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Eiji Haramoto, ICRE, University of Yamanashi

論文・著書・総説 / Publications

審査付論文 / Peer-reviewed papers

  1. Niva Sthapit, Ocean Thakali, Bikash Malla, Sunayana Raya, Jeevan B. Sherchand, and Eiji Haramoto. 2025. Digital PCR-based assessment of pathogens in wastewater and antibiotic resistance genes in drinking water of the Kathmandu Valley, Nepal. Journal of Environmental Management. 389:126120.
    DOI: 10.1016/j.jenvman.2025.126120
  2. Sadhana Shrestha, Bikash Malla, and Eiji Haramoto. 2025. 6-plex Crystal Digital PCR® for comprehensive surveillance of respiratory and foodborne bacterial pathogens in wastewater. Environmental Pollution. 375:126298.
    DOI: 10.1016/j.envpol.2025.126298
  3. Bikash Malla, Sadhana Shrestha, and Eiji Haramoto. 2025. Optimization of a 6-plex Crystal Digital PCR® assay and its application to simultaneous surveillance of enteric and respiratory viruses in wastewater. Science of the Total Environment. 970:178939.
    DOI: 10.1016/j.scitotenv.2025.178939
  4. Sadhana Shrestha, Bikash Malla, and Eiji Haramoto. 2025. Evaluation of the Enterovirus serotype monitoring approach for wastewater surveillance of hand, foot and mouth disease using secondary epidemiological surveillance data. Science of the Total Environment. 969:178896.
    DOI: 10.1016/j.scitotenv.2025.178896
  5. Bikash Malla, Sadhana Shrestha, Niva Sthapit, Soichiro Hirai, Sunayana Raya, Aulia Fajar Rahmani, Made Sandhyana Angga, Yadpiroon Siri, Annisa Andarini Ruti, and Eiji Haramoto. 2025. Evaluation of plasmid pBI143 for its optimal concentration methods, seasonal impact, and potential as a normalization parameter in wastewater-based epidemiology. Science of the Total Environment. 965:178661.
    DOI: 10.1016/j.scitotenv.2025.178661
  6. Made Sandhyana Angga, Sunayana Raya, Soichiro Hirai, and Eiji Haramoto. 2025. Magnetic carbon bead-based concentration method for SARS-CoV-2 detection in wastewater. Food and Environmental Virology. 17:8.
    DOI: 10.1007/s12560-024-09623-1
  7. 許玉銓, Niva Sthapit, 原本英司, 八重樫咲子. 2024. 鬢櫛川におけるアユおよびヒゲナガカワトビケラの環境DNA濃度の日周変動. 土木学会論文集. 80(25):24-25021.
  8. Yadpiroon Siri, Bikash Malla, Le Thanh Thao, Soichiro Hirai, Annisa Andarini Ruti, Aulia Fajar Rahmani, Sunayana Raya, Made Sandhyana Angga, Niva Sthapit, Sadhana Shrestha, Tomoko Takeda, Masaaki Kitajima, Nguyen Quoc Dinh, Pham Duc Phuc, Huong Thi Thuy Ngo, and Eiji Haramoto. 2024. Assessment of environmental factors influencing SARS-CoV-2 in Vietnam's surface water across two years of clinical data. Science of the Total Environment. 957:177449.
    DOI: 10.1016/j.scitotenv.2024.177449
  9. Bikash Malla, Sadhana Shrestha, and Eiji Haramoto. 2024. pBI143 as a potential human-specific microbial source tracking marker: Performance evaluation, treatment reduction, and application to river water samples in Japan. Science of the Total Environment. 957:177468.
    DOI: 10.1016/j.scitotenv.2024.177468
  10. Yadpiroon Siri, Niva Sthapit, Bikash Malla, Sunayana Raya, and Eiji Haramoto. 2024. Comparative performance of electronegative membrane filtration and automated concentrating pipette for detection of antibiotic resistance genes and microbial markers in river water samples. Science of the Total Environment. 953:176109.
    DOI: 10.1016/j.scitotenv.2024.176109
  11. Sunayana Raya, Sarmila Tandukar, Hari Prasad Kattel, Sangita Sharma, Jatuwat Sangsanont, Kwanrawee Sirikanchana, Huong Thi Thuy Ngo, Jessamine Gail M. Inson, Ma. Luisa D. Enriquez, Zeba F. Alam, Ahmad Soleh Setiyawan, Tjandra Setiadi, and Eiji Haramoto. 2024. Prevalence of hepatitis A and E viruses in wastewater in Asian countries. Science of the Total Environment. 951:175473.
    DOI: 10.1016/j.scitotenv.2024.175473
  12. Bikash Malla, Sadhana Shrestha, Niva Sthapit, Soichiro Hirai, Sunayana Raya, Aulia Fajar Rahmani, Made Sandhyana Angga, Yadpiroon Siri, Annisa Andarini Ruti, and Eiji Haramoto. 2024. Beyond COVID-19: Wastewater-based epidemiology for multipathogen surveillance and normalization strategies. Science of the Total Environment. 946:174419.
    DOI: 10.1016/j.scitotenv.2024.174419
  13. Sunayana Raya, Bikash Malla, Ocean Thakali, Made Sandhyana Angga, Takahiro Segawa, Jeevan B. Sherchand, and Eiji Haramoto. 2024. Validation and application of high-throughput quantitative PCR for the simultaneous detection of microbial source tracking markers in environmental water. Science of the Total Environment. 940:173604.
    DOI: 10.1016/j.scitotenv.2024.173604
  14. Sadhana Shrestha, Bikash Malla, and Eiji Haramoto. 2024. High-throughput microfluidic quantitative PCR system for the simultaneous detection of antibiotic resistance genes and bacterial and viral pathogens in wastewater. Environmental Research. 255:119156.
    DOI: 10.1016/j.envres.2024.119156
  15. Made Sandhyana Angga, Mongkol Tipplook, Bikash Malla, Sunayana Raya, Katsuya Teshima, and Eiji Haramoto. 2024. Application of brewery waste-derived nitrocellulose membranes to the concentration of SARS-CoV-2 in wastewater. Environmental Technology & Innovation. 35:103646.
    DOI: 10.1016/j.eti.2024.103646
  16. Sarmila Tandukar, Ocean Thakali, Rakshya Baral, Ananda Tiwari, Eiji Haramoto, Reshma Tuladhar, Dev Raj Joshi, and Samendra P. Sherchan. 2024. Application of wastewater-based epidemiology for monitoring COVID-19 in hospital and housing wastewaters. Science of the Total Environment. 931:171877.
    DOI: 10.1016/j.scitotenv.2024.171877
  17. Sadhana Shrestha, Bikash Malla, and Eiji Haramoto. 2024. Group A Streptococcus pyogenes in wastewater: Applicability of wastewater-based epidemiology for monitoring the prevalence of GAS pharyngitis during the late COVID-19 pandemic phase. Science of the Total Environment. 928:172447.
