Role of Bacillus inoculation in rice straw composting and bacterial community stability after inoculation: Unite resistance or individual collapse

Elsevier BV - Tập 337 - Trang 125464 - 2021
Shubo Zhang1, Tianyi Xia2, Jialin Wang1, Yue Zhao1, Xinyu Xie1, Zimin Wei1, Xu Zhang1, Caihong Song3, Xinyu Song1
1College of Life Science, Northeast Agricultural University, Harbin 150030, China
2Department of Colorectal Surgery, Harbin Medical University Cancer Hospital, 150 Haping Road, 150081 Harbin, Heilongjiang Province, China
3Liaocheng Univ, Life Sci Coll, Liaocheng 252059, China

Tài liệu tham khảo

Asshauer, 2015, Tax4Fun: predicting functional profiles from metagenomic 16S rRNA data, Bioinformatics., 31, 2882, 10.1093/bioinformatics/btv287 Azad, 2020, Tracking the spread of COVID-19 in India via social networks in the early phase of the pandemic, J. Travel. Med., 27, 10.1093/jtm/taaa130 Barberan, A., Bates, S.T., Casamayor, E.O., Fierer, N, 2014, Using network analysis to explore co-occurrence patterns in soil microbial communities, vol 6, pg 343, 2012, ISME. J. 8(4), 952-952. Barrena, 2014, Home composting versus industrial composting: Influence of composting system on compost quality with focus on compost stability, Waste Manage., 34, 1109, 10.1016/j.wasman.2014.02.008 Cardona, 2016, Network-based metabolic analysis and microbial community modeling, Curr. Opin. Microbiol., 31, 124, 10.1016/j.mib.2016.03.008 Chen, 2015, Bioremediation of soils contaminated with polycyclic aromatic hydrocarbons, petroleum, pesticides, chlorophenols and heavy metals by composting: applications, microbes and future research needs, Biotechnol. Adv., 33, 745, 10.1016/j.biotechadv.2015.05.003 Chen, 2021, The “quality” and “quantity” of microbial species drive the degradation of cellulose during composting, Bioresour. Technol., 320, 124425, 10.1016/j.biortech.2020.124425 Chen, X.M., Zhao, X.Y., Ge, J.P., Zhao, Y., Wei, Z.M., Yao, C.H., Meng, Q.Q., Zhao, R, 2019, Recognition of the neutral sugars conversion induced by bacterial community during lignocellulose wastes composting, Bioresour. Technol. 294. Chen, 2021, Enhanced in situ Pb(II) passivation by biotransformation into chloropyromorphite during sludge composting, J. Hazard. Mater., 408, 124973, 10.1016/j.jhazmat.2020.124973 Duan, 2020, Effects of Bacillus subtilis on carbon components and microbial functional metabolism during cow manure-straw composting, Bioresour. Technol., 303, 122868, 10.1016/j.biortech.2020.122868 Elshaghabee, F.M.F., Rokana, N., Gulhane, R.D., Sharma, C., Panwar, H, 2017, Bacillus As Potential Probiotics: Status, Concerns, and Future Perspectives. Front. Microbiol. 8. Edwards, 2018, Compositional shifts in root-associated bacterial and archaeal microbiota track the plant life cycle in field-grown rice, Plos. Biol., 16, e2003862, 10.1371/journal.pbio.2003862 Faust, 2012, Microbial co-occurrence relationships in the human microbiome, Plos. Comput. Biol., 8, e1002606, 10.1371/journal.pcbi.1002606 Fierer, 2017, Embracing the unknown: disentangling the complexities of the soil microbiome, Nat. Rev. Microbiol., 15, 579, 10.1038/nrmicro.2017.87 Ganesh Kumar, 2021, Biodegradation of polystyrene by deep-sea Bacillus paralicheniformis G1 and genome analysis, Sci. Total. Environ., 774, 145002, 10.1016/j.scitotenv.2021.145002 Gao, 2019, Diversity in the mechanisms of humin formation during composting with different materials, Environ. Sci. Technol., 53, 3653, 10.1021/acs.est.8b06401 