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Microbial diversity in intensively farmed lake sediment contaminated by heavy metals and identification of microbial taxa bioindicators of environmental quality

  • 1.

    Vareda, J. P., Valente, A. J. M. & Durães, L. Assessment of heavy metal pollution from anthropogenic activities and remediation strategies: A review. J. Environ. Manage. 246, 101–118 (2019).

    CAS 
    PubMed 

    Google Scholar 

  • 2.

    Chanamé, F., Custodio, M., Poma-Chávez, C. & Huamán, A. Nutrient concentrations and trophic state of three Andean lakes from Junín, Perú. Rev. Ambient Agua 15, 1–9 (2020).

    Google Scholar 

  • 3.

    Bhardwaj, R., Gupta, A. & Garg, J. K. Evaluation of heavy metal contamination using environmetrics and indexing approach for River Yamuna, Delhi stretch, India. Water Sci. 31, 52–66 (2017).

    Google Scholar 

  • 4.

    Custodio, M. et al. Human risk from exposure to heavy metals and arsenic in water from rivers with mining influence in the Central Andes of Peru. Water (Switzerland) 12, 1–20 (2020).

    Google Scholar 

  • 5.

    Arisekar, U., Jeya, R., Shalini, R. & Jeyasekaran, G. Human health risk assessment of heavy metals in aquatic sediments and freshwater fish caught from Thamirabarani River, the Western Ghats of South Tamil Nadu. Mar. Pollut. Bull. 159, 111496 (2020).

    CAS 
    PubMed 

    Google Scholar 

  • 6.

    Chabukdhara, M. & Nema, A. K. Assessment of heavy metal contamination in Hindon River sediments: A chemometric and geochemical approach. Chemosphere 87, 945–953 (2012).

    CAS 
    PubMed 
    ADS 

    Google Scholar 

  • 7.

    Chai, L. et al. Heavy metals and metalloids in the surface sediments of the Xiangjiang River, Hunan, China: Distribution, contamination, and ecological risk assessment. Environ. Sci. Pollut. Res. 24, 874–885 (2017).

    CAS 

    Google Scholar 

  • 8.

    Liu, T. T. & Yang, H. Comparative analysis of the total and active bacterial communities in the surface sediment of Lake Taihu. FEMS Microbiol. Ecol. 96, 1–11 (2020).

    CAS 
    ADS 

    Google Scholar 

  • 9.

    Custodio, M. et al. Evaluation of surface sediment quality in rivers with fish farming potential (Peru) using indicators of contamination, accumulation and ecological risk of heavy metals and arsenic. J. Ecol. Eng. 22, 78–87 (2021).

    Google Scholar 

  • 10.

    Zhang, Z. et al. Assessment of heavy metal contamination, distribution and source identification in the sediments from the Zijiang River, China. Sci. Total Environ. 645, 235–243 (2018).

    CAS 
    PubMed 
    ADS 

    Google Scholar 

  • 11.

    Sojka, M., Jaskula, J. & Siepak, M. Heavy metals in bottom sediments of reservoirs in the lowland area of western Poland: Concentrations, distribution, sources and ecological risk. Water (Switzerland) 11, 1–20 (2018).

    Google Scholar 

  • 12.

    Xu, Z., Te, S. H., Xu, C., He, Y. & Gin, K. Y. H. Variations of bacterial community composition and functions in an estuary reservoir during spring and summer alternation. Toxins (Basel) 10, 1–22 (2018).

    CAS 

    Google Scholar 

  • 13.

    Xiao, F. et al. The impact of anthropogenic disturbance on bacterioplankton communities during the construction of Donghu Tunnel (Wuhan, China). Microb. Ecol. 77, 277–287 (2019).

    CAS 
    PubMed 

    Google Scholar 

  • 14.

    Wang, B. et al. Bacterial community responses to tourism development in the Xixi National Wetland Park, China. Sci. Total Environ. 720, 137570 (2020).

    CAS 
    PubMed 
    ADS 

    Google Scholar 

  • 15.

    Deng, W. et al. Heavy metals, antibiotics and nutrients affect the bacterial community and resistance genes in chicken manure composting and fertilized soil. J. Environ. Manage. 257, 109980 (2020).

    CAS 
    PubMed 

    Google Scholar 

  • 16.

    Gubelit, Y. et al. Nutrient and metal pollution of the eastern Gulf of Finland coastline: Sediments, macroalgae, microbiota. Sci. Total Environ. 550, 806–819 (2016).

    CAS 
    PubMed 
    ADS 

    Google Scholar 

  • 17.

    Wang, J. et al. Contribution of heavy metal in driving microbial distribution in a eutrophic river. Sci. Total Environ. 712, 136295 (2020).

    CAS 
    PubMed 
    ADS 

    Google Scholar 

  • 18.