    DOI: 10.1016/j.scitotenv.2024.172447
  18. Dai Kanamori, Jun Sakai, Takahiro Iijima, Yuka Oono, Bikash Malla, Eiji Haramoto, Satoshi Hayakawa, Shihoko Komine-Aizawa, Shigefumi Maesaki, Thomas Vorup-Jensen, Paul Evan Kilgore, Hikaru Kohase, Tomonori Hoshino, and Mitsuko Seki. 2024. SARS-CoV-2 detection in pediatric dental clinic wastewater reflects the number of local COVID-19 cases in children under 10 years old. Scientific Reports. 14:12187.
    DOI: 10.1038/s41598-024-63020-z
  19. Sarmila Tandukar, Ocean Thakali, Ananda Tiwari, Rakshya Baral, Bikash Malla, Eiji Haramoto, Jivan Shakya, Reshma Tuladhar, Dev Raj Joshi, Bhawana Sharma, Bhushan Raj Shrestha, and Samendra P. Sherchan. 2024. Application of skimmed-milk flocculation method for wastewater surveillance of COVID-19 in Kathmandu, Nepal. Pathogens. 13(5):366.
    DOI: 10.3390/pathogens13050366
  20. Tomoko Takeda, Kazushiro Yoshimori, Eiji Haramoto, Shingo Toride, and Masaaki Kitajima. 2024. Risk mapping of COVID-19 to create a common operating picture using data from wastewater monitoring. Journal of Disaster Research. 19(2):420-428.
    DOI: 10.20965/jdr.2024.p0420
  21. Sunayana Raya, Bikash Malla, Sadhana Shrestha, Niva Sthapit, Hari Kattel, Sangita Tara Sharma, Reshma Tuladhar, Rabin Maharjan, Tomoko Takeda, Masaaki Kitajima, Sarmila Tandukar, and Eiji Haramoto. 2024. Quantification of multiple respiratory viruses in wastewater in the Kathmandu Valley, Nepal: Potential implications of wastewater-based epidemiology for community disease surveillance in developing countries. Science of the Total Environment. 920:170845.
    DOI: 10.1016/j.scitotenv.2024.170845
  22. Jessamine Gail M. Inson, Bikash Malla, Divina M. Amalin, Thaddeus M. Carvajal, Ma. Luisa D. Enriquez, Soichiro Hirai, Sunayana Raya, Aulia Fajar Rahmani, Made Sandhyana Angga, Niva Sthapit, Sadhana Shrestha, Annisa Andarini Ruti, Tomoko Takeda, Masaaki Kitajima, Zeba F. Alam, and Eiji Haramoto. 2024. Detection of SARS-CoV-2 and Omicron variant RNA in wastewater samples from Manila, Philippines. Science of the Total Environment. 919:170921.
    DOI: 10.1016/j.scitotenv.2024.170921
  23. Niva Sthapit, Bikash Malla, Sarmila Tandukar, Ocean Thakali, Jeevan B. Sherchand, and Eiji Haramoto. 2024. Evaluating acute gastroenteritis-causing pathogen reduction in wastewater and the applicability of river water for wastewater-based epidemiology in the Kathmandu Valley, Nepal. Science of the Total Environment. 919:170764.
    DOI: 10.1016/j.scitotenv.2024.170764
  24. Bikash Malla, Kazuki Yamamoto, Kotomi Furukawa, and Eiji Haramoto. 2024. Performance evaluation and application of host-specific Bacteroidales and mitochondrial DNA markers to identify sources of fecal contamination in river water in Japan. PLOS Water. 3(3):e0000210.
    DOI: 10.1371/journal.pwat.0000210
  25. Bikash Malla, Sadhana Shrestha, and Eiji Haramoto. 2024. Optimization of the 5-plex digital PCR workflow for simultaneous monitoring of SARS-CoV-2 and other pathogenic viruses in wastewater. Science of the Total Environment. 913:169746.
    DOI: 10.1016/j.scitotenv.2023.169746
  26. Sadhana Shrestha, Bikash Malla, Jatuwat Sangsanont, Kwanrawee Sirikanchana, Huong Thi Thuy Ngo, Jessamine Gail M. Inson, Ma. Luisa D. Enriquez, Zeba F. Alam, Ahmad Soleh Setiyawan, Tjandra Setiadi, Tomoko Takeda, Masaaki Kitajima, and Eiji Haramoto. 2024. Detection of enteroviruses related to hand foot and mouth disease in wastewater of Asian communities. Science of the Total Environment. 912:169375.
    DOI: 10.1016/j.scitotenv.2023.169375
  27. Sadhana Shrestha, Bikash Malla, and Eiji Haramoto. 2024. Estimation of Norovirus infections in Japan: An application of wastewater-based epidemiology for enteric disease assessment. Science of the Total Environment. 912:169334.
    DOI: 10.1016/j.scitotenv.2023.169334
  28. Yadpiroon Siri, Apirak Bumyut, Nopadol Precha, Kwanrawee Sirikanchana, Eiji Haramoto, and Prasert Makkaew. 2024. Multidrug antibiotic resistance in hospital wastewater as a reflection of antibiotic prescription and infection cases. Science of the Total Environment. 908:168453.
    DOI: 10.1016/j.scitotenv.2023.168453
  29. Sunayana Raya, Bikash Malla, Ocean Thakali, Made Sandhyana Angga, and Eiji Haramoto. 2024. Development of highly sensitive one-step reverse transcription-quantitative PCR for SARS-CoV-2 detection in wastewater. Science of the Total Environment. 907:167844.
    DOI: 10.1016/j.scitotenv.2023.167844
  30. Samendra P. Sherchan, Ocean Thakali, Luisa A. Ikner, Charles Gerba, and Eiji Haramoto. 2023. Survivability of Delta and Omicron variants of SARS-CoV-2 in wastewater. Water Research, 246:120644.
    DOI: 10.1016/j.watres.2023.120644
  31. Sadhana Shrestha, Bikash Malla, and Eiji Haramoto. 2023. Monitoring hand foot and mouth disease using long-term wastewater surveillance in Japan: Quantitative PCR assay development and application. Science of the Total Environment. 901:165926.
    DOI: 10.1016/j.scitotenv.2023.165926
  32. Sadhana Shrestha, Bikash Malla, Made Sandhyana Angga, Niva Sthapit, Sunayana Raya, Soichiro Hirai, Aulia Fajar Rahmani, Ocean Thakali, and Eiji Haramoto. 2023. Long-term SARS-CoV-2 surveillance in wastewater and estimation of COVID-19 cases: An application of wastewater-based epidemiology. Science of the Total Environment. 896:165270.
    DOI: 10.1016/j.scitotenv.2023.165270
  33. Yadpiroon Siri, Nopadol Precha, Kwanrawee Sirikanchana, Eiji Haramoto, and Prasert Makkaew. 2023. Antimicrobial resistance in southeast Asian water environments: A systematic review of current evidence and future research directions. Science of the Total Environment. 896:165229.
