Angelidaki I, Sanders W (2004) Assessment of the anaerobic biodegradability of macropollutants. Reviews in Environ Sci Biotechnol 3(2):117–129. doi:10.1007/s11157-004-2502-3
Article
CAS
Google Scholar
APHA (1995) Standard methods for the examination of water and wastewater, 19th edn. American Public Health Association, New York, USA
Google Scholar
Ayarza J, Erijman L (2011) Balance of neutral and deterministic components in the dynamics of activated sludge floc assembly. Microb Ecol 61(3):486–495. doi:10.1007/s00248-010-9762-y
PubMed
Article
Google Scholar
Baptista JC, Davenport RJ, Donnelly T, Curtis TP (2008) The microbial diversity of laboratory-scale wetlands appears to be randomly assembled. Water Res 42(12):3182–3190. doi:10.1016/j.watres.2008.03.013
Article
CAS
Google Scholar
Bates ST, Berg-Lyons D, Caporaso JG, Walters WA, Knight R, Fierer N (2011) Examining the global distribution of dominant archaeal populations in soil. ISME J 5(5):908–917. doi:10.1038/ismej.2010.171
PubMed
PubMed Central
Article
CAS
Google Scholar
Chase J (2003) Community assembly: when should history matter? Oecologia 136(4):489–498. doi:10.1007/s00442-003-1311-7
PubMed
Article
Google Scholar
Chave J (2004) Neutral theory and community ecology. Ecol Let 7(3):241–253. doi:10.1111/j.1461-0248.2003.00566.x
Article
Google Scholar
Cole JR, Wang Q, Cardenas E, Fish J, Chai B, Farris RJ, Kulam-Syed-Mohideen AS, McGarrell DM, Marsh T, Garrity GM, Tiedje JM (2009) The Ribosomal Database Project: improved alignments and new tools for rRNA analysis. Nucl Acids Res 37:D141–D145. doi:10.1093/nar/gkn879
PubMed
PubMed Central
Article
CAS
Google Scholar
Dhamodharan K, Kumar V, Kalamdhad AS (2015) Effect of different livestock dungs as inoculum on food waste anaerobic digestion and its kinetics. Bioresour Technol 180(0):237–241. doi:10.1016/j.biortech.2014.12.066
PubMed
Article
CAS
Google Scholar
Fargione J, Brown C, Tilman D (2003) Community assembly and invasion: an experimental test of neutral versus niche processes. Proc Nat Acad Sci USA 100:8916–8920
PubMed
PubMed Central
Article
CAS
Google Scholar
Fernández A, Huang S, Seston S, Xing J, Hickey R, Criddle C, Tiedje J (1999) How stable is stable? Function versus community composition. Appl Environ Microbiol 65(8):3697–3704
PubMed
PubMed Central
Google Scholar
Fernandez AS, Hashsham SA, Dollhopf SL, Raskin L, Glagoleva O, Dazzo FB, Hickey RF, Criddle CS, Tiedje JM (2000) Flexible community structure correlates with stable community function in methanogenic bioreactor communities perturbed by glucose. Appl Environ Microbiol 66(9):4058–4067. doi:10.1128/aem.66.9.4058-4067.2000
PubMed
PubMed Central
Article
CAS
Google Scholar
Fotidis IA, Karakashev D, Kotsopoulos TA, Martzopoulos GG, Angelidaki I (2013) Effect of ammonium and acetate on methanogenic pathway and methanogenic community composition. FEMS Microbiol Ecol 83(1):38–48. doi:10.1111/j.1574-6941.2012.01456.x
PubMed
Article
CAS
Google Scholar
Fotidis IA, Wang H, Fiedel NR, Luo G, Karakashev DB, Angelidaki I (2014) Bioaugmentation as a solution to increase methane production from an ammonia-rich substrate. Environ Sci Technol 48(13):7669–7676. doi:10.1021/es5017075
PubMed
Article
CAS
Google Scholar
Gu Y, Chen X, Liu Z, Zhou X, Zhang Y (2014) Effect of inoculum sources on the anaerobic digestion of rice straw. Bioresour Technol 158(0):149–155. doi:10.1016/j.biortech.2014.02.011
PubMed
Article
CAS
Google Scholar
Karakashev D, Batstone DJ, Angelidaki I (2005) Influence of environmental conditions on methanogenic compositions in anaerobic biogas reactors. Appl Environ Microbiol 71(1):331–338. doi:10.1128/aem.71.1.331-338.2005
PubMed
PubMed Central
Article
CAS
Google Scholar
Krakat N, Schmidt S, Scherer P (2011) Potential impact of process parameters upon the bacterial diversity in the mesophilic anaerobic digestion of beet silage. Bioresour Technol 102(10):5692–5701. doi:10.1016/j.biortech.2011.02.108
PubMed
Article
CAS
Google Scholar
Kurtz JC, Devereux R, Barkay T, Jonas RB (1998) Evaluation of sediment slurry microcosms for modeling microbial communities in estuarine sediments. Environ Toxicol Chem 17(7):1274–1281. doi:10.1002/etc.5620170712
Article
CAS
Google Scholar
Lü F, Hao L, Guan D, Qi Y, Shao L, He P (2013) Synergetic stress of acids and ammonium on the shift in the methanogenic pathways during thermophilic anaerobic digestion of organics. Water Res 47(7):2297–2306. doi:10.1016/j.watres.2013.01.049
PubMed
Article
CAS
Google Scholar
Lee C, Kim J, Shin SG, Hwang S (2008) Monitoring bacterial and archaeal community shifts in a mesophilic anaerobic batch reactor treating a high-strength organic wastewater. FEMS Microbiol Ecol 65(3):544–554. doi:10.1111/j.1574-6941.2008.00530.x
