Tomonori Kindaichi

Last Updated :2021/05/11

Affiliations, Positions
Graduate School of Advanced Science and Engineering, Associate Professor
Web Site
My research interests are discovery and enrichment of microorganisms that are useful for water treatment. In particular, I am focusing on (anaerobic ammonium oxidation) anammox bacteria that can efficiently remove ammonia in wastewater. Currently, our laboratory has three enrichment cultures of different species of anammox bacteria. Taking advantage of the different characteristics of each species, I am considering to apply it not only to the field of wastewater treatment but also to livestock wastewater and aquaculture wastewater.

Basic Information

Major Professional Backgrounds

  • 2004/04/01, 2007/03/31, Hiroshima University, Graduate School of engineering, Research Associate
  • 2007/04/01, 2020/03/31, Hiroshima University, Graduate School of Engineering, Assistant Professor
  • 2020/04/01, Hiroshima University, Graduate School of Advanced Science and Engineering, Associate Professor

Educational Backgrounds

  • Hokkaido University, Graduate School, Division of Engineering, Urban and Environmental Engineering, Japan, 2001/04, 2004/03
  • Toyohashi University of Technology, Graduate School, Division of Engineering, Architecture and Civil Engineering, Japan, 1999/04, 2001/03
  • Toyohashi University of Technology, Faculty of Engineering, Japan, 1997/04, 1999/03

Academic Degrees

  • Doctor of Engineering, HOKKAIDO UNIVERSITY
  • Master of Engineering, Toyohashi University of Technology

Educational Activity

  • 【Bachelor Degree Program】School of Engineering : Cluster 4(Civil Engineering and Architecture)
  • 【Master's Program】Graduate School of Advanced Science and Engineering : Division of Advanced Science and Engineering : Civil and Environmental Engineering Program
  • 【Doctoral Program】Graduate School of Advanced Science and Engineering : Division of Advanced Science and Engineering : Civil and Environmental Engineering Program

In Charge of Primary Major Programs

  • Civil and Environmental Engineering

Research Fields

  • Engineering;Civil engineering;Civil and environmental engineering
  • Environmental science;Environmental conservation;Environmental engineering and reduction of environmental burden
  • Biology;Basic biology;Biodiversity / Systematics

Research Keywords

  • wastewater treatment
  • environmental microbiology
  • anammox
  • nitrification

Affiliated Academic Societies

  • Japan Society of Civil Engineering, 1996
  • Japan Society on Water Environment, 2000
  • Japan Society of Microbial Ecology, 2002
  • Japan Society of Material Cycles and Waste Management, 2017
  • Japan Water Works Association, 2017
  • Japan Sewage Works Association, 2021
  • International Water Association, 2011
  • International Society for Microbial Ecology

Educational Activity

Course in Charge

  1. 2021, Undergraduate Education, 2Term, Experiments in Civil and Environmental Engineering
  2. 2021, Undergraduate Education, 1Term, Sanitary and environmental engineering and exercise
  3. 2021, Graduate Education (Master's Program) , 1Term, Special Exercises on Civil and Environmental Engineering A
  4. 2021, Graduate Education (Master's Program) , 2Term, Special Exercises on Civil and Environmental Engineering A
  5. 2021, Graduate Education (Master's Program) , 3Term, Special Exercises on Civil and Environmental Engineering B
  6. 2021, Graduate Education (Master's Program) , 4Term, Special Exercises on Civil and Environmental Engineering B
  7. 2021, Graduate Education (Master's Program) , Academic Year, Special Study on Civil and Environmental Engineering

