı: 2, 174–191. https://ajindex.com/articles/1021365

📄 Full Text PDF Viewer

📄

PDF görüntüleyici hazırlanıyor...

References (11)

  1. Simachew, A., Lanzén, A., Gessesse, A., Øvreås, L., Prokaryotic community diversity along an increasing salt gradient in a soda ash concentration pond, Microbial Ecology, 71 (2) (2016), 326–338. https://doi.org/10.1007/s00248-015-0675-7.
  2. Paul, S., Bag, S.K., Das, S., Harvill, E.T., Dutta, C., Molecular signature of hypersaline adaptation: insights from genome and proteome composition of halophilic prokaryotes, Genome Biology, 9 (4) (2008), R70. https://doi.org/10.1186/gb-2008-9-4-r70.
  3. Rhodes, M.E., Fitz-Gibbon, S.T., Oren, A., House, C.H., Amino acid signatures of salinity on an environmental scale with a focus on the Dead Sea, Environmental Microbiology, 12 (9) (2010), 2613–2623. https://doi.org/10.1111/j.1462-2920.2010.02232.x.
  4. Lentzen, G., Schwarz, T., Extremolytes: natural compounds from extremophiles for versatile applications, Applied Microbiology and Biotechnology, 72 (4) (2006), 623–634. https://doi.org/10.1007/s00253-006-0553-9.
  5. Check Hayden, E., Technology: The $1,000 genome, Nature, 507 (7492) (2014), 294–295. https://doi.org/10.1038/507294a.
  6. Hauser, M., Steinegger, M., Söding, J., MMseqs software suite for fast and deep clustering and searching of large protein sequence sets, Bioinformatics, 32 (9) (2016), 1323–1330. https://doi.org/10.1093/bioinformatics/btw006.
  7. Douglas, G.M., Maffei, V.J., Zaneveld, J.R., Yurgel, S.N., Brown, J.R., Taylor, C.M., Huttenhower, C., Langille, M.G.I., PICRUSt2 for prediction of metagenome functions, Nature Biotechnology, 38 (6) (2020), 685–688. https://doi.org/10.1038/s41587-020-0548-6.
  8. Akpolat, C., Fernández, A.B., Caglayan, P., Calli, B., Birbir, M., Ventosa, A., Prokaryotic communities in the Thalassohaline Tuz Lake, Deep Zone, and Kayacik, Kaldirim and Yavsan salterns (Turkey) assessed by 16S rRNA amplicon sequencing, Microorganisms, 9 (7) (2021), 1525. https://doi.org/10.3390/microorganisms9071525.
  9. Çınar, S., Mutlu, M.B., Prokaryotic community compositions of the hypersaline sediments of Tuz Lake demonstrated by cloning and high-throughput sequencing, Microbiology, 89 (6) (2020), 756–768. https://doi.org/10.1134/S0026261720060028.
  10. Şahin Doğan, S., Kocabaş, A., Seasonal dynamics of eukaryotic microbial diversity in hypersaline Tuz Lake characterized by 18S rDNA sequencing, Journal of Eukaryotic Microbiology, (2023),. https://doi.org/10.1111/jeu.12993.
  11. Sahin Dogan, S., Kocabaş, A., Seasonal gene profiling in Tuz Lake with regard to biogeochemical cycling, Kahramanmaraş Sütçü İmam Üniversitesi Tarım ve Doğa Derg