Abiriga D, Jenkins A, Alfsnes K, Vestgarden LS, Klempe H (2021a) Characterisation of the bacterial microbiota of a landfill-contaminated confined aquifer undergoing intrinsic remediation. Sci Total Environ 785:147349
Article
CAS
Google Scholar
Abiriga D, Jenkins A, Alfsnes K, Vestgarden LS, Klempe H (2021b) Spatiotemporal and seasonal dynamics in the microbial communities of a landfill-leachate contaminated aquifer. FEMS Microbiol Ecol 97(7):fiab086
Article
CAS
PubMed
PubMed Central
Google Scholar
Abiriga D, Jenkins A, Vestgarden LS, Klempe H (2021c) A nature-based solution to a landfill-leachate contamination of a confined aquifer. Sci Rep 11(1):1–12
Article
Google Scholar
Abiriga D, Vestgarden LS, Klempe H (2020) Groundwater contamination from a municipal landfill: effect of age, landfill closure, and season on groundwater chemistry. Sci Total Environ 737:140307
Article
CAS
PubMed
Google Scholar
Abiriga D, Vestgarden LS, Klempe H (2021d) Long-term redox conditions in a landfill-leachate-contaminated groundwater. Sci Total Environ 755:143725
Article
CAS
PubMed
Google Scholar
Anderson MJ (2001) A new method for non-parametric multivariate analysis of variance. Austral Ecol 26(1):32–46
Google Scholar
Anderson MJ (2006) Distance-based tests for homogeneity of multivariate dispersions. Biometrics 62(1):245–253
Article
PubMed
Google Scholar
Apprill A, McNally S, Parsons R, Weber L (2015) Minor revision to V4 region SSU rRNA 806R gene primer greatly increases detection of SAR11 bacterioplankton. Aquat Microb Ecol 75(2):129–137
Article
Google Scholar
Banerjee S, Schlaeppi K, van der Heijden MG (2018) Keystone taxa as drivers of microbiome structure and functioning. Nat Rev Microbiol 16(9):567–576
Article
CAS
PubMed
Google Scholar
Barberán A, Bates ST, Casamayor EO, Fierer N (2012) Using network analysis to explore co-occurrence patterns in soil microbial communities. ISME J 6(2):343–351
Article
PubMed
Google Scholar
Bastian M, Heymann S, Jacomy M (2009) Gephi: an open source software for exploring and manipulating networks
Google Scholar
Bjerg PL, Tuxen N, Reitzel LA, Albrechtsen HJ, Kjeldsen P (2011) Natural attenuation processes in landfill leachate plumes at three Danish sites. Groundwater 49(5):688–705
Article
CAS
Google Scholar
Bolyen E, Rideout JR, Dillon MR, Bokulich NA, Abnet CC, Al-Ghalith GA, Alexander H, Alm EJ, Arumugam M, Asnicar F (2019) Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2. Nat Biotechnol 37(8):852–857
Article
CAS
PubMed
PubMed Central
Google Scholar
Borcard D, Legendre P, Drapeau P (1992) Partialling out the spatial component of ecological variation. Ecology 73(3):1045–1055
Article
Google Scholar
Brown CT, Hug LA, Thomas BC, Sharon I, Castelle CJ, Singh A, Wilkins MJ, Wrighton KC, Williams KH, Banfield JF (2015) Unusual biology across a group comprising more than 15% of domain Bacteria. Nature 523(7559):208–211
Article
CAS
PubMed
Google Scholar
Callahan BJ, McMurdie PJ, Rosen MJ, Han AW, Johnson AJA, Holmes SP (2016) DADA2: high-resolution sample inference from Illumina amplicon data. Nat Methods 13(7):581
Article
CAS
PubMed
PubMed Central
Google Scholar
Castelle CJ, Brown CT, Anantharaman K, Probst AJ, Huang RH, Banfield JF (2018) Biosynthetic capacity, metabolic variety and unusual biology in the CPR and DPANN radiations. Nat Rev Microbiol 16(10):629–645
Article
CAS
PubMed
Google Scholar