    Liao, H. et al. Profiling microbial communities in a watershed undergoing intensive anthropogenic activities. Sci. Total Environ. 647, 1137–1147 (2019).

    CAS 
    PubMed 
    ADS 

    Google Scholar 

  • 19.

    Liu, J. et al. Spatiotemporal dynamics of the archaeal community in coastal sediments: Assembly process and co-occurrence relationship. ISME J. 14, 1463–1478 (2020).

    PubMed 
    PubMed Central 

    Google Scholar 

  • 20.

    Liao, H., Yen, J. Y., Guan, Y., Ke, D. & Liu, C. Differential responses of stream water and bed sediment microbial communities to watershed degradation. Environ. Int. 134, 105198 (2020).

    CAS 
    PubMed 

    Google Scholar 

  • 21.

    Song, H., Li, Z., Du, B., Wang, G. & Ding, Y. Bacterial communities in sediments of the shallow Lake Dongping in China. J. Appl. Microbiol. 112, 79–89 (2012).

    CAS 
    PubMed 

    Google Scholar 

  • 22.

    Ligi, T. et al. Characterization of bacterial communities in soil and sediment of a created riverine wetland complex using high-throughput 16S rRNA amplicon sequencing. Ecol. Eng. 72, 56–66 (2014).

    Google Scholar 

  • 23.

    Wilmes, P. et al. Natural acidophilic biofilm communities reflect distinct organismal and functional organization. ISME J. 3, 266–270 (2009).

    CAS 
    PubMed 

    Google Scholar 

  • 24.

    Mavromatis, K. et al. Use of simulated data sets to evaluate the fidelity of metagenomic processing methods. Nat. Methods. 4, 495–500 (2007).

    CAS 
    PubMed 

    Google Scholar 

  • 25.

    Yuan, X., Zhang, L., Li, J., Wang, C. & Ji, J. Sediment properties and heavy metal pollution assessment in the river, estuary and lake environments of a fluvial plain, China. CATENA 119, 52–60 (2014).

    CAS 

    Google Scholar 

  • 26.

    Lin, Q., Liu, E., Zhang, E., Li, K. & Shen, J. Spatial distribution, contamination and ecological risk assessment of heavy metals in surface sediments of Erhai Lake, a large eutrophic plateau lake in southwest China. CATENA 145, 193–203 (2016).

    CAS 

    Google Scholar 

  • 27.

    Guo, T. et al. Distribution of arsenic and its biotransformation genes in sediments from the East China Sea. Environ. Pollut. 253, 949–958 (2019).

    CAS 
    PubMed 

    Google Scholar 

  • 28.

    Taylor, S. R. & Mclennan, S. M. The geochemical the continental evolution crust. Rev. Miner. Geochem. 33, 241–265 (1995).

    Google Scholar 

  • 29.

    Lastauskienė, E. et al. The impact of intensive fish farming on pond sediment microbiome and antibiotic resistance gene composition. Front. Vet. Sci. 8, 1–12 (2021).

    Google Scholar 

  • 30.

    Ragab, S., Sikaily, A. E., Nemr, A. E. & Sea, R. Concentrations and sources of pesticides and PCBs in surficial sediments of the Red Sea coast, Egypt. Egypt. J. Aquat. Res. 42, 365–374 (2016).

    Google Scholar 

  • 31.

    Kavita, V. & Pandey, J. Heavy metal accumulation in surface sediments of the Ganga River (India): Speciation, fractionation, toxicity, and risk assessment. Environ. Monit. Assess. 191, 20 (2019).

    Google Scholar 

  • 32.

    Haghnazar, H. et al. Chemosphere Potentially toxic elements contamination in surface sediment and indigenous aquatic macrophytes of the Bahmanshir River, Iran: Appraisal of phytoremediation capability. 285, (2021).

  • 33.

    Perera, P. C. T., Sundarabarathy, T. V., Sivananthawerl, T., Kodithuwakku, S. P. & Edirisinghe, U. Arsenic and cadmium contamination in water, sediments and fish is a consequence of paddy cultivation: Evidence of river pollution in Sri Lanka. Achiev. Life Sci. 10, 144–160 (2016).

    Google Scholar 

  • 34.

    Kalantzi, I., Rico, A., Mylona, K., Pergantis, S. A. & Tsapakis, M. Fish farming, metals and antibiotics in the eastern Mediterranean Sea: Is there a threat to sediment wildlife?. Sci. Total Environ. 764, 142843 (2021).

    CAS 
    PubMed 
    ADS 

    Google Scholar 

  • 35.

    Monroy, M., Maceda-Veiga, A. & de Sostoa, A. Metal concentration in water, sediment and four fish species from Lake Titicaca reveals a large-scale environmental concern. Sci. Total Environ. 487, 233–244 (2014).