Research Activities

Academic Papers

  1. Pesticides in aquatic environments and their removal by adsorption methods, CHEMOSPHERE, 253, 20200801
  2. PAHs emission source analysis for air and water environments by isomer ratios - Comparison by modified Cohen's d, SCIENCE OF THE TOTAL ENVIRONMENT, 715, 20200501
  3. Multiple organic substrates support Mn(II) removal with enrichment of Mn(II)-oxidizing bacteria, JOURNAL OF ENVIRONMENTAL MANAGEMENT, 259, 20200401
  4. Mn(II) oxidation and manganese-oxide reduction on the decolorization of an azo dye, INTERNATIONAL BIODETERIORATION & BIODEGRADATION, 146, 20200101
  5. Integrated anammox-biochar in synthetic wastewater treatment: Performance and optimization by artificial neural network, JOURNAL OF CLEANER PRODUCTION, 243, 20200101
  6. Comprehensive review of polycyclic aromatic hydrocarbons in water sources, their effects and treatments, SCIENCE OF THE TOTAL ENVIRONMENT, 696, 20191215
  7. Cross-linked chitosan/zeolite as a fixed-bed column for organic micropollutants removal from aqueous solution, optimization with RSM and artificial neural network, JOURNAL OF ENVIRONMENTAL MANAGEMENT, 250, 20191115
  8. Degradation and volatilization process of fragrance materials and triclosan in wastewater treatment plant - Comparison between field survey and laboratory experiment -, ENVIRONMENTAL TECHNOLOGY & INNOVATION, 16, 201911
  9. Dual nitrogen and oxygen isotope fractionation during anaerobic ammonium oxidation by anammox bacteria, ISME JOURNAL, 13(10), 2426-2436, 201910
  10. Stormwater inflow loading of polycyclic aromatic hydrocarbons into urban domestic wastewater treatment plant for separate sewer system, WATER SCIENCE AND TECHNOLOGY, 79(7), 1426-1436, 20190401
  11. Investigation of prospective factors that control Kouleothrix (Type 1851) filamentous bacterial abundance and their correlation with sludge settleability in full-scale wastewater treatment plants, PROCESS SAFETY AND ENVIRONMENTAL PROTECTION, 124, 137-142, 201904
  12. Integrated biological-physical process for biogas purification effluent treatment, JOURNAL OF ENVIRONMENTAL SCIENCES-CHINA, 83, 110-122, 201909
  13. Biogas purification performance of new water scrubber packed with sponge carriers, JOURNAL OF CLEANER PRODUCTION, 214, 103-111, 20190320
  14. Draft genome sequence of Mn(II)-oxidizing Pseudomonas resinovorans strain MO-1., Genome Announcements, 6(11), e00088-18-e00088-18, 20180301
  15. Pollutant Removal from Synthetic Aqueous Solutions with a Combined Electrochemical Oxidation and Adsorption Method, INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH, 15(7), 20180701
  16. ★, Effects of Salts on the Activity and Growth of "Candidatus Scalindua sp.", a Marine Anammox Bacterium, MICROBES AND ENVIRONMENTS, 33(3), 336-339, 20180930
  17. ★, Specificities and Efficiencies of Primers Targeting Candidatus Phylum Saccharibacteria in Activated Sludge, MATERIALS, 11(7), 20180701
  18. Pollutants removal from synthetic wastewater by the combined electrochemical, adsorption and sequencing batch reactor (SBR), ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY, 161, 137-144, 20181015
  19. Production of biogenic manganese oxides coupled with methane oxidation in a bioreactor for removing metals from wastewater, WATER RESEARCH, 130, 224-233, 20180301
  20. Genetic diversity of marine anaerobic ammonium-oxidizing bacteria as revealed by genomic and proteomic analyses of Candidatus Scalindua japonica'", ENVIRONMENTAL MICROBIOLOGY REPORTS, 9(5), 550-561, 20171001
  21. Concentrated landfill leachate treatment with a combined system including electro-ozonation and composite adsorbent augmented sequencing batch reactor process, PROCESS SAFETY AND ENVIRONMENTAL PROTECTION, 111, 253-262, 20171001
  22. Dominant Candidatus Accumulibacter phosphatis enriched in response to phosphate concentrations in EBPR process., Microbes and Environments, 32(3), 260-267, 20170927
  23. Loading and removal of PAHs, fragrance compounds, triclosan and toxicity by composting process from sewage sludge, SCIENCE OF THE TOTAL ENVIRONMENT, 605, 860-866, 20171215
