IDEAS home Printed from https://ideas.repec.org/a/gam/jsusta/v14y2022i18p11455-d913673.html
   My bibliography  Save this article

A Comprehensive Metagenomic Analysis Framework Revealing Microbiome Profile and Potential for Hydrocarbon Degradation and Carbohydrate Metabolism in a Himalayan Artificial Lake

Author

Listed:
  • Girija Kaushal

    (Center of Innovative and Applied Bioprocessing (DBT-CIAB), Sahibzada Ajit Singh Nagar 140306, India)

  • Monika Thakur

    (Center of Innovative and Applied Bioprocessing (DBT-CIAB), Sahibzada Ajit Singh Nagar 140306, India)

  • Amit Kumar Rai

    (Institute of Bioresources and Sustainable Development (DBT-IBSD), Gangtok 737102, India)

  • Sudhir P. Singh

    (Center of Innovative and Applied Bioprocessing (DBT-CIAB), Sahibzada Ajit Singh Nagar 140306, India)

Abstract

The high-altitude lakes are ecological habitats accommodating a vast diversity of microbial populations. These microbes are efficient sources for a variety of enzymes. The objective of this study is to perform in-depth metagenomic profiling of an artificial lake ecosystem located in the Sikkim Himalayan region, deciphering the hydrocarbon degradation potential of this site and mining biocatalysts of industrial importance. In the present study, metagenomic analysis of an artificial Himalayan lake, located in North Sikkim, India, was performed. A comprehensive taxonomic and functional profiling revealed gene mapped to pathways for degradation of hydrocarbons such as toluene, benzoate, ethylbenzene, etc. This site was rich in iron, and the metagenomic investigation revealed genomic signatures of the iron-reducing bacterium; Geothrix fermentans . The appraisal of the carbohydrate metabolic potential of this site divulged the predominance of β-galactosidase genes. The artificial lake metagenome was further compared to publicly available saline and freshwater lakes. At the taxonomic, as well as functional levels, it was found to be closer to freshwater lake metagenome, e.g., Medonta Lake, US, and freshwater Vanda Lake, Antarctica. The microbial community profiling and functional contribution of the artificial Himalayan lake would be beneficial for mining genes encoding various industrially relevant enzymes.

Suggested Citation

  • Girija Kaushal & Monika Thakur & Amit Kumar Rai & Sudhir P. Singh, 2022. "A Comprehensive Metagenomic Analysis Framework Revealing Microbiome Profile and Potential for Hydrocarbon Degradation and Carbohydrate Metabolism in a Himalayan Artificial Lake," Sustainability, MDPI, vol. 14(18), pages 1-20, September.
    • Handle: RePEc:gam:jsusta:v:14:y:2022:i:18:p:11455-:d:913673
    as

    Download full text from publisher

    File URL: https://www.mdpi.com/2071-1050/14/18/11455/pdf
    Download Restriction: no
    File URL: https://www.mdpi.com/2071-1050/14/18/11455/
    Download Restriction: no
    ---><---

    References listed on IDEAS

    as
    1. Daniel H Huson & Sina Beier & Isabell Flade & Anna Górska & Mohamed El-Hadidi & Suparna Mitra & Hans-Joachim Ruscheweyh & Rewati Tappu, 2016. "MEGAN Community Edition - Interactive Exploration and Analysis of Large-Scale Microbiome Sequencing Data," PLOS Computational Biology, Public Library of Science, vol. 12(6), pages 1-12, June.
    2. Masilu Daniel Masekameni & Raeesa Moolla & Mary Gulumian & Derk Brouwer, 2018. "Risk Assessment of Benzene, Toluene, Ethyl Benzene, and Xylene Concentrations from the Combustion of Coal in a Controlled Laboratory Environment," IJERPH, MDPI, vol. 16(1), pages 1-18, December.
    Full references (including those not matched with items on IDEAS)

    Citations

    Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
    as


    Cited by:

    1. Dan Song & Tangbin Huo & Zhao Zhang & Lei Cheng & Le Wang & Kun Ming & Hui Liu & Mengsha Li & Xue Du, 2022. "Metagenomic Analysis Reveals the Response of Microbial Communities and Their Functions in Lake Sediment to Environmental Factors," IJERPH, MDPI, vol. 19(24), pages 1-15, December.