PubMed
Article
CAS
Google Scholar
Lopes WS, Leite VD, Prasad S (2004) Influence of inoculum on performance of anaerobic reactors for treating municipal solid waste. Bioresour Technol 94(3):261–266. doi:10.1016/j.biortech.2004.01.006
PubMed
Article
CAS
Google Scholar
Lu L, Xing DF, Ren NQ (2012) Pyrosequencing reveals highly diverse microbial communities in microbial electrolysis cells involved in enhanced H-2 production from waste activated sludge. Water Res 46(7):2425–2434. doi:10.1016/j.watres.2012.02.005
PubMed
Article
CAS
Google Scholar
Luo G, Angelidaki I (2014) Analysis of bacterial communities and bacterial pathogens in a biogas plant by the combination of ethidium monoazide, PCR and Ion Torrent sequencing. Water Res 60:156–163. doi:10.1016/j.watres.2014.04.047
PubMed
Article
CAS
Google Scholar
Luo G, De Francisci D, Kougias P, Laura T, Zhu X, Angelidaki I (2015) New steady-state microbial community compositions and process performances in biogas reactors induced by temperature disturbances. Biotechnol Biofuels 8(1):3
PubMed
PubMed Central
Article
CAS
Google Scholar
Luo G, Wang W, Angelidaki I (2013) Anaerobic digestion for simultaneous sewage sludge treatment and CO biomethanation: process performance and microbial ecology. Environ Sci Technol 47(18):10685–10693. doi:10.1021/es401018d
PubMed
CAS
Google Scholar
Nesbø CL, Kumaraswamy R, Dlutek M, Doolittle WF, Foght J (2010) Searching for mesophilic Thermotogales bacteria: “mesotogas” in the wild. Appl Environ Microbiol 76(14):4896–4900. doi:10.1128/aem.02846-09
PubMed
PubMed Central
Article
CAS
Google Scholar
Nguyen T-AD, Han SJ, Kim JP, Kim MS, Oh YK, Sim SJ (2008) Hydrogen production by the hyperthermophilic eubacterium, Thermotoga neapolitana, using cellulose pretreated by ionic liquid. Int J Hydrogen Energ 33(19):5161–5168. doi:10.1016/j.ijhydene.2008.05.019
Article
CAS
Google Scholar
Nielsen HB, Mladenovska Z, Westermann P, Ahring BK (2004) Comparison of two-stage thermophilic (68 °C/55 °C) anaerobic digestion with one-stage thermophilic (55 °C) digestion of cattle manure. Biotechnol Bioeng 86(3):291–300. doi:10.1002/bit.20037
PubMed
Article
CAS
Google Scholar
Pagaling E, Strathdee F, Spears BM, Cates ME, Allen RJ, Free A (2014) Community history affects the predictability of microbial ecosystem development. ISME J 8(1):19–30. doi:10.1038/ismej.2013.150
PubMed
PubMed Central
Article
Google Scholar
Regueiro L, Spirito CM, Usack JG, Hospodsky D, Werner JJ, Angenent LT (2015) Comparing the inhibitory thresholds of dairy manure co-digesters after prolonged acclimation periods: Part 2—correlations between microbiomes and environment. Water Res. doi:10.1016/j.watres.2015.05.046
Rincón B, Borja R, González JM, Portillo MC, Sáiz-Jiménez C (2008) Influence of organic loading rate and hydraulic retention time on the performance, stability and microbial communities of one-stage anaerobic digestion of two-phase olive mill solid residue. Biochem Eng J 40(2):253–261. doi:10.1016/j.bej.2007.12.019
Article
CAS
Google Scholar
Riviere D, Desvignes V, Pelletier E, Chaussonnerie S, Guermazi S, Weissenbach J (2009) Towards the definition of a core of microorganisms involved in anaerobic digestion of sludge. ISME J 3:700–714
PubMed
Article
Google Scholar
Schluter A, Bekel T, Diaz NN, Dondrup M, Eichenlaub R, Gartemann KH, Krahn I, Krause L, Kromeke H, Kruse O, Mussgnug JH, Neuweger H, Niehaus K, Puhler A, Runte KJ, Szczepanowski R, Tauch A, Tilker A, Viehover P, Goesmann A (2008) The metagenome of a biogas-producing microbial community of a production-scale biogas plant fermenter analysed by the 454-pyrosequencing technology. J Biotechnol 136(1–2):77–90. doi:10.1016/j.jbiotec.2008.05.008
PubMed
Article
CAS
Google Scholar
Sundberg C, Al-Soud WA, Larsson M, Alm E, Yekta SS, Svensson BH, Sørensen SJ, Karlsson A (2013) 454 pyrosequencing analyses of bacterial and archaeal richness in 21 full-scale biogas digesters. FEMS Microbiol Ecol 85(3):612–626. doi:10.1111/1574-6941.12148
PubMed
Article
CAS
Google Scholar
Werner JJ, Knights D, Garcia ML, Scalfone NB, Smith S, Yarasheski K, Cummings TA, Beers AR, Knight R, Angenent LT (2011) Bacterial community structures are unique and resilient in full-scale bioenergy systems. Proc Nat Acad Sci USA 108(10):4158–4163. doi:10.1073/pnas.1015676108
PubMed
PubMed Central
Article
Google Scholar
Zhou JZ, Liu WZ, Deng Y, Jiang YH, Xue K, He ZL, Van Nostrand JD, Wu LY, Yang YF, Wang AJ (2013) Stochastic assembly leads to alternative communities with distinct functions in a bioreactor microbial community. Mbio 4(2). doi:10.1128/mBio.00584-12