  24. Source identification of nitrous oxide emission pathways from a single-stage nitritation-anammox granular reactor, Water Research, 102, 147-157, 20161001
  25. ★, Effects of organic matter in livestock manure digester liquid on microbial community structure and in situ activity of anammox granules., Chemosphere, 159, 300-307, 20160613
  26. ★, Phylogenetic diversity and ecophysiology of candidate phylum Saccharibacteria in activated sludge., FEMS Microbiology Ecology, 92(6), 1-11, 20160601
  27. PAH contents in road dust on principal roads collected nationwide in Japan and their influential factors, WATER SCIENCE AND TECHNOLOGY, 72(7), 1062-1071, 20151018
  28. ★, Nitrogen removal using an anammox membrane bioreactor at low temperature., Water Science & Technology, 72(12), 2148-2153, 20151218
  29. Characterisation of the in situ ecophysiology of novel phylotypes in nutrient removal activated sludge treatment plants, PLOS ONE, 1-13, 20150904
  30. Physiological characterization of anaerobic ammonium oxidizing bacterium CandidatusJettenia caeni'", ENVIRONMENTAL MICROBIOLOGY, 17(6), 2172-2189, 20150601
  31. Loading and removal of PAHs in a wastewater treatment plant in a separated sewer system, WATER RESEARCH, 80, 337-345, 20150901
  32. Suppressing hydrogen sulfide generation by nitrate or oxygen addition in column percolation experiment, American Journal of Environmental Protection, 4(1), 55-61, 20150201
  33. Hydrogen sulfide generation suppression by nitrate addition – application to solid waste landfill site, American Journal of Environmental Protection, 3(5), 267-274, 20141101
  34. Photocatalytic decomposition of atmospheric toxic substances on the TiO2-loaded glasses set on the roadside of a highway, Journal of Water and Environment Technology, 10(4), 399-408, 20121201
  35. ★, Biomass Yield Efficiency of the Marine Anammox Bacterium, Candidatus Scalindua sp.," is Affected by Salinity", MICROBES AND ENVIRONMENTS, 30(1), 86-91, 20150213
  36. Biological oxidation of Mn(II) coupled with nitrification for removal and recovery of minor metals by downflow hanging sponge reactor, WATER RESEARCH, 68, 545-553, 20150101
  37. Cultivation of Planktonic Anaerobic Ammonium Oxidation (Anammox) Bacteria Using Membrane Bioreactor, MICROBES AND ENVIRONMENTS, 28(4), 436-443, 20131220
  38. ★, Physiological Characterization of an Anaerobic Ammonium-Oxidizing Bacterium Belonging to the Candidatus Scalindua" Group", APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 79(13), 4145-4148, 20130701
  39. ★, High and stable substrate specificities of microorganisms in enhanced biological phosphorus removal plants, ENVIRONMENTAL MICROBIOLOGY, 15(6), 1821-1831, 20130601
  40. Phosphate recovery as concentrated solution from treated wastewater by a PAO-enriched biofilm reactor, WATER RESEARCH, 47(6), 2025-2032, 20130415
  41. Anaerobic treatment of municipal wastewater at ambient temperature: Analysis of archaeal community structure and recovery of dissolved methane, WATER RESEARCH, 46(17), 5756-5764, 20121101
  42. ★, Ecophysiological role and function of uncultured Chloroflexi in an anammox reactor, WATER SCIENCE AND TECHNOLOGY, 66(12), 2556-2561, 2012
  43. PAHs concentration and toxicity in organic solvent extracts of atmospheric particulate matter and sea sediments, WATER SCIENCE AND TECHNOLOGY, 66(5), 983-992, 2012
  44. Influence of temperature and salinity on microbial structure of marine anammox bacteria, WATER SCIENCE AND TECHNOLOGY, 66(5), 958-964, 2012
  45. ★, Development of anammox reactor equipped with a degassing membrane to improve biomass retention, WATER SCIENCE AND TECHNOLOGY, 66(2), 451-456, 2012
  46. Dissolved methane oxidation and competition for oxygen in down-flow hanging sponge reactor for post-treatment of anaerobic wastewater treatment, BIORESOURCE TECHNOLOGY, 102(22), 10299-10304, 201111
  47. Enrichment and identification of methane-oxidizing bacteria by using down-flow hanging sponge bioreactors under low methane concentration, ANNALS OF MICROBIOLOGY, 61(3), 683-687, 201109
