CoChat
Sign Up
Cited by 128Per- and polyfluoroalkyl substances researchMicrobial bioremediation and biosurfactantsMicrobial Community Ecology and Physiology

The DOI matches its Crossref record; 4 of the 4 references it cites were found in a registry or an index.

Metagenomic analysis of soil microbial community under PFOA and PFOS stress

Cai, Yanping, Chen, Huilun, Yuan, Rongfang, Wang, Fei, Chen, Zhongbing, Zhou, Beihai·2020·Environmental Research
DOI 10.1016/j.envres.2020.109838
Open this paper in CoChat — free account

Abstract

Perfluorinated compounds (PFCs) contamination of soil has attracted global attention in recent years but influences of PFCs on microorganisms in the soil environment have not been fully described. In this study, the effects of perfluorooctane sulphonate (PFOS) and perfluoroctanoic acid (PFOA) on bacterial communities were determined by Illumina Miseq sequencing and Illumina Hiseq Xten. The stimulation of PFCs pollutants on soil bacterial richness and community diversity were observed. Sequencing information indicated that Proteobacteria, Acidobacteria, Actinobacteria, Chloroflexi, Firmicutes, and Gemmatimonadetes were the dominant bacterial phyla. Two genera, Bacillus and Sphingomonas, exhibited adverse responses toward PFCs pollution. Carbohydrate-active enzymes (CAZy), Kyoto Encyclopedia of Genes and Genomes (KEGG) and NCBI databases were used to elucidate the proteins and function action of soil microbial to PFCs pollution. Pathways such as Carbohydrate metabolism, Global and overview maps and Membrane transport in the soil microbes were affected by PFCs stress. CAZy analysis revealed that glycosyl transferases (GTs) in PFCs-polluted soils showed more active, while glycoside hydrolases (GHs) were inhibited severely.

Overview

Integrity signals

Registry

Crossref · 10.1016/j.envres.2020.109838

Cites

0 citation errors · 0 not checkable

Statistics

Recomputing p-values needs the paper’s full text.

Verification

Claims the paper makes

We couldn’t retrieve this paper’s full text, so its claims and self-check weren’t run. The registry and citation checks still apply.

Claims other papers make about this one

Each is checked against this paper’s own text: does it say what the citing paper says it does?