Christensen TH, Bjerg PL, Kjeldsen P (2000) Natural attenuation: a feasible approach to remediation of ground water pollution at landfills? Ground Water Monit Remed 20(1):69–77
Article
CAS
Google Scholar
Christensen TH, Kjeldsen P, Bjerg PL, Jensen DL, Christensen JB, Baun A, Albrechtsen H-J, Heron G (2001) Biogeochemistry of landfill leachate plumes. Appl Geochem 16(7-8):659–718
Article
CAS
Google Scholar
Csardi G, Nepusz T (2006) The igraph software package for complex network research. Int J Complex Syst 1695(5):1–9
Google Scholar
de Vries FT, Griffiths RI, Bailey M, Craig H, Girlanda M, Gweon HS, Hallin S, Kaisermann A, Keith AM, Kretzschmar M (2018) Soil bacterial networks are less stable under drought than fungal networks. Nat Commun 9(1):1–12
Article
Google Scholar
Eggen T, Moeder M, Arukwe A (2010) Municipal landfill leachates: a significant source for new and emerging pollutants. Sci Total Environ 408(21):5147–5157
Article
CAS
PubMed
Google Scholar
Erdős P, Rényi A (1960) On the evolution of random graphs. Publ Math Inst Hung Acad Sci 5(1):17–60
Google Scholar
Fadrosh DW, Ma B, Gajer P, Sengamalay N, Ott S, Brotman RM, Ravel J (2014) An improved dual-indexing approach for multiplexed 16S rRNA gene sequencing on the Illumina MiSeq platform. Microbiome 2(1):6
Article
PubMed
PubMed Central
Google Scholar
Faust K, Raes J (2012) Microbial interactions: from networks to models. Nat Rev Microbiol 10(8):538–550
Article
CAS
PubMed
Google Scholar
Fuhrman JA (2009) Microbial community structure and its functional implications. Nature 459(7244):193–199
Article
CAS
PubMed
Google Scholar
Gotelli NJ, Hart EM, Ellison AM (2015) EcoSimR: null model analysis for ecological data. R package version 0.1.0. https://doi.org/10.5281/zenodo.16522http://github.com/gotellilab/EcoSimR
Book
Google Scholar
Griebler C, Lueders T (2009) Microbial biodiversity in groundwater ecosystems. Freshw Biol 54(4):649–677
Article
Google Scholar
Griebler C, Malard F, Lefébure T (2014) Current developments in groundwater ecology—from biodiversity to ecosystem function and services. Curr Opin Biotechnol 27:159–167
Article
CAS
PubMed
Google Scholar
Guo B, Zhang L, Sun H, Gao M, Yu N, Zhang Q et al (2022) Microbial co-occurrence network topological properties link with reactor parameters and reveal importance of low-abundance genera. npj Biofilms Microbiomes 8(1):1–13
Article
Google Scholar
Herrmann M, Wegner C-E, Taubert M, Geesink P, Lehmann K, Yan L, Lehmann R, Totsche KU, Küsel K (2019) Predominance of Cand. Patescibacteria in groundwater is caused by their preferential mobilization from soils and flourishing under oligotrophic conditions. Front Microbiol 10:1407
Article
PubMed
PubMed Central
Google Scholar
Herzyk A, Fillinger L, Larentis M, Qiu S, Maloszewski P, Hünniger M, Schmidt SI, Stumpp C, Marozava S, Knappett PS (2017) Response and recovery of a pristine groundwater ecosystem impacted by toluene contamination–a meso-scale indoor aquifer experiment. J Contam Hydrol 207:17–30
Article
CAS
PubMed
Google Scholar
Horner-Devine MC, Silver JM, Leibold MA, Bohannan BJ, Colwell RK, Fuhrman JA, Green JL, Kuske CR, Martiny JB, Muyzer G (2007) A comparison of taxon co-occurrence patterns for macro-and microorganisms. Ecology 88(6):1345–1353
Article
PubMed
Google Scholar
Ju F, Xia Y, Guo F, Wang Z, Zhang T (2014) Taxonomic relatedness shapes bacterial assembly in activated sludge of globally distributed wastewater treatment plants. Environ Microbiol 16(8):2421–2432
