Diversity of Fungal DNA in Lake Sediments on Vega Island, North-east Antarctic Peninsula Assessed Using DNA Metabarcoding

Overview

Journal Extremophiles

Publisher Springer

Date 2021 Apr 10

PMID 33837855

Citations 7

Authors

Mayara Baptistucci Ogaki

Paulo Eduardo Aguiar Saraiva Camara

Otavio Henrique Bezerra Pinto

Juan Manuel Lirio

Silvia H Coria

Rosemary Vieira

Micheline Carvalho-Silva

Peter Convey

Carlos Augusto Rosa

Luiz Henrique Rosa

Affiliations

Soon will be listed here.

Abstract

We assessed the diversity of fungal DNA present in sediments of three lakes on Vega Island, north-east Antarctic Peninsula using metabarcoding through high-throughput sequencing (HTS). A total of 640,902 fungal DNA reads were detected, which were assigned to 224 taxa of the phyla Ascomycota, Rozellomycota, Basidiomycota, Chytridiomycota and Mortierellomycota, in rank order of abundance. The most abundant genera were Pseudogymnoascus, Penicillium and Mortierella. However, a majority (423,508, 66%) of the reads, representing by 43 ASVs, could only be assigned at higher taxonomic levels and may represent taxa not currently included in the sequence databases used or be new or previously unreported taxa present in Antarctic lakes. The three lakes were characterized by high sequence diversity, richness, and moderate dominance indices. The ASVs were dominated by psychrotolerant and cosmopolitan cold-adapted Ascomycota, Basidiomycota and Mortierellomycota commonly reported in Antarctic environments. However, other taxa detected included unidentified members of Rozellomycota and Chytridiomycota species not previously reported in Antarctic lakes. The assigned diversity was composed mainly of taxa recognized as decomposers and pathogens of plants and invertebrates.

Citing Articles

High diversity of fungal ecological groups from ice-free pristine and disturbed areas in the Fildes Peninsula, King George Island, Antarctica.

Garnica S, Soto-Rauch G, Leffler E, Nunez C, Gomez-Espinoza J, Romero E PLoS One. 2025; 20(1):e0317571.

PMID: 39841713 PMC: 11753637. DOI: 10.1371/journal.pone.0317571.

Bacterial Diversity, Metabolic Profiling, and Application Potential of Antarctic Soil Metagenomes.

Fernandez M, Barahona S, Gutierrez F, Alcaino J, Cifuentes V, Baeza M Curr Issues Mol Biol. 2024; 46(11):13165-13178.

PMID: 39590379 PMC: 11593224. DOI: 10.3390/cimb46110785.

A Deep Insight into the Diversity of Microfungal Communities in Arctic and Antarctic Lakes.

Marchetta A, Papale M, Rappazzo A, Rizzo C, Camacho A, Rochera C J Fungi (Basel). 2023; 9(11).

PMID: 37998900 PMC: 10672340. DOI: 10.3390/jof9111095.

Environmental DNA reveals diversity and abundance of species in neighbouring heterogeneous landscapes in Worcester, UK.

Apangu G, Frisk C, Petch G, Muggia L, Pallavicini A, Hanson M Aerobiologia (Bologna). 2022; 38(4):457-481.

PMID: 36471880 PMC: 9715499. DOI: 10.1007/s10453-022-09760-9.

A comprehensive assessment of fungal communities in various habitats from an ice-free area of maritime Antarctica: diversity, distribution, and ecological trait.

Zhang T, Yan D, Ji Z, Chen X, Yu L Environ Microbiome. 2022; 17(1):54.

PMID: 36380397 PMC: 9667611. DOI: 10.1186/s40793-022-00450-0.

References

Bokulich N, Kaehler B, Rideout J, Dillon M, Bolyen E, Knight R . Optimizing taxonomic classification of marker-gene amplicon sequences with QIIME 2's q2-feature-classifier plugin. Microbiome. 2018; 6(1):90. PMC: 5956843. DOI: 10.1186/s40168-018-0470-z. View

Bolyen E, Rideout J, Dillon M, Bokulich N, Abnet C, Al-Ghalith G . Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2. Nat Biotechnol. 2019; 37(8):852-857. PMC: 7015180. DOI: 10.1038/s41587-019-0209-9. View

Brunati M, Rojas J, Sponga F, Ciciliato I, Losi D, Gottlich E . Diversity and pharmaceutical screening of fungi from benthic mats of Antarctic lakes. Mar Genomics. 2011; 2(1):43-50. DOI: 10.1016/j.margen.2009.04.002. View

Callahan B, McMurdie P, Rosen M, Han A, Johnson A, Holmes S . DADA2: High-resolution sample inference from Illumina amplicon data. Nat Methods. 2016; 13(7):581-3. PMC: 4927377. DOI: 10.1038/nmeth.3869. View