Citations

Cites

Flagged first, then by citations

Show all 4 references

Research works printed but not linked: 56

  1. Abed, 2002, Microbial diversity of a heavily polluted microbial mat and its community changes following degradation of petroleum compounds, Appl. Environ. Microbiol., 68, 1674, 10.1128/AEM.68.4.1674-1683.2002 · DOI
  2. Altschul, 1997, Gapped BLAST and PSI-BLAST: a new generation of protein database search programs, Nucleic Acids Res., 25, 3389, 10.1093/nar/25.17.3389 · DOI · Paper page
  3. Arnal, 2018, Structural enzymology reveals the molecular basis of substrate regiospecificity and processivity of an exemplar bacterial glycoside hydrolase family 74 endo-xyloglucanase, Biochem. J., 475, 3963, 10.1042/BCJ20180763 · DOI
  4. Badhan, 2018, Identification of novel enzymes to enhance the ruminal digestion of barley straw, Bioresour. Technol., 260, 76, 10.1016/j.biortech.2018.03.086 · DOI
  5. Bao, 2018, Vertical profiles of microbial communities in perfluoroalkyl substance-contaminated soils, Ann. Microbiol., 68, 399, 10.1007/s13213-018-1346-y · DOI
  6. Blackburn, 2001, Identification of four families of peptidoglycan lytic transglycosylases, J. Mol. Evol., 52, 78, 10.1007/s002390010136 · DOI
  7. Bouhajja, 2016, Metagenomics: probing pollutant fate in natural and engineered ecosystems, Biotechnol. Adv., 34, 1413, 10.1016/j.biotechadv.2016.10.006 · DOI
  8. Bräunig, 2019, Leaching and bioavailability of selected perfluoroalkyl acids (PFAAs) from soil contaminated by firefighting activities, Sci. Total Environ., 646, 471, 10.1016/j.scitotenv.2018.07.231 · DOI
  9. Cai, 2019, Toxicity of perfluorinated compounds to soil microbial activity: effect of carbon chain length, functional group and soil properties, Sci. Total Environ., 690, 1162, 10.1016/j.scitotenv.2019.06.440 · DOI
  10. Cantarel, 2008, The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics, Nucleic Acids Res., 37, D233, 10.1093/nar/gkn663 · DOI
  11. Chen, 2016, Perfluorinated compounds in soil, surface water, and groundwater from rural areas in eastern China, Environ. Pollut., 211, 124, 10.1016/j.envpol.2015.12.024 · DOI
  12. Chris Felshia, 2020, Elucidation of 2, 4-Dichlorophenol degradation by Bacillus licheniformis strain SL10, Environ. Technol., 41, 366, 10.1080/09593330.2018.1498923 · DOI
  13. Fierer, 2012, Comparative metagenomic, phylogenetic and physiological analyses of soil microbial communities across nitrogen gradients, ISME J., 6, 1007, 10.1038/ismej.2011.159 · DOI
  14. Gupta, 2000, The phylogeny of proteobacteria-relationshiips to other eubacterial phyla ang eukaryotes, FEMS (Fed. Eur. Microbiol. Soc.) Microbiol. Rev., 24, 367
  15. Hu, 2003, Alterations in cell membrane properties caused by perfluorinated compounds, Comp. Biochem. Physiol. C Toxicol. Pharmacol., 135, 77, 10.1016/S1532-0456(03)00043-7 · DOI
  16. Ivanova, 2017, Comparative genomics of four isosphaeraceae planctomycetes: a common pool of plasmids and glycoside hydrolase genes shared by Paludisphaera borealis PX4T, Isosphaera pallida IS1BT, Singulisphaera acidiphila DSM 18658T, and strain SH-PL62, Front. Microbiol., 8, 10.3389/fmicb.2017.00412 · DOI
  17. Kim, 2012, Biodefluorination and biotransformation of fluorotelomer alcohols by two alkane-degrading Pseudomonas strains, Biotechnol. Bioeng., 109, 3041, 10.1002/bit.24561 · DOI · Paper page
  18. Li, 2017, Vertical distribution of microbial communities in soils contaminated by chromium and perfluoroalkyl substances, Sci. Total Environ., 599–600, 156, 10.1016/j.scitotenv.2017.04.241 · DOI
  19. Li, 2018, The chemodiversity of paddy soil dissolved organic matter correlates with microbial community at continental scales, Microbiome, 6, 187, 10.1186/s40168-018-0561-x · DOI
  20. Li, 2018, Soil sustainable utilization technology: mechanism of flavonols in resistance process of heavy metal, Environ. Sci. Pollut. Control Ser., 25, 26669, 10.1007/s11356-018-2485-1 · DOI
  21. Li, 2008, SOAP: short oligonucleotide alignment program, Bioinformatics, 24, 713, 10.1093/bioinformatics/btn025 · DOI · Paper page
  22. Liu, 2016, Toxicity of perfluorooctane sulfonate and perfluorooctanoic acid to Escherichia coli: membrane disruption, oxidative stress, and DNA damage induced cell inactivation and/or death, Environ. Pollut., 214, 806, 10.1016/j.envpol.2016.04.089 · DOI
  23. Mahapatra, 2017, Comparative in vitro toxicity assessment of perfluorinated carboxylic acids, J. Appl. Toxicol., 37, 699, 10.1002/jat.3418 · DOI
  24. Manoharan, 2015, Captured metagenomics: large-scale targeting of genes based on ‘sequence capture’ reveals functional diversity in soils, DNA Res., 22, 451, 10.1093/dnares/dsv026 · DOI
  25. McGill, 1981, Comparative aspects of cycling of organic C, N, S and P through soil organic matter, Geoderma, 26, 267, 10.1016/0016-7061(81)90024-0 · DOI
  26. Montagnolli, 2017, The effects of fluoride based fire-fighting foams on soil microbiota activity and plant growth during natural attenuation of perfluorinated compounds, Environ. Toxicol. Pharmacol., 50, 119, 10.1016/j.etap.2017.01.017 · DOI
  27. Ning, 2019, Study on the microbial community in earthworm and soil under cadmium stress based on contour line analysis, Environ. Sci. Pollut. Control Ser., 26, 20989, 10.1007/s11356-019-05207-w · DOI
  28. Noguchi, 2006, MetaGene: prokaryotic gene finding from environmental genome shotgun sequences, Nucleic Acids Res., 34, 5623, 10.1093/nar/gkl723 · DOI