Article
CAS
PubMed
Google Scholar
Kantor RS, Wrighton KC, Handley KM, Sharon I, Hug LA, Castelle CJ, Thomas BC, Banfield JF (2013) Small genomes and sparse metabolisms of sediment-associated bacteria from four candidate phyla. MBio 4(5):e00708–e00713
Article
PubMed
PubMed Central
Google Scholar
Kjeldsen P, Barlaz MA, Rooker AP, Baun A, Ledin A, Christensen TH (2002) Present and long-term composition of MSW landfill leachate: a review. Crit Rev Environ Sci Technol 32(4):297–336
Article
CAS
Google Scholar
Klempe H (2004) Identification of Quaternary subsurface glacial deposits using 3D databases and GIS. Nor Geogr Tidsskr 58(2):90–95
Article
Google Scholar
Klempe H (2015) The hydrogeological and cultural background for two sacred springs, Bø, Telemark County, Norway. Quat Int 368:31–42
Article
Google Scholar
Konopka A, Lindemann S, Fredrickson J (2015) Dynamics in microbial communities: unraveling mechanisms to identify principles. ISME J 9(7):1488–1495
Article
PubMed
Google Scholar
Lane D (1991) 16S/23S rRNA sequencing. Wiley, Chichester
Google Scholar
Legendre P, Gallagher ED (2001) Ecologically meaningful transformations for ordination of species data. Oecologia 129(2):271–280
Article
PubMed
Google Scholar
Liu C, Cui Y, Li X, Yao M (2021) microeco: an R package for data mining in microbial community ecology. FEMS Microbiol Ecol 97(2):fiaa255
Article
CAS
PubMed
Google Scholar
Lu Z, He Z, Parisi VA, Kang S, Deng Y, Van Nostrand JD, Masoner JR, Cozzarelli IM, Suflita JM, Zhou J (2012) GeoChip-based analysis of microbial functional gene diversity in a landfill leachate-contaminated aquifer. Environ Sci Technol 46(11):5824–5833
Article
CAS
PubMed
Google Scholar
Lupatini M, Suleiman AK, Jacques RJ, Antoniolli ZI, de Siqueira Ferreira A, Kuramae EE, Roesch LF (2014) Network topology reveals high connectance levels and few key microbial genera within soils. Front Environ Sci 2:10
Article
Google Scholar
Masoner JR, Kolpin DW, Cozzarelli IM, Smalling KL, Bolyard SC, Field JA, Furlong ET, Gray JL, Lozinski D, Reinhart D (2020) Landfill leachate contributes per-/poly-fluoroalkyl substances (PFAS) and pharmaceuticals to municipal wastewater. Environ Sci Water Res Technol 6(5):1300–1311
Article
CAS
Google Scholar
McMurdie PJ, Holmes S (2013) phyloseq: an R package for reproducible interactive analysis and graphics of microbiome census data. PLoS One 8(4):e61217
Article
CAS
PubMed
PubMed Central
Google Scholar
Miller AD, Roxburgh SH, Shea K (2011) How frequency and intensity shape diversity–disturbance relationships. Proc Natl Acad Sci 108(14):5643–5648
Article
CAS
PubMed
PubMed Central
Google Scholar
Moody CM, Townsend TG (2017) A comparison of landfill leachates based on waste composition. Waste Manag 63:267–274
Article
CAS
PubMed
Google Scholar
Mouser PJ, Rizzo DM, Röling WF, van Breukelen BM (2005) A multivariate statistical approach to spatial representation of groundwater contamination using hydrochemistry and microbial community profiles. Environ Sci Technol 39(19):7551–7559
Article
CAS
PubMed
Google Scholar
Oksanen, J., Blanchet, F.G., Friendly, M., Kindt, R., Legendre, P., McGlinn, D., Minchin, PR; O’Hara R.B., Simpson G. L.; Solymos P., Stevens M.H. H.; Szoecs E., Wagner H. (2019) vegan: community ecology package, https://CRAN.R-project.org/package=vegan.