    DOI: 10.1016/j.scitotenv.2023.165229
  34. Samendra P. Sherchan, Bikash Malla, and Eiji Haramoto. 2023. First quantitative detection of tomato brown rugose fruit virus in wastewater in Louisiana. Science of the Total Environment. 888:164001.
    DOI: 10.1016/j.scitotenv.2023.164001
  35. Made Sandhyana Angga, Bikash Malla, Sunayana Raya, Masaaki Kitajima, and Eiji Haramoto. 2023. Optimization and performance evaluation of an automated filtration method for the recovery of SARS-CoV-2 and other viruses in wastewater. Science of the Total Environment. 882:163487.
    DOI: 10.1016/j.scitotenv.2023.163487
  36. Guangming Jiang, Yanchen Liu, Song Tang, Masaaki Kitajima, Eiji Haramoto, Sudipti Arora, Phil Choi, Greg Jackson, Patrick M. D’Aoust, Robert Delatolla, Shuxin Zhang, Ying Guo, Jiangping Wu, Yan Chen, Elipsha Sharma, Tanjila Alam Prosun, Jiawei Zhao, Manish Kumar, Ryo Honda, Warish Ahmed, and Jon Meiman. 2023. Moving forward with COVID-19: Future research prospects of wastewater-based epidemiology methodologies and applications. Current Opinion in Environmental Science & Health. 33:100458.
    DOI: 10.1016/j.coesh.2023.100458
  37. Ananda Tiwari, Sangeet Adhikari, Shuxin Zhang, Tamunobelema B. Solomon, Anssi Lipponen, Md. Aminul Islam, Ocean Thakali, Sarawut Sangkham, Mohamed N. F. Shaheen, Guangming Jiang, Eiji Haramoto, Payal Mazumder, Bikash Malla, Manish Kumar, Tarja Pitkänen, and Samendra P. Sherchan. 2023. Tracing COVID-19 trails in wastewater: a systematic review of SARS-CoV-2 surveillance with viral variants. Water. 15(6):1018.
    DOI: 10.3390/w15061018
  38. Ryota Gomi, Eiji Haramoto, Hiroyuki Wada, Yoshinori Sugie, Chih-Yu Ma, Sunayana Raya, Bikash Malla, Fumitake Nishimura, Hiroaki Tanaka, and Masaru Ihara. 2023. Development of two microbial source tracking markers for detection of wastewater-associated Escherichia coli isolates. Science of the Total Environment. 864:160952.
    DOI: 10.1016/j.scitotenv.2022.160952
  39. Jatuwat Sangsanont, Surapong Rattanakul, Prasert Makkaew, Nopadol Precha, Pratchaya Rukthanapitak, Montakarn Sresung, Yadpiroon Siri, Masaaki Kitajima, Tomoko Takeda, Eiji Haramoto, Jiratchaya Puenpa, Nasamon Wanlapakorn, Yong Poovorawan, Skorn Mongkolsuk, and Kwanrawee Sirikanchana. 2023. Wastewater monitoring in tourist cities as potential sentinel sites for near real-time dynamics of imported SARS-CoV-2 variants. Science of the Total Environment. 860:160317.
    DOI: 10.1016/j.scitotenv.2022.160317
  40. Ananda Tiwari, Sangeet Adhikari, Devrim Kaya, Md. Aminul Islam, Bikash Malla, Samendra P. Sherchan, Ahmad I. Al-Mustapha, Manish Kumar, Srijan Aggarwal, Prosun Bhattacharya, Kyle Bibby, Rolf Halden, Aaron Bivins, Eiji Haramoto, Sami Oikarinen, Annamari Heikinheimo, and Tarja Pitkänen. 2023. Monkeypox outbreak: Wastewater and environmental surveillance perspective. Science of the Total Environment. 856(2):159166.
    DOI: 10.1016/j.scitotenv.2022.159166
  41. Xuan Li, Shuxin Zhang, Samendrdra Sherchan, Gorka Orive, Unax Lertxundi, Eiji Haramoto, Ryo Honda, Manish Kumar, Sudipti Arora, Masaaki Kitajima, and Guangming Jiang. 2023. Correlation between SARS-CoV-2 RNA concentration in wastewater and COVID-19 cases in community: A systematic review and meta-analysis. Journal of Hazardous Materials. 441:129848.
    DOI: 10.1016/j.jhazmat.2022.129848
  42. Bikash Malla, Ocean Thakali, Sadhana Shrestha, Takahiro Segawa, Masaaki Kitajima, and Eiji Haramoto. 2022. Application of a high-throughput quantitative PCR system for simultaneous monitoring of SARS-CoV-2 variants and other pathogenic viruses in wastewater. Science of the Total Environment. 853:158659.
    DOI: 10.1016/j.scitotenv.2022.158659
  43. Ocean Thakali, Sunayana Raya, Bikash Malla, Sarmila Tandukar, Ananda Tiwari, Samendra P. Sherchan, Jeevan B. Sherchand, and Eiji Haramoto. 2022. Pilot study on wastewater surveillance of dengue virus RNA: Lessons, challenges, and implications for future research. Environmental Challenges. 9:100614.
    DOI: 10.1016/j.envc.2022.100614
  44. Mohan Amarasiri, Tsubasa Takezawa, Bikash Malla, Takashi Furukawa, Jeevan B. Sherchand, Eiji Haramoto, and Kazunari Sei. 2022. Prevalence of antibiotic resistance genes in drinking and environmental water sources of the Kathmandu Valley, Nepal. Frontiers in Microbiology. 13:894014.
    DOI: 10.3389/fmicb.2022.894014
  45. Ryo Iwamoto, Kiyoshi Yamaguchi, Chisato Arakawa, Hiroki Ando, Eiji Haramoto, Ken-ichi Setsukinai, Kotoe Katayama, Takuya Yamagishi, Sumire Sorano, Michio Murakami, Shigeru Kyuwa, Hiroyuki Kobayashi, Satoshi Okabe, Seiya Imoto, and Masaaki Kitajima. 2022. The detectability and removal efficiency of SARS-CoV-2 in a large-scale septic tank of a COVID-19 quarantine facility in Japan. Science of the Total Environment. 849:157869.
    DOI: 10.1016/j.scitotenv.2022.157869
  46. Made Sandhyana Angga, Bikash Malla, Sunayana Raya, Ayame Kitano, Xiaomao Xie, Hiroshi Saitoh, Noriyuki Ohnishi, and Eiji Haramoto. 2022. Development of a magnetic nanoparticle-based method for concentrating SARS-CoV-2 in wastewater. Science of the Total Environment. 848:157613.
