The Functional Biogeography of eDNA Metacommunities in the Post-Fire Landscape of the Angeles National Forest

被引:6
作者
Senn, Savanah [1 ,2 ]
Bhattacharyya, Sharmodeep [2 ,3 ]
Presley, Gerald [2 ,4 ]
Taylor, Anne E. [2 ,5 ]
Nash, Bruce [6 ]
Enke, Ray A. [7 ]
Barnard-Kubow, Karen B. [7 ]
Ford, Jillian [1 ]
Jasinski, Brandon [1 ]
Badalova, Yekaterina [1 ]
机构
[1] Los Angeles Pierce Coll, Dept Agr Sci, 6201 Winnetka Ave,PMB 553, Woodland Hills, CA 91304 USA
[2] Oregon State Univ, Environm Sci Grad Program, Corvallis, OR 97331 USA
[3] Oregon State Univ, Dept Stat, Corvallis, OR 97331 USA
[4] Oregon State Univ, Dept Wood Sci & Engn, Corvallis, OR 97331 USA
[5] Oregon State Univ, Dept Crop & Soil Sci, Corvallis, OR 97331 USA
[6] Cold Spring Harbor Lab, DNA Learning Ctr, Cold Spring Harbor, NY 11724 USA
[7] James Madison Univ, Ctr Genome & Metagenome Studies, Dept Biol, Harrisonburg, VA 22807 USA
基金
美国国家科学基金会;
关键词
DNA sequencing; functional diversity; molecular ecology; MICROBIAL COMMUNITY; DIVERSITY; SEQUENCES; SELECTION; ROOT;
D O I
10.3390/microorganisms10061218
中图分类号
Q93 [微生物学];
学科分类号
071005 ; 100705 ;
摘要
Wildfires have continued to increase in frequency and severity in Southern California due in part to climate change. To gain a further understanding of microbial soil communities' response to fire and functions that may enhance post-wildfire resilience, soil fungal and bacterial microbiomes were studied from different wildfire areas in the Gold Creek Preserve within the Angeles National Forest using 16S, FITS, 18S, 12S, PITS, and COI amplicon sequencing. Sequencing datasets from December 2020 and June 2021 samplings were analyzed using QIIME2, ranacapa, stats, vcd, EZBioCloud, and mixomics. Significant differences were found among bacterial and fungal taxa associated with different fire areas in the Gold Creek Preserve. There was evidence of seasonal shifts in the alpha diversity of the bacterial communities. In the sparse partial least squares analysis, there were strong associations (r > 0.8) between longitude, elevation, and a defined cluster of Amplicon Sequence Variants (ASVs). The Chi-square test revealed differences in fungi-bacteria (F:B) proportions between different trails (p = 2 x 10(-16)). sPLS results focused on a cluster of Green Trail samples with high elevation and longitude. Analysis revealed the cluster included the post-fire pioneer fungi Pyronema and Tremella. Chlorellales algae and possibly pathogenic Fusarium sequences were elevated. Bacterivorous Corallococcus, which secretes antimicrobials, and bacterivorous flagellate Spumella were associated with the cluster. There was functional redundancy in clusters that were differently composed but shared similar ecological functions. These results implied a set of traits for post-fire resiliency. These included photo-autotrophy, mineralization of pyrolyzed organic matter and aromatic/oily compounds, potential pathogenicity and parasitism, antimicrobials, and N-metabolism.
引用
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页数:21
相关论文
共 75 条
[1]   Selection and screening of fungal endophytes against wheat pathogens [J].
Abaya, Abdurraouf ;
Xue, Allen ;
Hsiang, Tom .
BIOLOGICAL CONTROL, 2021, 154
[2]  
[Anonymous], 2014, Proceedings of the 2014 Annual Conference on Extreme Science and Engineering Discovery Environment-XSEDE, DOI DOI 10.1145/2616498.2616575
[3]   Fifty important research questions in microbial ecology [J].