Google Scholar
Pascual J, Foesel BU, Geppert A, Huber KJ, Boedeker C, Luckner M, Wanner G, Overmann J (2018) Roseisolibacter agri gen. nov., sp. nov., a novel slow-growing member of the under-represented phylum Gemmatimonadetes. Int J Syst Evol Microbiol 68(4):1028–1036
Article
CAS
PubMed
Google Scholar
Pilloni G, Bayer A, Ruth-Anneser B, Fillinger L, Engel M, Griebler C, Lueders T (2019) Dynamics of hydrology and anaerobic hydrocarbon degrader communities in a tar-oil contaminated aquifer. Microorganisms 7(2):46
Article
CAS
PubMed Central
Google Scholar
Rajasekar A, Sekar R, Medina-Roldan E, Bridge J, Moy CK, Wilkinson S (2018) Next-generation sequencing showing potential leachate influence on bacterial communities around a landfill in China. Can J Microbiol 64(8):537–549
Article
CAS
PubMed
Google Scholar
R-Core-Team (2020) R: a language and environment for statistical computing. R Foundation for Statistical Computing, Vienna https://www.R-project.org/
Google Scholar
Smith HJ, Zelaya AJ, De León KB, Chakraborty R, Elias DA, Hazen TC, Arkin AP, Cunningham AB, Fields MW (2018) Impact of hydrologic boundaries on microbial planktonic and biofilm communities in shallow terrestrial subsurface environments. FEMS Microbiol Ecol 94(12):fiy191
Article
CAS
PubMed Central
Google Scholar
Song H-S, Renslow RS, Fredrickson JK, Lindemann SR (2015a) Integrating ecological and engineering concepts of resilience in microbial communities. Front Microbiol 6:1298
Article
PubMed
PubMed Central
Google Scholar
Song L, Wang Y, Zhao H, Long DT (2015b) Composition of bacterial and archaeal communities during landfill refuse decomposition processes. Microbiol Res 181:105–111
Article
PubMed
Google Scholar
Staley BF, Francis L, Wang L, Barlaz MA (2018) Microbial ecological succession during municipal solid waste decomposition. Appl Microbiol Biotechnol 102(13):5731–5740
Article
CAS
PubMed
Google Scholar
Stegen JC, Lin X, Konopka AE, Fredrickson JK (2012) Stochastic and deterministic assembly processes in subsurface microbial communities. ISME J 6(9):1653–1664
Article
CAS
PubMed
PubMed Central
Google Scholar
Svensson JR, Lindegarth M, Jonsson PR, Pavia H (2012) Disturbance–diversity models: what do they really predict and how are they tested? Proc R Soc B Biol Sci 279(1736):2163–2170
Article
Google Scholar
Taş N, Brandt BW, Braster M, van Breukelen BM, Röling WF (2018) Subsurface landfill leachate contamination affects microbial metabolic potential and gene expression in the Banisveld aquifer. FEMS Microbiol Ecol 94(10):fiy156
Article
Google Scholar
Williams RJ, Howe A, Hofmockel KS (2014) Demonstrating microbial co-occurrence pattern analyses within and between ecosystems. Front Microbiol 5:358
Article
PubMed
PubMed Central
Google Scholar
Winkler LW (1888) Die bestimmung des im wasser gelösten sauerstoffes. Ber Dtsch Chem Ges 21(2):2843–2854
Article
Google Scholar
Wrighton KC, Thomas BC, Sharon I, Miller CS, Castelle CJ, VerBerkmoes NC, Wilkins MJ, Hettich RL, Lipton MS, Williams KH (2012) Fermentation, hydrogen, and sulfur metabolism in multiple uncultivated bacterial phyla. Science 337(6102):1661–1665
Article
CAS
PubMed
Google Scholar
Zainun MY, Simarani K (2018) Metagenomics profiling for assessing microbial diversity in both active and closed landfills. Sci Total Environ 616:269–278
Article
PubMed
Google Scholar
Zhang H, Sekiguchi Y, Hanada S, Hugenholtz P, Kim H, Kamagata Y, Nakamura K (2003) Gemmatimonas aurantiaca gen. nov., sp. nov., a Gram-negative, aerobic, polyphosphate-accumulating micro-organism, the first cultured representative of the new bacterial phylum Gemmatimonadetes phyl. nov. J Med Microbiol 53(4):1155–1163
CAS
Google Scholar
Zhao R, Feng J, Yin X, Liu J, Fu W, Berendonk TU, Zhang T, Li X, Li B (2018) Antibiotic resistome in landfill leachate from different cities of China deciphered by metagenomic analysis. Water Res 134:126–139
Article
CAS
PubMed
Google Scholar
Zhou J, Deng Y, Zhang P, Xue K, Liang Y, Van Nostrand JD, Yang Y, He Z, Wu L, Stahl DA (2014) Stochasticity, succession, and environmental perturbations in a fluidic ecosystem. Proc Natl Acad Sci 111(9):E836–E845
Article
CAS
PubMed
PubMed Central
Google Scholar