Advertisement

3 Biotech

, 9:164 | Cite as

Diversity of fungi from mangrove sediments of Goa, India, obtained by metagenomic analysis using Illumina sequencing

  • Shyamalina HaldarEmail author
  • Sarita W. Nazareth
Genome Reports
  • 58 Downloads

Abstract

The fungal composition, abundance and diversity of the mangrove sediments from the Mandovi and Zuari estuaries, Goa, using paired-end Illumina sequencing, hitherto unexplored by a metagenomic approach, indicated that though the types of fungal phyla were similar between the two sediments, the abundance of the species was significantly different between them (p value < 0.005). Basidiomycota and Ascomycota were the two major phyla which were sub-divided into eighteen classes, families, orders, genera and species and one unassigned group in both the sediments. The top five classes observed were Agaricomycetes, Sordariomycetes, Saccharomycetes, Dothideomycetes and Eurotiomycetes from both the sediments. The diversity analysis based on the observed fungal species richness (Chao 1 for Mandovi were 614 and 714.7 while for Zuari were 665 and 771.2) revealed that Zuari sediment was taxonomically rich, indicating these to be potent candidates for bioremediation and a rich repository for biotechnologically important fungi. This is a first report on diversity of fungi from mangrove sediments of Goa using metagenomic studies.

Keywords

Fungal diversity Goa Illumina Mangrove Metagenomic 

Notes

Acknowledgements

The research work was funded by National Post-Doctoral Fellowship Scheme of Science and Engineering Research Board, Department of Science and Technology, New Delhi. The authors thank Goa University, Goa, for providing the necessary infrastructural support for this research work.

Compliance with ethical standards

Conflict of interest

The authors declare that they have no conflict of interest.