    CAS 
    PubMed 
    ADS 

    Google Scholar 

  • 36.

    Rodbell, D. T., Delman, E., Abbott, M., Besonen, M. & Tapia, P. The heavy metal contamination of Lake Junín National Reserve, Peru: An unintended consequence of the juxtaposition of hydroelectricity and mining. GSA Today 24, 4–10 (2014).

    Google Scholar 

  • 37.

    Ni, C. et al. High concentrations of bioavailable heavy metals impact freshwater sediment microbial communities. Ann. Microbiol. 66, 1003–1012 (2016).

    CAS 

    Google Scholar 

  • 38.

    Huang, W. et al. Comparison among the microbial communities in the lake, lake wetland, and estuary sediments of a plain river network. Microbiologyopen https://doi.org/10.1002/mbo3.644 (2018).

    Article 
    PubMed 
    PubMed Central 

    Google Scholar 

  • 39.

    Abia, A. L. K., Alisoltani, A., Keshri, J. & Ubomba-Jaswa, E. Metagenomic analysis of the bacterial communities and their functional profiles in water and sediments of the Apies River, South Africa, as a function of land use. Sci. Total Environ. 616–617, 326–334 (2018).

    PubMed 
    ADS 

    Google Scholar 

  • 40.

    Guo, X. et al. Characteristics of microbial community indicate anthropogenic impact on the sediments along the Yangtze Estuary and its coastal area, China. Sci. Total Environ. 648, 306–314 (2019).

    CAS 
    PubMed 
    ADS 

    Google Scholar 

  • 41.

    Betiku, O. C. et al. Evaluation of microbial diversity of three recreational water bodies using 16S rRNA metagenomic approach. Sci. Total Environ. 771, 144773 (2021).

    CAS 
    PubMed 
    ADS 

    Google Scholar 

  • 42.

    Zhang, T. et al. Suspended particles phoD alkaline phosphatase gene diversity in large shallow eutrophic Lake Taihu. Sci. Total Environ. 728, 138615 (2020).

    CAS 
    PubMed 
    ADS 

    Google Scholar 

  • 43.

    Shen, M. et al. Trophic status is associated with community structure and metabolic potential of planktonic microbiota in Plateau Lakes. Front. Microbiol. 10, 1–15 (2019).

    Google Scholar 

  • 44.

    Quero, G. M., Cassin, D., Botter, M., Perini, L. & Luna, G. M. Patterns of benthic bacterial diversity in coastal areas contaminated by heavy metals, polycyclic aromatic hydrocarbons (PAHs) and polychlorinated biphenyls (PCBs). Front. Microbiol. 6, 1–15 (2015).

    Google Scholar 

  • 45.

    Wang, Y. et al. Comparison of the levels of bacterial diversity in freshwater, intertidal wetland, and marine sediments by using millions of illumina tags. Appl. Environ. Microbiol. 78, 8264–8271 (2012).

    CAS 
    PubMed 
    PubMed Central 
    ADS 

    Google Scholar 

  • 46.

    Long, Y. et al. The response of microbial community structure and sediment properties to anthropogenic activities in Caohai wetland sediments. Ecotoxicol. Environ. Saf. 211, 111936 (2021).

    CAS 
    PubMed 

    Google Scholar 

  • 47.

    Yao, X., Zhang, J., Tian, L. & Guo, J. The effect of heavy metal contamination on the bacterial community structure at Jiaozhou Bay, China. Braz. J. Microbiol. 48, 71–78 (2017).

    CAS 
    PubMed 

    Google Scholar 

  • 48.

    Hur, M. & Park, S. J. Identification of microbial profiles in heavy-metal-contaminated soil from full-length 16s rRNA reads sequenced by a pacbio system. Microorganisms 7, 25 (2019).

    Google Scholar 

  • 49.

    Zhuang, M., Sanganyado, E., Li, P. & Liu, W. Distribution of microbial communities in metal-contaminated nearshore sediment from Eastern Guangdong, China. Environ. Pollut. 250, 482–492 (2019).

    CAS 
    PubMed 

    Google Scholar 

  • 50.

    Gu, Y. et al. Degradation shaped bacterial and archaeal communities with predictable taxa and their association patterns in Zoige wetland at Tibet plateau. Sci. Rep. 8, 1–11 (2018).

    ADS 

    Google Scholar 

  • 51.

    Newton, R. J., Jones, S. E., Eiler, A., McMahon, K. D. & Bertilsson, S. A guide to the natural history of freshwater lake bacteria. Microbiol. Mol. Biol. Rev. 75, 25 (2011).

    Google Scholar 

  • 52.

    Hu, A. et al. Strong impact of anthropogenic contamination on the co-occurrence patterns of a riverine microbial community. Environ. Microbiol. 19, 4993–5009 (2017).