Haas, B.J., Gevers, D., Earl, A.M., Feldgarden, M., Ward, D.V., Giannoukos, G., Ciulla, D., Tabbaa, D., Highlander, S.K., Sodergren, E., Methe, B., DeSantis, T.Z., Petrosino, J.F., Knight, R., Birren, B.W., Consortium, H.M, 2011, Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons, Genome Res. 21(3), 494-504. Harris, 2009, Soil microbial communities and restoration ecology: facilitators or followers?, Science., 325, 573, 10.1126/science.1172975 Harrison, 2020, Quantifying the farmland application of compost to help meet california's organic waste diversion law, Environ. Sci. Technol., 54, 4545, 10.1021/acs.est.9b05377 Hermans, 2020, Using soil bacterial communities to predict physico-chemical variables and soil quality, Microbiome., 8, 10.1186/s40168-020-00858-1 Hess, 2021, Niche differentiation and evolution of the wood decay machinery in the invasive fungusSerpula lacrymans, ISME J., 15, 592, 10.1038/s41396-020-00799-5 Hou, 2017, Unique rhizosphere micro-characteristics facilitate phytoextraction of multiple metals in soil by the hyperaccumulating plant sedum alfredii, Environ. Sci. Technol., 51, 5675, 10.1021/acs.est.6b06531 Jiang, 2020, Trophic interactions as determinants of the arbuscular mycorrhizal fungal community updates with cascading plant-promoting consequences, Microbiome., 8, 10.1186/s40168-020-00918-6 Jing, 2020, Most dominant roles of insect gut bacteria: digestion, detoxification, or essential nutrient provision?, Microbiome., 8, 10.1186/s40168-020-00823-y Kim, 2020, Domestication of Oryza species eco-evolutionarily shapes bacterial and fungal communities in rice seed, Microbiome., 8, 10.1186/s40168-020-00805-0 Kumaraswamy, 2014, Molecular analysis for screening human bacterial pathogens in municipal wastewater treatment and reuse, Environ. Sci. Technol., 48, 11610, 10.1021/es502546t Leadbeater, 2021, Mechanistic strategies of microbial communities regulating lignocellulose deconstruction in a UK salt marsh, Microbiome., 9, 10.1186/s40168-020-00964-0 Liu, 2015, Evaluation of the correlations between biodegradability of lignocellulosic feedstocks in anaerobic digestion process and their biochemical characteristics, Biomass Bioenerg., 81, 534, 10.1016/j.biombioe.2015.06.021 Louca, 2016, Decoupling function and taxonomy in the global ocean microbiome, Science., 353, 1272, 10.1126/science.aaf4507 Lu, 2013, Characterization of a laccase-like multicopper oxidase from newly isolated Streptomyces sp C1 in agricultural waste compost and enzymatic decolorization of azo dyes, Biochem. Eng. J., 72, 70, 10.1016/j.bej.2013.01.004 Malik, 2020, Defining trait-based microbial strategies with consequences for soil carbon cycling under climate change, ISME J., 14, 1, 10.1038/s41396-019-0510-0 Nelson, 2021, A symbiotic nutrient exchange within the cyanosphere microbiome of the biocrust cyanobacterium Microcoleus vaginatus, ISME J., 15, 282, 10.1038/s41396-020-00781-1 Pan, 2021, Modified montmorillonite and illite adjusted the preference of biotic and abiotic pathways of humus formation during chicken manure composting, Bioresour. Technol., 319, 124121, 10.1016/j.biortech.2020.124121 Pascual-García, 2020, Community-level signatures of ecological succession in natural bacterial communities, Nat. Commun., 11, 10.1038/s41467-020-16011-3 Peng, 2021, Genomic and functional analyses of fungal and bacterial consortia that enable lignocellulose breakdown in goat gut microbiomes, Nat. Microbiol., 6, 499, 10.1038/s41564-020-00861-0 Qi, 