Chen S, Yao H, Han J, Liu C, Song J, Shi L . Validation of the ITS2 region as a novel DNA barcode for identifying medicinal plant species. PLoS One. 2010; 5(1):e8613. PMC: 2799520. DOI: 10.1371/journal.pone.0008613. View

da Silva T, Silva D, de Oliveira F, Schaefer C, Rosa C, Henrique Rosa L . Diversity, distribution, and ecology of viable fungi in permafrost and active layer of Maritime Antarctica. Extremophiles. 2020; 24(4):565-576. DOI: 10.1007/s00792-020-01176-y. View

de Menezes G, Porto B, Amorim S, Zani C, Alves T, Ademar Sales Junior P . Fungi in glacial ice of Antarctica: diversity, distribution and bioprospecting of bioactive compounds. Extremophiles. 2020; 24(3):367-376. DOI: 10.1007/s00792-020-01161-5. View

de Menezes G, Camara P, Pinto O, Carvalho-Silva M, Oliveira F, Souza C . Fungal diversity present on rocks from a polar desert in continental Antarctica assessed using DNA metabarcoding. Extremophiles. 2021; 25(2):193-202. DOI: 10.1007/s00792-021-01221-4. View

de Souza L, Ogaki M, Camara P, Pinto O, Convey P, Carvalho-Silva M . Assessment of fungal diversity present in lakes of Maritime Antarctica using DNA metabarcoding: a temporal microcosm experiment. Extremophiles. 2021; 25(1):77-84. DOI: 10.1007/s00792-020-01212-x. View

10.

Deiner K, Bik H, Machler E, Seymour M, Lacoursiere-Roussel A, Altermatt F . Environmental DNA metabarcoding: Transforming how we survey animal and plant communities. Mol Ecol. 2017; 26(21):5872-5895. DOI: 10.1111/mec.14350. View

11.

Giner C, Forn I, Romac S, Logares R, de Vargas C, Massana R . Environmental Sequencing Provides Reasonable Estimates of the Relative Abundance of Specific Picoeukaryotes. Appl Environ Microbiol. 2016; 82(15):4757-4766. PMC: 4984273. DOI: 10.1128/AEM.00560-16. View

12.

Godinho V, Furbino L, Santiago I, Pellizzari F, Yokoya N, Pupo D . Diversity and bioprospecting of fungal communities associated with endemic and cold-adapted macroalgae in Antarctica. ISME J. 2013; 7(7):1434-51. PMC: 3695302. DOI: 10.1038/ismej.2013.77. View

13.

Godinho V, Goncalves V, Santiago I, Figueredo H, Vitoreli G, Schaefer C . Diversity and bioprospection of fungal community present in oligotrophic soil of continental Antarctica. Extremophiles. 2015; 19(3):585-96. DOI: 10.1007/s00792-015-0741-6. View

14.

Gomes E, Godinho V, Silva D, de Paula M, Vitoreli G, Zani C . Cultivable fungi present in Antarctic soils: taxonomy, phylogeny, diversity, and bioprospecting of antiparasitic and herbicidal metabolites. Extremophiles. 2018; 22(3):381-393. DOI: 10.1007/s00792-018-1003-1. View

15.

Goncalves V, Vaz A, Rosa C, Rosa L . Diversity and distribution of fungal communities in lakes of Antarctica. FEMS Microbiol Ecol. 2012; 82(2):459-71. DOI: 10.1111/j.1574-6941.2012.01424.x. View

16.

Hering D, Borja A, Jones J, Pont D, Boets P, Bouchez A . Implementation options for DNA-based identification into ecological status assessment under the European Water Framework Directive. Water Res. 2018; 138:192-205. DOI: 10.1016/j.watres.2018.03.003. View

17.

Kagami M, Miki T, Takimoto G . Mycoloop: chytrids in aquatic food webs. Front Microbiol. 2014; 5:166. PMC: 4001071. DOI: 10.3389/fmicb.2014.00166. View

18.

Laybourn-Parry J, Pearce D . The biodiversity and ecology of Antarctic lakes: models for evolution. Philos Trans R Soc Lond B Biol Sci. 2007; 362(1488):2273-89. PMC: 2443172. DOI: 10.1098/rstb.2006.1945. View

19.

Letcher P, Powell M . A taxonomic summary and revision of (). IMA Fungus. 2019; 9:383-399. PMC: 6317583. DOI: 10.5598/imafungus.2018.09.02.09. View

20.

Lorch J, Lindner D, Gargas A, Muller L, Minnis A, Blehert D . A culture-based survey of fungi in soil from bat hibernacula in the eastern United States and its implications for detection of Geomyces destructans, the causal agent of bat white-nose syndrome. Mycologia. 2012; 105(2):237-52. DOI: 10.3852/12-207. View