  29. Olsen Geary, 2007, Half-life of serum elimination of perfluorooctanesulfonate, perfluorohexanesulfonate, and perfluorooctanoate in retired fluorochemical production workers, Environ. Health Perspect., 115, 1298, 10.1289/ehp.10009 · DOI · Paper page
  30. Peralta, 2013, Characterization of soil bacterial community structure and physicochemical properties in created and natural wetlands, Sci. Total Environ., 443, 725, 10.1016/j.scitotenv.2012.11.052 · DOI
  31. Qiao, 2018, Perfluoroalkyl substances (PFASs) influence the structure and function of soil bacterial community: greenhouse experiment, Sci. Total Environ., 642, 1118, 10.1016/j.scitotenv.2018.06.113 · DOI
  32. Quero, 2015, Patterns of benthic bacterial diversity in coastal areas contaminated by heavy metals, polycyclic aromatic hydrocarbons (PAHs) and polychlorinated biphenyls (PCBs), Front. Microbiol., 6, 1053, 10.3389/fmicb.2015.01053 · DOI
  33. Rich, 2015, Bioaccumulation of perfluoroalkyl acids by earthworms (Eisenia fetida) exposed to contaminated soils, Environ. Sci. Technol., 49, 881, 10.1021/es504152d · DOI
  34. Roth, 2017, Amylose recognition and ring-size determination of amylomaltase, Science Advances, 3, 10.1126/sciadv.1601386 · DOI
  35. Schloss, 2009, Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities, Appl. Environ. Microbiol., 75, 7537, 10.1128/AEM.01541-09 · DOI
  36. Sun, 2016, Bacterial community compositions in sediment polluted by perfluoroalkyl acids (PFAAs) using Illumina high-throughput sequencing, Environ. Sci. Pollut. Control Ser., 23, 10556, 10.1007/s11356-016-6055-0 · DOI
  37. Vaz-Moreira, 2011, Diversity and antibiotic resistance patterns of Sphingomonadaceae Isolates from drinking water, Appl. Environ. Microbiol., 77, 5697, 10.1128/AEM.00579-11 · DOI
  38. Vitousek, 1993, Biological diversity and terrestrial ecosystem biogeochemistry, Ecol. Stud. Anal. Synth., 99, 3
  39. Wang, 2020, Effects of pesticide residues on bacterial community diversity and structure in typical greenhouse soils with increasing cultivation years in Northern China, Sci. Total Environ., 710, 136321, 10.1016/j.scitotenv.2019.136321 · DOI
  40. Wang, 2020, Response mechanism of microbial community to the environmental stress caused by the different mercury concentration in soils, Ecotoxicol. Environ. Saf., 188, 109906, 10.1016/j.ecoenv.2019.109906 · DOI
  41. Wang, 2019, Toxicity of enrofloxacin and cadmium alone and in combination to enzymatic activities and microbial community structure in soil, Environ. Geochem. Health, 41, 2593, 10.1007/s10653-019-00307-5 · DOI
  42. Wang, 2019, The responses of a soil bacterial community under saline stress are associated with Cd availability in long-term wastewater-irrigated field soil, Chemosphere, 236, 124372, 10.1016/j.chemosphere.2019.124372 · DOI
  43. Wojcik, 2018, Effects of water soluble perfluorinated pollutants on phospholipids in model soil decomposer membranes, Biochim. Biophys. Acta Biomembr., 1860, 2576, 10.1016/j.bbamem.2018.09.014 · DOI
  44. Xie, 2011, KOBAS 2.0: a web server for annotation and identification of enriched pathways and diseases, Nucleic Acids Res., 39, W316, 10.1093/nar/gkr483 · DOI
  45. Xu, 2013, Antioxidant defense system responses and DNA damage of earthworms exposed to perfluorooctane sulfonate (PFOS), Environ. Pollut., 174, 121, 10.1016/j.envpol.2012.10.030 · DOI
  46. Xu, 2019, Microbial functional diversity and carbon use feedback in soils as affected by heavy metals, Environ. Int., 125, 478, 10.1016/j.envint.2019.01.071 · DOI
  47. Yang, 2014, Growth-promoting Sphingomonas paucimobilis ZJSH1 associated with Dendrobium officinale through phytohormone production and nitrogen fixation, Microbial Biotechnology, 7, 611, 10.1111/1751-7915.12148 · DOI
  48. Ye, 2018, Copper (II) addition to accelerate lactic acid production from co-fermentation of food waste and waste activated sludge: understanding of the corresponding metabolisms, microbial community and predictive functional profiling, Waste Manag., 76, 414, 10.1016/j.wasman.2018.03.028 · DOI
  49. Zafra, 2016, Comparative metagenomic analysis of PAH degradation in soil by a mixed microbial consortium, J. Hazard Mater., 318, 702, 10.1016/j.jhazmat.2016.07.060 · DOI
  50. Zhang, 2019, Distribution of eight perfluoroalkyl acids in plant-soil-water systems and their effect on the soil microbial community, Sci. Total Environ., 697, 134146, 10.1016/j.scitotenv.2019.134146 · DOI
  51. Zhang, 2020, Distribution of perfluoroalkyl substances (PFASs) in aquatic plant-based systems: from soil adsorption and plant uptake to effects on microbial community, Environ. Pollut., 257, 113575, 10.1016/j.envpol.2019.113575 · DOI
  52. Zhang, 2013, Enzyme activities in perfluorooctanoic acid (PFOA)-polluted soils, Pedosphere, 23, 120, 10.1016/S1002-0160(12)60087-3 · DOI
  53. Zhao, 2017, Biomarker responses of earthworms (Eisenia fetida) to soils contaminated with perfluorooctanoic acid, Environ. Sci. Pollut. Control Ser., 24, 22073, 10.1007/s11356-017-9776-9 · DOI
  54. Zhou, 2016, Toxic effect of perfluorooctanoic acid (PFOA) on germination and seedling growth of wheat (Triticum aestivum L.), Chemosphere, 159, 420, 10.1016/j.chemosphere.2016.06.045 · DOI
  55. Zhou, 2020, Electrode potential regulates phenol degradation pathways in oxygen-diffused microbial electrochemical system, Chem. Eng. J., 381, 122663, 10.1016/j.cej.2019.122663 · DOI
  56. Zhu, 2019, Distribution and partitioning of perfluoroalkyl carboxylic acids in surface soil, plants, and earthworms at a contaminated site, Sci. Total Environ., 647, 954, 10.1016/j.scitotenv.2018.08.051 · DOI