    DOI: 10.1016/j.scitotenv.2022.157613
  47. Niva Sthapit, Bikash Malla, Sarmila Tandukar, Rajani Ghaju Shrestha, Ocean Thakali, Jeevan B. Sherchand, Eiji Haramoto, and Futaba Kazama. 2022. Occurrence and reduction of Shiga toxin-producing Escherichia coli in wastewaters in the Kathmandu Valley, Nepal. Water. 14(14):2224.
    DOI: 10.3390/w14142224
  48. Muhammad Adnan Sabar, Ryo Honda, and Eiji Haramoto. 2022. CrAssphage as an indicator of human-fecal contamination in water environment and virus reduction in wastewater treatment. Water Research. 221:118827.
    DOI: 10.1016/j.watres.2022.118827
  49. Ocean Thakali, Bikash Malla, Sunayana Raya, Niva Sthapit, Samendra P. Sherchan, Takashi Furukawa, Kazunari Sei, Jeevan B. Sherchand, and Eiji Haramoto. 2022. Prevalence of antibiotic resistance genes in drinking water of the Kathmandu Valley, Nepal. Environmental Challenges. 7:100527.
    DOI: 10.1016/j.envc.2022.100527
  50. Guangming Jiang, Jiangping Wu, Jennifer Weidhaas, Xuan Li, Yan Chen, Jochen Mueller, Jiaying Li, Manish Kumar, Xu Zhou, Sudipti Arora, Eiji Haramoto, Samendrdra Sherchan, Gorka Orive, Unax Lertxundi, Ryo Honda, Masaaki Kitajima, and Greg Jackson. 2022. Artificial neural network-based estimation of COVID-19 case numbers and effective reproduction rate using wastewater-based epidemiology. Water Research. 218:118451.
    DOI: 10.1016/j.watres.2022.118451
  51. Rajani Ghaju Shrestha, Yasuhiro Tanaka, and Eiji Haramoto. 2022. A review on the prevalence of Arcobacter in aquatic environments. Water. 14(8):1266.
    DOI: 10.3390/w14081266
  52. Sarmila Tandukar, Niva Sthapit, Ocean Thakali, Bikash Malla, Samendra P. Sherchan, Bijay Man Shakya, Laxman P. Shrestha, Jeevan B. Sherchand, Dev Raj Joshi, Bhupendra Lama, and Eiji Haramoto. 2022. Detection of SARS-CoV-2 RNA in wastewater, river water, and hospital wastewater of Nepal. Science of the Total Environment. 824:153816.
    DOI: 10.1016/j.scitotenv.2022.153816
  53. Shotaro Torii, Wakana Oishi, Yifan Zhu, Ocean Thakali, Bikash Malla, Zaizhi Yu, Bo Zhao, Chisato Arakawa, Masaaki Kitajima, Akihiko Hata, Masaru Ihara, Shigeru Kyuwa, Daisuke Sano, Eiji Haramoto, and Hiroyuki Katayama. 2022. Comparison of five polyethylene glycol precipitation procedures for the RT-qPCR based recovery of murine hepatitis virus, bacteriophage phi6, and pepper mild mottle virus as a surrogate for SARS-CoV-2 from wastewater. Science of the Total Environment. 807(2):150722.
    DOI: 10.1016/j.scitotenv.2021.150722
  54. Sarmila Tandukar, Rajendra Khanal, Rija Manandhar, Ashok Pandey, Niva Sthapit, Samendra P. Sherchan, and Eiji Haramoto. 2021. Possibility of detection of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) through wastewater in developing countries. Water. 13(23):3412.
    DOI: 10.3390/w13233412
  55. Ocean Thakali, Bikash Malla, Sarmila Tandukar, Niva Sthapit, Sunayana Raya, Takashi Furukawa, Kazunari Sei, Jeevan B. Sherchand, and Eiji Haramoto. 2021. Release of antibiotic-resistance genes from hospitals and a wastewater treatment plant in the Kathmandu Valley, Nepal. Water. 13(19):2733.
    DOI: 10.3390/w13192733
  56. Sarmila Tandukar, Rajani Ghaju Shrestha, Bikash Malla, Niva Sthapit, Jeevan B. Sherchand, Samendra P. Sherchan, and Eiji Haramoto. 2021. Virus reduction at wastewater treatment plants in Nepal. Environmental Challenges. 5:100281.
    DOI: 10.1016/j.envc.2021.100281
  57. Takayuki Miura, Hiroyuki Takino, Arisa Gima, Eiji Haramoto, and Michihiro Akiba. 2021. Recovery of nucleic acids of enteric viruses and host-specific Bacteroidales from groundwater by using an adsorption-direct extraction method. Applied and Environmental Microbiology. 87(18):e00710-21.
    DOI: 10.1128/AEM.00710-21
  58. Keita Yanagimoto and Eiji Haramoto. 2021. Isolation of alpha-toxin-deficient Clostridium perfringens type F from sewage influents and effluents. Microbiology Spectrum. 9(1):e00214-21.
    DOI: 10.1128/Spectrum.00214-21
  59. Mai Nakano, Tatsuru Kamei, Bijay Man Shakya, Takashi Nakamura, Yasuhiro Tanaka, Eiji Haramoto, Tadashi Toyama, and Futaba Kazama. 2021. Distribution and community composition of anammox bacteria in shallow groundwater of the Kathmandu Valley, Nepal. Microbes and Environments. 36(1):ME20143.
    DOI: 10.1264/jsme2.ME20143
  60. Tomoko Takeda, Masaaki Kitajima, Ngo Thi Thuy Huong, Ahmad Setiyawan, Tjandra Setiadi, Dang The Hung, and Eiji Haramoto. 2021. Institutionalising wastewater surveillance systems to minimise the impact of COVID-19: Cases of Indonesia, Japan and Viet Nam. Water Science and Technology. 83(2):251-256.
    DOI: 10.2166/wst.2020.558
  61. Warish Ahmed, Paul M. Bertsch, Kyle Bibby, Eiji Haramoto, Joanne Hewitt, Flavia Huygens, Pradip Gyawali, Asja Korajkic, Shane Riddell, Samendra P. Sherchan, Stuart L. Simpson, Kwanrawee Sirikanchana, Erin M. Symonds, Rory Verhagen, Seshadri S. Vasan, Masaaki Kitajima, and Aaron Bivins. 2020. Decay of SARS-CoV-2 and surrogate murine hepatitis virus RNA in untreated wastewater to inform application in wastewater-based epidemiology. Environmental Research. 191:110092.
    DOI: 10.1016/j.envres.2020.110092
  62. Niva Sthapit, Bikash Malla, Rajani Ghaju Shrestha, Sarmila Tandukar, Jeevan B. Sherchand, Eiji Haramoto, and Futaba Kazama. 2020. Investigation of Shiga toxin-producing Escherichia coli in groundwater, river water, and fecal sources in the Kathmandu Valley, Nepal. Water, Air, & Soil Pollution. 231:557.