  49. ★, Enrichment Using an Up-flow Column Reactor and Community Structure of Marine Anammox Bacteria from Coastal Sediment, MICROBES AND ENVIRONMENTS, 26(1), 67-73, 20110305
  50. ★, Enrichment of marine anammox bacteria in Hiroshima Bay sediments, WATER SCIENCE AND TECHNOLOGY, 63(5), 964-969, 2011
  51. Modelling of wet deposition of atmospheric polycyclic aromatic hydrocarbons by the consecutive measurements in an urban area, Japan, WATER SCIENCE AND TECHNOLOGY, 62(8), 1922-1930, 2010
  52. Biological oxidation of dissolved methane in effluents from anaerobic reactors using a down-flow hanging sponge reactor, WATER RESEARCH, 44(5), 1409-1418, 201003
  53. Nitro-PAHs and PAHs in Atmospheric Particulate Matters and Sea Sediments in Hiroshima Bay Area, Japan, WATER AIR AND SOIL POLLUTION, 207(1-4), 263-271, 201003
  54. Estimation of river discharge loadings of PAHs in a suburban river in 
Hiroshima Prefecture, Japan., Journal of Water and Environment Technology, 7(2), 109-120, 200906
  55. Estimation of the emission factors of PAHs by traffic with the model of atmospheric dispersion and deposition from heavy traffic road, WATER SCIENCE AND TECHNOLOGY, 56(1), 233-242, 2007
  56. ★, In situ activity and spatial organization of anaerobic ammonium-oxidizing (anammox) bacteria in biofilms, APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 73(15), 4931-4939, 200708
  57. Development of a super high-rate Anammox reactor and in situ analysis of biofilm structure and function, WATER SCIENCE AND TECHNOLOGY, 55(8-9), 9-17, 2007
  58. Development of high-rate anaerobic ammonium-oxidizing (anammox) biofilm reactors, WATER RESEARCH, 41(8), 1623-1634, 200704
  59. Quantification of anaerobic ammonium-oxidizing bacteria in enrichment cultures by real-time PCR, WATER RESEARCH, 41(4), 785-794, 200702
  60. Population dynamics and in situ kinetics of nitrifying bacteria in autotrophic nitrifying biofilms as determined by real-time quantitative PCR, BIOTECHNOLOGY AND BIOENGINEERING, 94(6), 1111-1121, 20060820
  61. Community structures and activities of nitrifying and denitrifying bacteria in industrial wastewater-treating biofilms, BIOTECHNOLOGY AND BIOENGINEERING, 94(4), 762-772, 20060705
  62. Community structure, abundance, and in situ activity of nitrifying bacteria in river sediments as determined by the combined use of molecular techniques and microelectrodes, ENVIRONMENTAL SCIENCE & TECHNOLOGY, 40(5), 1532-1539, 20060301
  63. Eco-physiology of autotrophic nitrifying biofilms, WATER SCIENCE AND TECHNOLOGY, 52(7), 225-232, 2005
  64. Fate of C-14-labeled microbial products derived from nitrifying bacteria in autotrophic nitrifying biofilms, APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 71(7), 3987-3994, 200507
  65. Effects of hydroxylamine on microbial community structure and function of autotrophic nitrifying biofilms determined by in situ hybridization and the use of microelectrodes., Water Science and Technology, 49(11-12), 61-68, 20040801
  66. Eco-physiological interaction between nitrifying bacteria and heterotrophic bacteria in autotrophic nitrifying biofilms as determined by MAR-FISH., Applied and Environmental Microbiology, 70(3), 1641-1650, 20040301
  67. MAR-FISH-An Ecophysiological approach to link phylogenetic affiliation and in situ metabolic activity of microorganisms at a single-cell resolution., Microbes and Environments, 19(2), 83-98, 20040601
  68. Analysis of size distribution and areal cell density of ammonia-oxidizing bacterial microcolonies in relation to substrate microprofile in biofilms., Biotechnology and Bioengineering, 85(1), 86-95, 20040101


  1. 2007/09, The Best Poster Award, Japanese Society of Microbial Ecology, In situ physiology of candidate division TM7 in a wastewater treatment plant
  2. 2006/08, Best Poster Award, International Society for Microbial Ecology, Microbial community structure in a super high-rate ANAMMOX biofilm


  1. Patent, JP6719092, 2020/06/18
  2. Patent, JP6651118, 2020/01/24
  3. Patent, JP6016062, 2016/10/07
  4. Patent, JP5582388, 2014/07/25
  5. Patent, JP5004105, 2012/06/01