Cited by

Sorted by citations

Items 101–103 of 103

Metadata

Authors
Cai, Y., Chen, H., Yuan, R., Wang, F., Chen, Z., & Zhou, B.
Affiliations
  • University of Science and Technology Beijing (CN)
  • Czech University of Life Sciences Prague (CZ)
Corresponding author
  • Chen, Huilun
  • Zhou, Beihai
ORCID
Venue
Environmental Research
Publisher
Elsevier BV
Published
2020-09
Volume
188
Pages
109838
ISSN
0013-9351 (ISSN-L)
DOI
10.1016/j.envres.2020.109838
OpenAlex
W3039644962
Cited by
128
References
61
Citations by year
2026: 24 · 2025: 34 · 2024: 16 · 2023: 20 · 2022: 22 · 2021: 10 · 2020: 2
FWCI
5.00
Type
journal article
Language
en
Open access
closed
Licence
Locations
  • Environmental Research (publishedVersion)
  • PubMed (publishedVersion)
Funders
Beijing Municipal Natural Science Foundation
Topics
  • Physical Sciences › Environmental Science › Environmental Chemistry › Per- and polyfluoroalkyl substances research
  • Physical Sciences › Environmental Science › Pollution › Microbial bioremediation and biosurfactants
  • Physical Sciences › Environmental Science › Ecology › Microbial Community Ecology and Physiology
Keywords
perfluorooctanoic acid, PFOS, perfluorinated compounds, soil microbial communities, soil bacteria, bacterial diversity, bacterial richness, carbohydrate-active enzymes, glycosyltransferases, glycoside hydrolases, carbohydrate metabolism, membrane transport, Bacillus, Sphingomonas, soil contamination
MeSH terms
Fluorocarbons, Soil, Soil Microbiology, Soil Pollutants, Alkanesulfonic Acids, Microbiota

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review