    DOI: 10.1007/s11270-020-04920-4
  63. Warish Ahmed, Aaron Bivins, Paul M. Bertsch, Kyle Bibby, Phil M. Choi, Kata Farkas, Pradip Gyawali, Kerry A. Hamilton, Eiji Haramoto, Masaaki Kitajima, Stuart L. Simpson, Sarmila Tandukar, Kevin Thomas, and Jochen F. Mueller. 2020. Surveillance of SARS-CoV-2 RNA in wastewater: Methods optimization and quality control are crucial for generating reliable public health information. Current Opinion in Environmental Science & Health. 17:82-93.
    DOI: 10.1016/j.coesh.2020.09.003
  64. Warish Ahmed, Paul Bertsch, Aaron Bivins, Kyle Bibby, Kata Farkas, Amy Gathercole, Eiji Haramoto, Pradip Gyawali, Korajkic Asja, Brian McMinn, Jochen Mueller, Stuart Simpson, Wendy Smith, Erin Symonds, Kevin Thomas, Rory Verhagen, and Masaaki Kitajima. 2020. Comparison of virus concentration methods for the RT-qPCR-based recovery of murine hepatitis virus, a surrogate for SARS-CoV-2 from untreated wastewater. Science of the Total Environment. 739:139960.
    DOI: 10.1016/j.scitotenv.2020.139960
  65. Masaaki Kitajima, Warish Ahmed, Kyle Bibby, Annalaura Carducci, Charles P. Gerba, Kerry A. Hamilton, Eiji Haramoto, and Joan B. Rose. 2020. SARS-CoV-2 in wastewater: state of the knowledge and research needs. Science of the Total Environment. 739:139076.
    DOI: 10.1016/j.scitotenv.2020.139076
  66. Eiji Haramoto, Bikash Malla, Ocean Thakali, and Masaaki Kitajima. 2020. First environmental surveillance for the presence of SARS-CoV-2 RNA in wastewater and river water in Japan. Science of the Total Environment. 737:140405.
    DOI: 10.1016/j.scitotenv.2020.140405
  67. Sarmila Tandukar, Samendra P. Sherchan, and Eiji Haramoto. 2020. Reduction of pathogenic and indicator viruses at a drinking water treatment plant in Southern Louisiana, USA. Food and Environmental Virology. 12(3):269-273.
    DOI: 10.1007/s12560-020-09436-y
  68. Sarmila Tandukar, Samendra P. Sherchan, and Eiji Haramoto. 2020. Reduction of human enteric and indicator viruses at a wastewater treatment plant in Southern Louisiana, USA. Food and Environmental Virology. 12(3):260-263.
    DOI: 10.1007/s12560-020-09433-1
  69. Yuri Ito, Sadhana Shrestha, Arun Prasad Bhattarai, Eiji Haramoto, Junko Shindo, and Kei Nishida. 2020. Waterborne diarrhoeal infection risk from multiple water sources and the impact of an earthquake. Journal of Water and Health. 18(4):464-476.
    DOI: 10.2166/wh.2020.223
  70. Keita Yanagimoto, Kosei Uematsu, Takaya Yamagami, and Eiji Haramoto. 2020. The circulation of type F Clostridium perfringens among humans, sewage, and Ruditapes philippinarum (asari clams). Pathogens. 9(8):669.
    DOI: 10.3390/pathogens9080669
  71. Warish Ahmed, Masaaki Kitajima, Sarmila Tandukar, and Eiji Haramoto. 2020. Recycled water safety: current status of traditional and emerging viral indicators. Current Opinion in Environmental Science & Health. 16:62-72.
    DOI: 10.1016/j.coesh.2020.02.009
  72. Bikash Malla and Eiji Haramoto. 2020. Host-specific mitochondrial DNA markers for tracking the sources of fecal pollution. Current Opinion in Environmental Science & Health. 16:34-46.
    DOI: 10.1016/j.coesh.2020.02.006
  73. Aaron Bivins, Devin North, Arslan Ahmad, Warish Ahmed, Eric Alm, Frederic Been, Prosun Bhattacharya, Lubertus Bijlsma, Alexandria B. Boehm, Joe Brown, Gianluigi Buttiglieri, Vincenza Calabro, Annalaura Carducci, Sara Castiglioni, Zeynep Cetecioglu Gurol, Sudip Chakraborty, Federico Costa, Stefano Curcio, Francis L. de los Reyes III, Jeseth Delgado Vela, Kata Farkas, Xavier Fernandez-Casi, Charles Gerba, Daniel Gerrity, Rosina Girones, Raul Gonzalez, Eiji Haramoto, Angela Harris, Patricia A. Holden, Md. Tahmidul Islam, Davey L. Jones, Barbara Kasprzyk-Hordern, Masaaki Kitajima, Nadine Kotlarz, Manish Kumar, Keisuke Kuroda, Giuseppina La Rosa, Francesca Malpei, Mariana Mautus, Sandra L. McLellan, Gertjan Medema, John Scott Meschke, Jochen Mueller, Ryan J. Newton, David Nilsson, Rachel T. Noble, Alexander van Nuijs, Jordan Peccia, T. Alex Perkins, Amy J. Pickering, Joan Rose, Gloria Sanchez, Adam Smith, Lauren Stadler, Christine Stauber, Kevin Thomas, Tom van der Voorn, Krista Wigginton, Kevin Zhu, and Kyle Bibby. 2020. Wastewater-based epidemiology: global collaborative to maximize contributions in the fight against COVID-19. Environmental Science & Technology. 54(13):7754-7757.
    DOI: 10.1021/acs.est.0c02388
  74. Ocean Thakali, John P. Brooks, Shalina Shahin, Samendra P. Sherchan, and Eiji Haramoto. 2020. Removal of antibiotic resistance genes at two conventional wastewater treatment plants of Louisiana, USA. Water. 12(6):1729.
    DOI: 10.3390/w12061729
  75. Lauren M. Ward, Rajani Ghaju Shrestha, Sarmila Tandukar, Jeevan B. Sherchand, Eiji Haramoto, and Samendra P. Sherchan. 2020. Evaluation of crAssphage marker for tracking fecal contamination in river water in Nepal. Water, Air, & Soil Pollution. 231(6):282.
    DOI: 10.1007/s11270-020-04648-1
  76. Sarmila Tandukar, Samendra P. Sherchan, and Eiji Haramoto. 2020. Applicability of crAssphage, pepper mild mottle virus, and tobacco mosaic virus as indicators of reduction of enteric viruses during wastewater treatment. Scientific Reports. 10:3616.
    DOI: 10.1038/s41598-020-60547-9
  77. Ocean Thakali, Sarmila Tandukar, John P. Brooks, Samendra P. Sherchan, Jeevan B. Sherchand, and Eiji Haramoto. 2020. The occurrence of antibiotic resistance genes in an urban river in Nepal. Water. 12(2):450.