References

  1. Bicholkar AA, Nazareth SW (2015) A comparative study of metal tolerance and sorption capacities of varied fungal genera from metal polluted estuarine environments for potential in metal bioremediation. Kavaka 44:16–29Google Scholar
  2. Dastager SG, Qiang ZL, Damare S, Tang SK, Li WJ (2012) Agromyces indicus sp. nov., isolated from mangroves sediment in Chorao Island, Goa, India. Antonie Van Leeuwenhoek 102(2):345–352.  https://doi.org/10.1007/s10482-012-9744-9 CrossRefPubMedGoogle Scholar
  3. Devi P, Rodrigues C, Naik CG, D’Souza L (2012) Isolation and characterization of antibacterial compound from a mangrove-endophytic fungus, Penicillium chrysogenum MTCC 5108. Indian J Microbiol 52(4):617–623.  https://doi.org/10.1007/s12088-012-0277-8 CrossRefPubMedPubMedCentralGoogle Scholar
  4. Fernandes SO, Kirchman DL, Michotey VD, Bonin PC, LokaBharathi PA (2014) Bacterial diversity in relatively pristine and anthropogenically-influenced mangrove ecosystems (Goa, India). Braz J Microbiol 45(4):1161–1171CrossRefGoogle Scholar
  5. French KE (2017) Engineering mycorrhizal symbioses to alter plant metabolism and improve crop health. Front Microbiol 8(1403):2017.  https://doi.org/10.3389/fmicb.2017.01403 (eCollection) CrossRefGoogle Scholar
  6. Edgar RC (2010) Search and clustering orders of magnitude faster than BLAST. Bioinformatics 26(19):2460–2461.  https://doi.org/10.1093/bioinformatics/btq461 CrossRefPubMedGoogle Scholar
  7. Gazem MAH, Nazareth S (2012) Isotherm and kinetic models and cell surface analysis for determination of the mechanism of metal sorption by Aspergillus versicolor. World J Microbiol Biotechnol 28(7):2521–2530.  https://doi.org/10.1007/s11274-012-1060-z CrossRefPubMedGoogle Scholar
  8. Gazem MAH, Nazareth S (2013) Sorption of lead and copper from an aqueous phase system by marine-derived Aspergillus species. Ann Microbiol 63(2):503–511.  https://doi.org/10.1007/s13213-012-0495-7 CrossRefGoogle Scholar
  9. Habtom H, Demanèche S, Dawson L, Azulay C, Matan O, Robe P, Gafny R, Simonet P, Jurkevitch E, Pasternak Z (2017) Soil characterisation by bacterial community analysis for forensic applications: a quantitative comparison of environmental technologies. Forensic Sci Int Genet 26:21–29.  https://doi.org/10.1016/j.fsigen.2016.10.005 CrossRefPubMedGoogle Scholar
  10. Haldar S, Nazareth SW (2018) Taxonomic diversity of bacteria from mangrove sediments of Goa: metagenomic and functional analysis. 3 Biotech 8(10):436.  https://doi.org/10.1007/s13205-018-1441-6 CrossRefPubMedGoogle Scholar
  11. Jiang YX, Wu JG, Yu KQ, Ai CX, Zou F, Zhou HW (2011) Integrated lysis procedures reduce extraction biases of microbial DNA from mangrove sediment. J Biosci Bioeng 111(2):153–157.  https://doi.org/10.1016/j.jbiosc.2010.10.006 CrossRefPubMedGoogle Scholar
  12. Nayak S, Gonsalves V, Nazareth S (2012) Isolation and salt tolerance of halophilic fungi from mangroves and solar salterns in Goa—India. Ind J Geo-Mar Sci 41:164–172Google Scholar
  13. Nazareth S, Nayak S, Gonsalves V (2011) Occurrence of the halophilic black yeast Hortaea werneckii in brackish waters of mangroves and hypersaline salterns of Goa—India. Kavaka 39:23–26Google Scholar
  14. Nazareth S, Gaitonde S, Marbaniang T (2012) Metal resistance of halotolerant fungi from mangroves and salterns of Goa—India. Kavaka 40:73–85Google Scholar
  15. Nogueira-Melo GS, Santos PJ, Gibertoni TB (2014) The community structure of macroscopic basidiomycetes (Fungi) in Brazilian mangroves influenced by temporal and spatial variations. Rev Biol Trop 62(4):1587–1595CrossRefGoogle Scholar
  16. Peng M, Xie Q, Hu H, Hong K, Todd JD, Johnston AW, Li Y (2012) Phylogenetic diversity of the dddP gene for dimethylsulfoniopropionate-dependent dimethyl sulfide synthesis in mangrove soils. Can J Microbiol 58(4):523–530.  https://doi.org/10.1139/w2012-019 CrossRefPubMedGoogle Scholar
  17. Sharma A, Lal R (2017) Survey of (Meta)genomic approaches for understanding microbial community dynamics. Indian J Microbiol 57(1):23–38.  https://doi.org/10.1007/s12088-016-0629-x CrossRefPubMedGoogle Scholar
  18. Simoes MF, Antunes A, Ottoni CA, Amini MS, Alam I, Alzubaidy H, Mokhtar NA, Archer JA, Bajic VB (2015) Soil and rhizosphere associated fungi in gray Mangroves (Avicennia marina) from the Red Sea—a metagenomic approach. Genomics Proteomics Bioinformatics 13(5):310–320.  https://doi.org/10.1016/j.gpb.2015.07.002 CrossRefPubMedPubMedCentralGoogle Scholar
  19. Thompson CE, Beys-da-Silva WO, Santi L, Berger M, Vainstein MH, Guima Rães JA, Vasconcelos AT (2013) A potential source for cellulolytic enzyme discovery and environmental aspects revealed through metagenomics of Brazilian mangroves. AMB Exp 3(1):65.  https://doi.org/10.1186/2191-0855-3-65 CrossRefGoogle Scholar
  20. Verma AK, Raghukumar C, Verma P, Shouche YS, Naik CG (2010) Four marine-derived fungi for bioremediation of raw textile mill effluents. Biodegradation 21(2):217–233.  https://doi.org/10.1007/s10532-009-9295-6 CrossRefPubMedGoogle Scholar

Copyright information

© King Abdulaziz City for Science and Technology 2019

Authors and Affiliations

  1. 1.Department of MicrobiologyGoa UniversityTaleigao PlateauIndia

Personalised recommendations