Blanchet FG, Legendre P, Borcard D (2008) Forward selection of explanatory variables. Ecology 89(9):2623–2632
Article
Google Scholar
Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, Costello EK, Fierer N, Pena AG, Goodrich JK, Gordon JI (2010) QIIME allows analysis of high-throughput community sequencing data. Nat Methods 7(5):335–336
CAS
Article
Google Scholar
Chen Y, Lan S, Wang L, Dong S, Zhou H, Tan Z, Li X (2017) A review: driving factors and regulation strategies of microbial community structure and dynamics in wastewater treatment systems. Chemosphere 174:173e182
Google Scholar
Edgar RC, Haas BJ, Clemente JC, Quince C, Knight R (2011) UCHIME improves sensitivity and speed of chimera detection. Bioinformatics 27(16):2194–2200
CAS
Article
Google Scholar
Francis L III, Raskin L (2002) Role of filamentous microorganisms in activated sludge foaming: relationship of mycolata levels to foaming initiation and stability. Water Res 36(2):445–459
Article
Google Scholar
Griffin JS, Wells GF (2016) Regional synchrony in full-scale activated sludge bioreactors due to deterministic microbial community assembly. ISME J 11(2):500–511
Article
Google Scholar
Guo J, Peng Y, Wang S, Zheng Y, Huang H, Wang Z (2009) Long-term effect of dissolved oxygen on partial nitrification performance and microbial community structure. Bioresour Technol 100(11):2796–2802
CAS
Article
Google Scholar
Guo Y, Guo L, Sun M, Zhao Y, Gao M, She Z (2017) Effects of hydraulic retention time (HRT) on denitrification using waste activated sludge thermal hydrolysis liquid and acidogenic liquid as carbon sources. Bioresour Technol 224:147–156
CAS
Article
Google Scholar
Harrell Jr FE (2013) Hmisc: Harrell miscellaneous. R package version 3.12–2. Computer software] Available from http://cran.r-project.org/web/packages/Hmisc
Herren C, McMahon K (2017) Cohesion: a method for quantifying the connectivity of microbial communities. bioRxiv:112391
Jo SJ, Kwon H, Jeong S-Y, Lee C-H, Kim TG (2016) Comparison of microbial communities of activated sludge and membrane biofilm in 10 full-scale membrane bioreactors. Water Res 101:214–225
CAS
Article
Google Scholar
Ju F, Zhang T (2014) Bacterial assembly and temporal dynamics in activated sludge of a full-scale municipal wastewater treatment plant. ISME J 9(3):683–695
Article
Google Scholar
Ju F, Xia Y, Guo F, Wang Z, Zhang T (2013) Taxonomic relatedness shapes bacterial assembly in activated sludge of globally distributed wastewater treatment plants. Environ Microbiol 16(8):2421–2432
Article
Google Scholar
Kang S, Ma W, Li FY, Zhang Q, Niu J, Ding Y, Han F, Sun X (2015) Functional redundancy instead of species redundancy determines community stability in a typical steppe of Inner Mongolia. PLoS One 10(12):e0145605
Article
Google Scholar
Kim T-S, Jeong J-Y, Wells GF, Park H-D (2013) General and rare bacterial taxa demonstrating different temporal dynamic patterns in an activated sludge bioreactor. Appl Microbiol Biotechnol 97(4):1755–1765
CAS
Article
Google Scholar
Kozich JJ, Westcott SL, Baxter NT, Highlander SK, Schloss PD (2013) Development of a dual-index sequencing strategy and curation pipeline for analyzing amplicon sequence data on the MiSeq Illumina sequencing platform. Appl Environ Microbiol 79(17):5112–5120
CAS
Article
Google Scholar
Madoni P, Davoli D, Gibin G (2000) Survey of filamentous microorganisms from bulking and foaming activated-sludge plants in Italy. Water Res 34(6):1767–1772
CAS
Article
Google Scholar
Meerburg FA, Vlaeminck SE, Roume H, Seuntjens D, Pieper DH, Jauregui R, Vilchez-Vargas R, Boon N (2016) High-rate activated sludge communities have a distinctly different structure compared to low-rate sludge communities, and are less sensitive towards environmental and operational variables. Water Res 100:137–145
CAS
Article
Google Scholar
McIlroy SJ, Saunders AM, Albertsen M, Nierychlo M, McIlroy B, Hansen AA, Karst SM, Nielsen JL, Nielsen PH (2015) MiDAS: the field guide to the microbes of activated sludge. Database 2015:bav062
Article
Google Scholar
Nielsen PH, Mielczarek AT, Kragelund C, Nielsen JL, Saunders AM, Kong Y, Hansen AA, Vollertsen J (2010) A conceptual ecosystem model of microbial communities in enhanced biological phosphorus removal plants. Water Res 44(17):5070–5088
CAS
Article
Google Scholar
Nierychlo M, Miłobędzka A, Petriglieri F, McIlroy B, Nielsen PH, McIlroy SJ (2018) The ecology of the Chloroflexi in full-scale activated sludge wastewater treatment plants. bioRxiv. https://doi.org/10.1101/335752
Pal P, Khairnar K, Paunikar W (2014) Causes and remedies for filamentous foaming in activated sludge treatment plant. Global Nest J 16(4):762–772
Article
Google Scholar
Sato Y, Hori T, Navarro RR, Naganawa R, Habe H, Ogata A (2016) Effects of organic-loading-rate reduction on sludge biomass and microbial community in a deteriorated pilot-scale membrane bioreactor. Microbes Environ 31(3):361–364
Article
Google Scholar
Saunders AM, Albertsen M, Vollertsen J, Nielsen PH (2015) The activated sludge ecosystem contains a core community of abundant organisms. ISME J 10:11–20
Article
Google Scholar
Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M, Hollister EB, Lesniewski RA, Oakley BB, Parks DH, Robinson CJ (2009) Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol 75(23):7537–7541
CAS
Article
Google Scholar
Segata N, Izard J, Waldron L, Gevers D, Miropolsky L, Garrett WS, Huttenhower C (2011) Metagenomic biomarker discovery and explanation. Genome Biol 12(6):R60
Article
Google Scholar
Shade A, Handelsman J (2012) Beyond the Venn diagram: the hunt for a core microbiome. Environ Microbiol 14(1):4–12
CAS
Article
Google Scholar
Soddell JA, Seviour RJ (1990) Microbiology of foaming in activated-sludge plants. J Appl Microbiol 69(2):145–176
CAS
Google Scholar
Team RC (2014) R: a language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria 2013
ter Braak CJ, Smilauer P (2002) Canoco 4.5: reference manual and canodraw for windows. User's guide: software form canonical community ordination (version 4.5). Microcomputer Power, Ithaca, New York
Vuono DC, Benecke J, Henkel J, Navidi WC, Cath TY, Munakata-Marr J, Spear JR, Drewes JE (2014) Disturbance and temporal partitioning of the activated sludge metacommunity. ISME J 9(2):425–435
Article
Google Scholar
Wagner M, Loy A (2002) Bacterial community composition and function in sewage treatment systems. Curr Opin Biotechnol 13(3):218–227
CAS
Article
Google Scholar
Wang Z, Gao M, Wang S, Chang Q, Wang Z (2015) Effects of salinity on performance and microbial community structure of an anoxic-aerobic sequencing batch reactor. Sep Purif Technol 144:223–231
CAS
Article
Google Scholar
Zhang T, Shao M-F, Ye L (2012) 454 pyrosequencing reveals bacterial diversity of activated sludge from 14 sewage treatment plants. ISME J 6(6):1137–1147
CAS
Article
Google Scholar