2021, Manganese dioxide driven the carbon and nitrogen transformation by activating the complementary effects of core bacteria in composting, Bioresour. Technol., 2 Rao, 2021, Multi-kingdom ecological drivers of microbiota assembly in preterm infants, Nature., 591, 633, 10.1038/s41586-021-03241-8 Ratzke, 2020, Strength of species interactions determines biodiversity and stability in microbial communities, Nat. Ecol. Evol., 4, 376, 10.1038/s41559-020-1099-4 Rillig, 2017, Microbial ecology: community coalescence stirs things up, Curr. Biol., 27, R1280, 10.1016/j.cub.2017.10.027 Rottjers, 2018, From hairballs to hypotheses-biological insights from microbial networks, Fems Microbiolo. Rev., 42, 761, 10.1093/femsre/fuy030 Rouches, 2016, Improvement of anaerobic degradation by white-rot fungi pretreatment of lignocellulosic biomass: a review, Renew. Sust. Energ. Rev., 59, 179, 10.1016/j.rser.2015.12.317 Shi, 2020, Elucidating the negative effect of denitrification on aromatic humic substance formation during sludge aerobic fermentation, J. Hazard. Mater., 388, 122086, 10.1016/j.jhazmat.2020.122086 Soffer, 2015, Phage-bacteria network analysis and its implication for the understanding of coral disease, Environ. Microbiolo., 17, 1203, 10.1111/1462-2920.12553 Sporns, 2007, Identification and classification of hubs in brain networks, Plos One., 2, 10.1371/journal.pone.0001049 Varshney, 2012, Draft genome sequence of pigeonpea (Cajanus cajan), an orphan legume crop of resource-poor farmers, Nat. Biotechnol., 30, 83, 10.1038/nbt.2022 Wang, 2021, Production of extracellular enzymes by a termite-nest-related Bacillus siamensis YC-9 in solid-state fermentation on agricultural by-products, Biofuel Bioprod Bior, 10.1002/bbb.2223 Wei, 2019, Improved lignocellulose-degrading performance during straw composting from diverse sources with actinomycetes inoculation by regulating the key enzyme activities, Bioresour. Technol., 271, 66, 10.1016/j.biortech.2018.09.081 Wu, 2020, Reconstruction of core microbes based on producing lignocellulolytic enzymes causing by bacterial inoculation during rice straw composting, Bioresour. Technol., 315, 123849, 10.1016/j.biortech.2020.123849 Wu, 2020, Effect of Fenton pretreatment combined with bacteria inoculation on humic substances formation during lignocellulosic biomass composting derived from rice straw, Bioresour. Technol., 303, 122849, 10.1016/j.biortech.2020.122849 Yarza, 2014, Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences, Nat. Rev. Microbiolo., 12, 635, 10.1038/nrmicro3330 Yin, 2019, Effects of rhamnolipid and Tween-80 on cellulase activities and metabolic functions of the bacterial community during chicken manure composting, Bioresour. Technol., 288, 10.1016/j.biortech.2019.121507 Zhang, 2020, PhyloSuite: an integrated and scalable desktop platform for streamlined molecular sequence data management and evolutionary phylogenetics studies, Mol. Ecol. Resour., 20, 348, 10.1111/1755-0998.13096 Zhao, 2020, m(6)A RNA modification modulates PI3K/Akt/mTOR signal pathway in gastrointestinal cancer, Theranostics., 10, 9528, 10.7150/thno.42971 Zhang, 2021, Oxytetracycline stress reconstruct the core microbial community related to nitrogen transformation during composting, Bioresour. Technol., 319, 124142, 10.1016/j.biortech.2020.124142 Zhao, 2019, Protist communities are more sensitive to nitrogen fertilization than other microorganisms in diverse agricultural soils, Microbiome., 7, 10.1186/s40168-019-0647-0