Antwis, Rachael E. ;
Griffiths, Sarah M. ;
Harrison, Xavier A. ;
Aranega-Bou, Paz ;
Arce, Andres ;
Bettridge, Aimee S. ;
Brailsford, Francesca L. ;
de Menezes, Alexandre ;
Devaynes, Andrew ;
Forbes, Kristian M. ;
Fry, Ellen L. ;
Goodhead, Ian ;
Haskell, Erin ;
Heys, Chloe ;
James, Chloe ;
Johnston, Sarah R. ;
Lewis, Gillian R. ;
Lewis, Zenobia ;
Macey, Michael C. ;
McCarthy, Alan ;
McDonald, James E. ;
Mejia-Florez, Nasmille L. ;
O'Brien, David ;
Orland, Chloe ;
Pautasso, Marco ;
Reid, William D. K. ;
Robinson, Heather A. ;
Wilson, Kenneth ;
Sutherland, William J. .
FEMS MICROBIOLOGY ECOLOGY, 2017, 93 (05)
[4]   Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2 [J].
Bolyen, Evan ;
Rideout, Jai Ram ;
Dillon, Matthew R. ;
Bokulich, NicholasA. ;
Abnet, Christian C. ;
Al-Ghalith, Gabriel A. ;
Alexander, Harriet ;
Alm, Eric J. ;
Arumugam, Manimozhiyan ;
Asnicar, Francesco ;
Bai, Yang ;
Bisanz, Jordan E. ;
Bittinger, Kyle ;
Brejnrod, Asker ;
Brislawn, Colin J. ;
Brown, C. Titus ;
Callahan, Benjamin J. ;
Caraballo-Rodriguez, Andres Mauricio ;
Chase, John ;
Cope, Emily K. ;
Da Silva, Ricardo ;
Diener, Christian ;
Dorrestein, Pieter C. ;
Douglas, Gavin M. ;
Durall, Daniel M. ;
Duvallet, Claire ;
Edwardson, Christian F. ;
Ernst, Madeleine ;
Estaki, Mehrbod ;
Fouquier, Jennifer ;
Gauglitz, Julia M. ;
Gibbons, Sean M. ;
Gibson, Deanna L. ;
Gonzalez, Antonio ;
Gorlick, Kestrel ;
Guo, Jiarong ;
Hillmann, Benjamin ;
Holmes, Susan ;
Holste, Hannes ;
Huttenhower, Curtis ;
Huttley, Gavin A. ;
Janssen, Stefan ;
Jarmusch, Alan K. ;
Jiang, Lingjing ;
Kaehler, Benjamin D. ;
Bin Kang, Kyo ;
Keefe, Christopher R. ;
Keim, Paul ;
Kelley, Scott T. ;
Knights, Dan .
NATURE BIOTECHNOLOGY, 2019, 37 (08) :852-857
[5]  
Boncristiani H.F., 2009, ENCY MICROBIOLOGY, P128
[6]   Disturbance alters the forest soil microbiome [J].
Bowd, Elle J. ;
Banks, Sam C. ;
Bissett, Andrew ;
May, Tom W. ;
Lindenmayer, David B. .
MOLECULAR ECOLOGY, 2022, 31 (02) :419-435
[7]   A simple pyrocosm for studying soil microbial response to fire reveals a rapid, massive response by Pyronema species [J].
Bruns, Thomas D. ;
Chung, Judy A. ;
Carver, Akiko A. ;
Glassman, Sydney, I .
PLOS ONE, 2020, 15 (03)
[8]  
California Air Resources Board, WILDF CLIM CHANG
[9]  
Callahan BJ, 2016, NAT METHODS, V13, P581, DOI [10.1038/NMETH.3869, 10.1038/nmeth.3869]
[10]   Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms [J].
Caporaso, J. Gregory ;
Lauber, Christian L. ;
Walters, William A. ;
Berg-Lyons, Donna ;
Huntley, James ;
Fierer, Noah ;
Owens, Sarah M. ;
Betley, Jason ;
Fraser, Louise ;
Bauer, Markus ;
Gormley, Niall ;
Gilbert, Jack A. ;
Smith, Geoff ;
Knight, Rob .
ISME JOURNAL, 2012, 6 (08) :1621-1624