    Most related items

    These are the items that most often cite the same works as this one and are cited by the same works as this one.
    1. Sylvain François-Étienne & Leroux Nicolas & Normandeau Eric & Custodio Jaqueline & Mercier Pierre-Luc & Bouslama Sidki & Holland Aleicia & Barroso Danilo & Val Adalberto Luis & Derome Nicolas, 2023. "Important role of endogenous microbial symbionts of fish gills in the challenging but highly biodiverse Amazonian blackwaters," Nature Communications, Nature, vol. 14(1), pages 1-15, December.
    2. Michael J. Tisza & Derek D. N. Smith & Andrew E. Clark & Jung-Ho Youn & Pavel P. Khil & John P. Dekker, 2023. "Roving methyltransferases generate a mosaic epigenetic landscape and influence evolution in Bacteroides fragilis group," Nature Communications, Nature, vol. 14(1), pages 1-15, December.
    3. Eric Ros-Moner & Tamara Jiménez-Góngora & Luis Villar-Martín & Lana Vogrinec & Víctor M. González-Miguel & Denis Kutnjak & Ignacio Rubio-Somoza, 2024. "Conservation of molecular responses upon viral infection in the non-vascular plant Marchantia polymorpha," Nature Communications, Nature, vol. 15(1), pages 1-17, December.
    4. C C Lyman & G R Holyoak & K Meinkoth & X Wieneke & K A Chillemi & U DeSilva, 2019. "Canine endometrial and vaginal microbiomes reveal distinct and complex ecosystems," PLOS ONE, Public Library of Science, vol. 14(1), pages 1-17, January.
    5. Yelin Han & Panpan Xu & Yuyang Wang & Wenliang Zhao & Junpeng Zhang & Shuyi Zhang & Jianwei Wang & Qi Jin & Zhiqiang Wu, 2023. "Panoramic analysis of coronaviruses carried by representative bat species in Southern China to better understand the coronavirus sphere," Nature Communications, Nature, vol. 14(1), pages 1-20, December.
    6. Tyler J. Murchie & Alistair J. Monteath & Matthew E. Mahony & George S. Long & Scott Cocker & Tara Sadoway & Emil Karpinski & Grant Zazula & Ross D. E. MacPhee & Duane Froese & Hendrik N. Poinar, 2021. "Collapse of the mammoth-steppe in central Yukon as revealed by ancient environmental DNA," Nature Communications, Nature, vol. 12(1), pages 1-18, December.
    7. Şuheda Reisoglu & Sevcan Aydin, 2023. "Bacteriophage and Their Potential Use in Bioaugmentation of Biological Wastewater Treatment Processes," Sustainability, MDPI, vol. 15(16), pages 1-13, August.
    8. Mohammed Y. Refai & Aala A. Abulfaraj & Israa J. Hakeem & Nehad A. Shaer & Mashael D. Alqahtani & Maryam M. Alomran & Nahaa M. Alotaibi & Hana S. Sonbol & Abdulrahman M. Alhashimi & Nouf S. Al-Abbas &, 2023. "Rhizobiome Signature and Its Alteration Due to Watering in the Wild Plant Moringa oleifera," Sustainability, MDPI, vol. 15(3), pages 1-25, February.
    9. John Friesen & Victoria Friesen & Ingo Dietrich & Peter F. Pelz, 2020. "Slums, Space, and State of Health—A Link between Settlement Morphology and Health Data," IJERPH, MDPI, vol. 17(6), pages 1-28, March.
    10. Massimo Ferrara & Maria Federica Sgarro & Aristide Maggiolino & Sara Damiano & Francesco Iannaccone & Giuseppina Mulè & Pasquale De Palo, 2021. "Effect of Red Orange and Lemon Extract-Enriched Diet in Suckling Lambs’ Fecal Microbiota," Agriculture, MDPI, vol. 11(7), pages 1-11, June.
    11. Lebogang Phama & Goitsemang Keretetse & Thokozani Mbonane & Phoka Rathebe & Robert Makae & Masilu Daniel Masekameni, 2024. "BTEX Assessment among Informal Charcoal-Burning Food Traders for Cleaner and Sustainable Environment," Sustainability, MDPI, vol. 16(8), pages 1-20, April.
    12. Åshild J. Vågene & Tanvi P. Honap & Kelly M. Harkins & Michael S. Rosenberg & Karen Giffin & Felipe Cárdenas-Arroyo & Laura Paloma Leguizamón & Judith Arnett & Jane E. Buikstra & Alexander Herbig & Jo, 2022. "Geographically dispersed zoonotic tuberculosis in pre-contact South American human populations," Nature Communications, Nature, vol. 13(1), pages 1-12, December.
    13. Anupam J. Das & Renuka Ravinath & Talambedu Usha & Biligi Sampgod Rohith & Hemavathy Ekambaram & Mothukapalli Krishnareddy Prasannakumar & Nijalingappa Ramesh & Sushil Kumar Middha, 2021. "Microbiome Analysis of the Rhizosphere from Wilt Infected Pomegranate Reveals Complex Adaptations in Fusarium—A Preliminary Study," Agriculture, MDPI, vol. 11(9), pages 1-17, August.
    14. Linda Armbrecht & Michael E. Weber & Maureen E. Raymo & Victoria L. Peck & Trevor Williams & Jonathan Warnock & Yuji Kato & Iván Hernández-Almeida & Frida Hoem & Brendan Reilly & Sidney Hemming & Ian , 2022. "Ancient marine sediment DNA reveals diatom transition in Antarctica," Nature Communications, Nature, vol. 13(1), pages 1-14, December.
    15. Manal A. Tashkandi & Rewaa S. Jalal & Lina Baz & Mohammed Y. Refai & Ashwag Shami & Ruba Abdulrahman Ashy & Haneen W. Abuauf & Fatimah M. Alshehrei & Fawzia A. Alshubaily & Aminah A. Barqawi & Sahar A, 2022. "Functional Interpretation of Cross-Talking Pathways with Emphasis on Amino Acid Metabolism in Rhizosphere Microbiome of the Wild Plant Moringa oleifera," Agriculture, MDPI, vol. 12(11), pages 1-22, October.

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:gam:jsusta:v:14:y:2022:i:18:p:11455-:d:913673. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: MDPI Indexing Manager (email available below). General contact details of provider: https://www.mdpi.com .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.