    CAS 
    PubMed 

    Google Scholar 

  • 53.

    Ren, Z. et al. Taxonomic and functional differences between microbial communities in Qinghai Lake and its input streams. Front. Microbiol. 8, 1–14 (2017).

    Google Scholar 

  • 54.

    Yin, X. et al. Cadmium isotope constraints on heavy metal sources in a riverine system impacted by multiple anthropogenic activities. Sci. Total Environ. 750, 141233 (2021).

    CAS 
    PubMed 
    ADS 

    Google Scholar 

  • 55.

    Yan, C. et al. Integrating high-throughput sequencing and metagenome analysis to reveal the characteristic and resistance mechanism of microbial community in metal contaminated sediments. Sci. Total Environ. 707, 136116 (2020).

    CAS 
    PubMed 
    ADS 

    Google Scholar 

  • 56.

    Coclet, C. et al. Trace metal contamination impacts predicted functions more than structure of marine prokaryotic biofilm communities in an anthropized coastal area. Front. Microbiol. 12, 1–16 (2021).

    Google Scholar 

  • 57.

    Esri Inc. ArcMap 10.8. Esri Inc. (2020). https://www.esri.com/en-us/arcgis/products/arcgis-pro/overview.

  • 58.

    Avalos, G. et al. Climate Change in the Mantaro River Basin (MINEN, 2013).

    Google Scholar 

  • 59.

    APHA. Standard methods for the examination of water and wastewater. Stand. Methods 541, 25 (2012).

    Google Scholar 

  • 60.

    Singh, H., Pandey, R., Singh, S. K. & Shukla, D. N. Assessment of heavy metal contamination in the sediment of the River Ghaghara, a major tributary of the River Ganga in Northern India. Appl. Water Sci. 7, 4133–4149 (2017).

    CAS 
    ADS 

    Google Scholar 

  • 61.

    El-Amier, Y. A., Elnaggar, A. A. & El-Alfy, M. Evaluation and mapping spatial distribution of bottom sediment heavy metal contamination in Burullus Lake, Egypt. Egypt. J. Basic Appl. Sci. https://doi.org/10.1016/j.ejbas.2016.09.005 (2016).

    Article 

    Google Scholar 

  • 62.

    Miller, D. N., Bryant, J. E., Madsen, E. L. & Ghiorse, W. C. Evaluation and optimization of DNA extraction and purification procedures for soil and sediment samples. Appl. Environ. Microbiol. 65, 4715–4724 (1999).

    CAS 
    PubMed 
    PubMed Central 
    ADS 

    Google Scholar 

  • 63.

    Custodio, M. et al. Metagenomic data on the composition of bacterial communities in lake environment sediments for fish farming by next generation Illumina sequencing. Data Br. 32, 106228 (2020).

    Google Scholar 

  • 64.

    Bolger, A. M., Lohse, M. & Usadel, B. Trimmomatic: A flexible trimmer for Illumina sequence data. Bioinformatics 30, 2114–2120 (2014).

    CAS 
    PubMed 
    PubMed Central 

    Google Scholar 

  • 65.

    Wood, D. E. & Salzberg, S. L. Kraken: Ultrafast metagenomic sequence classification using exact alignments. Genome Biol. 15, 25 (2014).

    Google Scholar 

  • 66.

    Edgar, R. C. UPARSE: Highly accurate OTU sequences from microbial amplicon reads. Nat. Methods 10, 996–998 (2013).

    CAS 
    PubMed 

    Google Scholar 

  • 67.

    Gan, Y. et al. Multiple factors impact the contents of heavy metals in vegetables in high natural background area of China. Chemosphere 184, 1388–1395 (2017).

    CAS 
    PubMed 
    ADS 

    Google Scholar 

  • 68.

    Diallo, M. D. et al. Polymerase chain reaction denaturing gradient gel electrophoresis analysis of the N2-fixing bacterial diversity in soil under Acacia tortilis ssp. raddiana and Balanites aegyptiaca in the dryland part of Senegal. Environ. Microbiol. 6, 400–415 (2004).

    CAS 

    Google Scholar 

  • 69.

    R Core Team. R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna (2020). https://www.R-project.org/.

  • 70.

    Li, C. et al. Effects of heavy metals on microbial communities in sediments and establishment of bioindicators based on microbial taxa and function for environmental monitoring and management. Sci. Total Environ. 749, 141555 (2020).

    CAS 
    PubMed 
    ADS 

    Google Scholar 

  • 71.

    Murtaza, N. et al. Analysis of the effects of dietary pattern on the oral microbiome of elite endurance athletes. Nutrients 11, 1–12 (2019).

    MathSciNet 

    Google Scholar 


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