    DOI: 10.3390/w12020450
  78. Keita Yanagimoto, Takaya Yamagami, Kosei Uematsu, and Eiji Haramoto. 2020. Characterization of Salmonella isolates from wastewater treatment plant influents to estimate unreported cases and infection sources of salmonellosis. Pathogens. 9(1):52.
    DOI: 10.3390/pathogens9010052
  79. Bikash Malla, Koki Makise, Koki Nakaya, Taizo Mochizuki, Takahiro Yamada, and Eiji Haramoto. 2019. Evaluation of human- and animal-specific viral markers and application of crAssphage, pepper mild mottle virus, and tobacco mosaic virus as potential fecal pollution markers to river water in Japan. Food and Environmental Virology. 11(4):446-452.
    DOI: 10.1007/s12560-019-09398-w

  80. Rajani Ghaju Shrestha, Samendra P. Sherchan, Masaaki Kitajima, Yasuhiro Tanaka, Charles P. Gerba, and Eiji Haramoto. 2019. Reduction of Arcobacter at two conventional wastewater treatment plants in southern Arizona, USA. Pathogens. 8(4):175.
    DOI: 10.3390/pathogens8040175
  81. Bikash Malla, Rajani Ghaju Shrestha, Sarmila Tandukar, Jeevan B. Sherchand, and Eiji Haramoto. 2019. Performance evaluation of human-specific viral markers and application of pepper mild mottle virus and crAssphage to environmental water samples as fecal pollution markers in the Kathmandu Valley, Nepal. Food and Environmental Virology. 11(3):274-287.
    DOI: 10.1007/s12560-019-09389-x
  82. Rajani Ghaju Shrestha, Yasuhiro Tanaka, Jeevan B. Sherchand, and Eiji Haramoto. 2019. Identification of 16S rRNA and virulence-associated genes of Arcobacter in water samples in the Kathmandu Valley, Nepal. Pathogens. 8(3):110.
    DOI: 10.3390/pathogens8030110
  83. Rajani Ghaju Shrestha, Sarmila Tandukar, Dinesh Bhandari, Samendra P. Sherchan, Yasuhiro Tanaka, Jeevan B. Sherchand, and Eiji Haramoto. 2019. Prevalence of Arcobacter and other pathogenic bacteria in river water in Nepal. Water. 11(7):1416.
    DOI: 10.3390/w11071416
  84. Bikash Malla, Rajani Ghaju Shrestha, Sarmila Tandukar, Dinesh Bhandari, Ocean Thakali, Jeevan B. Sherchand, and Eiji Haramoto. 2019. Detection of pathogenic viruses, pathogen indicators, and fecal-source markers within tanker water and their sources in the Kathmandu Valley, Nepal. Pathogens. 8(2):81.
    DOI: 10.3390/pathogens8020081
  85. Rajani Ghaju Shrestha, Kazuko Sawada, Daisuke Inoue, Hayato Yoshinaga, Bikash Malla, Sarmila Tandukar, Dinesh Bhandari, Yasuhiro Tanaka, Kazunari Sei, Jeevan B. Sherchand, and Eiji Haramoto. 2019. Comparison of pathogenic bacteria in water and fecal-source samples in the Kathmandu Valley, Nepal, using high-throughput DNA microarray. Biomedical Journal of Scientific & Technical Research. 17(5):13074-13081.
    DOI: 10.26717/BJSTR.2019.17.003060
  86. Sarmila Tandukar, Jeevan B. Sherchand, Surendra Karki, Bikash Malla, Rajani Ghaju Shrestha, Dinesh Bhandari, Ocean Thakali, and Eiji Haramoto. 2019. Co-infection by waterborne enteric viruses in children with gastroenteritis in Nepal. Healthcare. 7(1):9.
    DOI: 10.3390/healthcare7010009
  87. Bikash Malla, Rajani Ghaju Shrestha, Sarmila Tandukar, Dinesh Bhandari, Daisuke Inoue, Kazunari Sei, Yasuhiro Tanaka, Jeevan B. Sherchand, and Eiji Haramoto. 2018. Identification of human and animal fecal contamination in drinking water sources in the Kathmandu Valley, Nepal, using host-associated Bacteroidales quantitative PCR assays. Water. 10(12):1796.
    DOI: 10.3390/w10121796
  88. Luis Alfaro, Eiji Haramoto, and Yasushi Sakamoto. 2018. Examination of infiltration rate change in saturated soil inoculated with Escherichia coli at high temperature using three measuring methods. Journal of Japan Society of Civil Engineers, Ser. B1 (Hydraulic Engineering). 74(5):I_349-I_354.
    DOI: 10.2208/jscejhe.74.5_I_349
  89. Eiji Haramoto and Rui Osada. 2018 Assessment and application of host-specific Bacteroidales genetic markers for microbial source tracking of river water in Japan. PLOS ONE. 13(11):e0207727.
    DOI: 10.1371/journal.pone.0207727
  90. Rajani Ghaju Shrestha, Yasuhiro Tanaka, Bikash Malla, Sarmila Tandukar, Dinesh Bhandari, Daisuke Inoue, Kazunari Sei, Jeevan B. Sherchand, and Eiji Haramoto. 2018. Development of a quantitative PCR assay for Arcobacter spp. and its application to environmental water samples. Microbes and Environments. 33(3):309-316.
    DOI: 10.1264/jsme2.ME18052
  91. Sadhana Shrestha, Takashi Nakamura, Jun Magome, Yoko Aihara, Naoki Kondo, Eiji Haramoto, Bikash Malla, Junko Shindo, and Kei Nishida. 2018. Groundwater use and diarrhoea in urban Nepal: novel application of a geostatistical interpolation technique linking environmental and epidemiologic survey data. International Health. 10(5):324-332.
    DOI: 10.1093/inthealth/ihy037
  92. Akihiko Hata, Masaaki Kitajima, Eiji Haramoto, Suntae Lee, Masaru Ihara, Charles P. Gerba, and Hiroaki Tanaka. 2018. Next-generation amplicon sequencing identifies genetically diverse human astroviruses, including recombinant strains, in environmental waters. Scientific Reports. 8:11837.
    DOI: 10.1038/s41598-018-30217-y
  93. Bikash Malla, Rajani Ghaju Shrestha, Sarmila Tandukar, Dinesh Bhandari, Daisuke Inoue, Kazunari Sei, Yasuhiro Tanaka, Jeevan B. Sherchand, and Eiji Haramoto. 2018. Validation of host-specific Bacteroidales quantitative PCR assays and their application to microbial source tracking of drinking water sources in the Kathmandu Valley, Nepal. Journal of Applied Microbiology. 125(2):609-619.
    DOI: 10.1111/jam.13884
  94. Bradley W. Schmitz, Hitoha Moriyama, Eiji Haramoto, Masaaki Kitajima, Samendra Sherchan, Charles P. Gerba, and Ian L. Pepper. 2018. Reduction of Cryptosporidium, Giardia, and fecal indicators by Bardenpho wastewater treatment. Environmental Science & Technology. 52(12):7015-7023.
    DOI: 10.1021/acs.est.7b05876
  95. Daisuke Inoue, Hayato Yoshinaga, Bikash Malla, Rajani Ghaju Shrestha, Sarmila Tandukar, Dinesh Bhandari, Yasuhiro Tanaka, Jeevan B. Sherchand, Eiji Haramoto, and Kazunari Sei. 2018. Comprehensive detection of pathogenic bacteria in jar water, community well groundwater, and environmental water in the Kathmandu Valley, Nepal. Japanese Journal of Water Treatment Biology. 54(2):65-72.
    DOI: 10.2521/jswtb.54.65
  96. Masaaki Kitajima, Andri T. Rachmadi, Brandon C. Iker, Eiji Haramoto, and Charles P. Gerba. 2018. Temporal variations in genotype distribution of human sapoviruses and Aichi virus 1 in wastewater in southern Arizona, United States. Journal of Applied Microbiology. 124(5):1324-1332.
    DOI: 10.1111/jam.13712
  97. Eiji Haramoto, Masaaki Kitajima, Akihiko Hata, Jason R. Torrey, Yoshifumi Masago, Daisuke Sano, and Hiroyuki Katayama. 2018. A review on recent progress in the detection methods and prevalence of human enteric viruses in water. Water Research. 135:168-186.
    DOI: 10.1016/j.watres.2018.02.004
  98. Sarmila Tandukar, Jeevan B. Sherchand, Dinesh Bhandari, Samendra P. Sherchan, Bikash Malla, Rajani Ghaju Shrestha, and Eiji Haramoto. 2018. Presence of human enteric viruses, protozoa, and indicators of pathogens in the Bagmati River, Nepal. Pathogens. 7(2):38.
    DOI: 10.3390/pathogens7020038
  99. Luis Alfaro, Eiji Haramoto, and Yasushi Sakamoto. 2018. Laboratory-scale experiment measuring Escherichia coli infiltration in saturated soil columns. Journal of Japan Society of Civil Engineers, Ser. B1 (Hydraulic Engineering). 74(4):I_31-I_36.
    DOI: doi.org/10.2208/jscejhe.74.I_31
  100. Eiji Haramoto. 2018. Detection of waterborne protozoa, viruses, and bacteria in groundwater and other water samples in the Kathmandu Valley, Nepal. IOP Conference Series: Earth and Environmental Science. 120(1):012004.
    DOI: 10.1088/1755-1315/120/1/012004
  101. Sadhana Shrestha, Shankar Shrestha, Junko Shindo, Jeevan B. Sherchand, and Eiji Haramoto. 2018. Virological quality of irrigation water sources and pepper mild mottle virus and tobacco mosaic virus as index of pathogenic virus contamination level. Food and Environmental Virology. 10(1):107-120.
    DOI: 10.1007/s12560-017-9324-2
  102. Sarmila Tandukar, Jeevan B. Sherchand, Jia Xue, Sital Uprety, Samendra P. Sherchan, Dinesh Bhandari, Bikash Malla, Rajani Ghaju Shrestha, Laxmi Parajuli, Shristi Poudel, Ashmita Dhital, and Eiji Haramoto. 2018. Prevalence and associated risk factors of Giardia duodenalis infection among school-going children in Nepal. Parasitology Research. 117(1):287-293.
    DOI: 10.1007/s00436-017-5706-5
  103. Rajani Ghaju Shrestha, Yasuhiro Tanaka, Bikash Malla, Dinesh Bhandari, Sarmila Tandukar, Daisuke Inoue, Kazunari Sei, Jeevan B. Sherchand, and Eiji Haramoto. 2017. Next-generation sequencing identification of pathogenic bacterial genes and their relationship with fecal indicator bacteria in different water sources in the Kathmandu Valley, Nepal. Science of the Total Environment. 601-602:278-284.
    DOI: 10.1016/j.scitotenv.2017.05.105
  104. Shankar Shrestha, Eiji Haramoto, and Junko Shindo. 2017. Assessing the infection risk of enteropathogens from consumption of raw vegetables washed with contaminated water in Kathmandu Valley, Nepal. Journal of Applied Microbiology. 123(5):1321-1334.
    DOI: 10.1111/jam.13573
  105. Eiji Haramoto and Masaaki Kitajima. 2017. Quantification and genotyping of Aichi virus 1 in water samples in the Kathmandu Valley, Nepal. Food and Environmental Virology. 9(3):350-353.
    DOI: 10.1007/s12560-017-9283-7
  106. Ryota Kataoka, Katsuhiko Nagasaka, Yasuhiro Tanaka, Hideki Yamamura, Shoya Shinohara, Eiji Haramoto, Masayuki Hayakawa, and Yasushi Sakamoto. 2017. Hairy vetch (Vicia villosa), as a green manure, increases fungal biomass, fungal community composition, and phosphatase activity in soil. Applied Soil Ecology. 117-118:16-20.
    DOI: 10.1016/j.apsoil.2017.04.015
  107. Masaaki Kitajima, Andri T. Rachmadi, Brandon C. Iker, Eiji Haramoto, and Charles P. Gerba. 2016. Genetically distinct genogroup IV norovirus strains identified in wastewater. Archives of Virology. 161(12):3521-3525.
    DOI: 10.1007/s00705-016-3036-z
  108. 原本英司, 渡辺亮, 森田久男, 岸田直裕, 秋葉道宏, 坂本康. 2016. バクテロイデス遺伝子マーカーを用いた河川水中のふん便汚染源解析. 用水と廃水. 58(8):589-595.
  109. Shankar Shrestha, Eiji Haramoto, Jeevan B. Sherchand, Sudeep Hada, Sudarshan Rajbhandari, and Junko Shindo. 2016. Prevalence of protozoa and indicator bacteria in wastewater irrigation sources in the Kathmandu Valley, Nepal: cases from Kirtipur, Bhaktapur and Madhyapur Thimi municipalities. Journal of Water and Environment Technology. 14(3):149-157.
    [Abstract] [PDF]
  110. Shankar Shrestha, Eiji Haramoto, Jeevan B. Sherchand, Sudarshan Rajbhandari, Meera Prajapati, and Junko Shindo. 2016. Seasonal variation of microbial quality of irrigation water in different sources in the Kathmandu Valley, Nepal. Naresuan University Engineering Journal. 11(1):57-62.
    [Abstract] [PDF]
  111. Dinesh Bhandari, Sarmila Tandukar, Eiji Haramoto, and Jeevan B. Sherchand. 2016. Determination of fecal indicator bacteria in shallow and deep groundwater sources in the Kathmandu valley, Nepal. Naresuan University Engineering Journal. 11(1):43-46.
    [Abstract] [PDF]
  112. Shankar Shrestha, Eiji Haramoto, Jeevan B. Sherchand, and Junko Shindo. 2016. Detection of coliform bacteria in irrigation water and on vegetable surfaces in the Kathmandu Valley of Nepal. Journal of Institute of Medicine. 38(1):43-47.
    [PDF]
  113. Bikash Malla, Rajani Ghaju Shrestha, Dinesh Bhandari, Sarmila Tandukar, Sadhana Shrestha, Hayato Yoshinaga, Daisuke Inoue, Kazunari Sei, Kei Nishida, Yasuhiro Tanaka, Jeevan B. Sherchand, and Eiji Haramoto. 2015. Detection of Cryptosporidium, Giardia, fecal indicator bacteria, and total bacteria in commercial jar water in the Kathmandu Valley, Nepal. Journal of Institute of Medicine. 37(2):10-15.
    [PDF]
  114. Masaaki Kitajima, Andri T. Rachmadi, Brandon C. Iker, Eiji Haramoto, Ian L. Pepper, and Charles P. Gerba. 2015. Occurrence and genetic diversity of human cosavirus in influent and effluent of wastewater treatment plants in Arizona, United States. Archives of Virology. 160(7):1775-1779.
    [Abstract]
  115. Eiji Haramoto, Saki Fujino, and Mikie Otagiri. 2015. Distinct behaviors of infectious F-specific RNA coliphage genogroups at a wastewater treatment plant. Science of the Total Environment. 520:32-38.
    [Abstract]
  116. Sadhana Shrestha, Eiji Haramoto, Rabin Malla, and Kei Nishida. 2015. Risk of diarrhoea from shallow groundwater contaminated with enteropathogens in the Kathmandu Valley, Nepal. Journal of Water and Health. 13(1):259-269.
    [Abstract] [IWA Water Wiki]
  117. Masaaki Kitajima, Brandon C. Iker, Andri T. Rachmadi, Eiji Haramoto, and Charles P. Gerba. 2014. Quantification and genetic analysis of salivirus/klassevirus in wastewater in Arizona, USA. Food and Environmental Virology. 6(3):213-216.
    [Abstract]
  118. Naohiro Kishida, Naohiro Noda, Eiji Haramoto, Mamoru Kawaharasaki, Michihiro Akiba, and Yuji Sekiguchi. 2014. Quantitative detection of human enteric adenoviruses in river water by microfluidic digital polymerase chain reaction. Water Science and Technology. 70(3):555-560.
    [Abstract]
  119. Masaaki Kitajima, Eiji Haramoto, Brandon C. Iker, and Charles P. Gerba. 2014. Occurrence of Cryptosporidium, Giardia, and Cyclospora in influent and effluent water at wastewater treatment plants in Arizona. Science of the Total Environment. 484:129-136.
    [Abstract]
  120. Eiji Haramoto and Mikie Otagiri. 2014. Occurrence of human cosavirus in wastewater and river water in Japan. Food and Environmental Virology. 6(1):62-66.
    [Abstract]
  121. Eiji Haramoto, Masaaki Kitajima, Naohiro Kishida, Yoshiaki Konno, Hiroyuki Katayama, Mari Asami, and Michihiro Akiba. 2013. Occurrence of pepper mild mottle virus in drinking water sources in Japan. Applied and Environmental Microbiology. 79(23):7413-7418.
    [Abstract] [PDF]
  122. 岸田直裕, 原本英司, 今野祥顕, 泉山信司, 浅見真理, 秋葉道宏. 2013. 水中のクリプトスポリジウム・ジアルジア検査における遺伝子検査法の実用性に関する検討. 土木学会論文集G（環境）. 69(7):III_631-III_637.
    ※第50回環境工学研究フォーラム 論文賞 受賞
    ※平成26年度土木学会論文賞 受賞
  123. 岸田直裕, 今野祥顕, 原本英司, 浅見真理, 秋葉道宏. 2013. 我が国における水道原水中の水系感染性ウイルスおよび原虫の存在実態と指標微生物の有効性. 水道協会雑誌. 82(10):2-10.
    ※平成26年度日本水道協会会長表彰（有効賞） 受賞
  124. Masaaki Kitajima, Akihiko Hata, Teruo Yamashita, Eiji Haramoto, Hiroko Minagawa, and Hiroyuki Katayama. 2013. Development of a reverse transcription-quantitative PCR system for detection and genotyping of Aichi viruses in clinical and environmental samples. Applied and Environmental Microbiology. 79(13):3952-3958.
    [Abstract] [PDF]
  125. Yureana Wijayanti, Takashi Nakamura, Kei Nishida, Eiji Haramoto, and Yasushi Sakamoto. 2013. Seasonal differences and source estimation of groundwater nitrate contamination. Journal of Water and Environment Technology. 11(3):163-174.
    [Abstract] [PDF]
  126. Eiji Haramoto, Masaaki Kitajima, and Mikie Otagiri. 2013. Development of a reverse transcription-quantitative PCR assay for detection of salivirus/klassevirus. Applied and Environmental Microbiology. 79(11):3529-3532.
    [Abstract] [PDF]
  127. Eiji Haramoto and Hiroyuki Katayama. 2013. Application of acidic elution to virus concentration using electropositive filters. Food and Environmental Virology. 5(1):77-80.
    [Abstract]
  128. Eiji Haramoto and Mikie Otagiri. 2013. Prevalence and genetic diversity of klassevirus in wastewater in Japan. Food and Environmental Virology. 5(1):46-51.
    [Abstract]
  129. Yureana Wijayanti, Takashi Nakamura, Kei Nishida, Eiji Haramoto, and Yasushi Sakamoto. 2013. Groundwater nitrate contamination in small agriculture area: assessing the source and process using isotopes and ions. Journal of Japan Society of Civil Engineers, Ser. B1 (Hydraulic Engineering). 69(4):I_223-I_228.
  130. Eiji Haramoto, Masaaki Kitajima, Naohiro Kishida, Hiroyuki Katayama, Mari Asami, and Michihiro Akiba. 2012. Occurrence of viruses and protozoa in drinking water sources of Japan and their relationship to indicator microorganisms. Food and Environmental Virology. 4(3):93-101.
    [Abstract]
  131. Naohiro Kishida, Hisao Morita, Eiji Haramoto, Mari Asami, and Michihiro Akiba. 2012. One-year weekly survey of noroviruses and enteric adenoviruses in the Tone River water in Tokyo metropolitan area, Japan. Water Research. 46(9):2905-2910.
    [Abstract]
  132. Eiji Haramoto, Hiroyuki Katayama, Mari Asami, and Michihiro Akiba. 2012. Development of a novel method for simultaneous concentration of viruses and protozoa from a single water sample. Journal of Virological Methods. 182(1-2):62-69.
    [Abstract]
  133. 原本英司. 2012. 降雨出水時の河川における病原微生物及び指標微生物の濃度変動特性の解析. 水道協会雑誌. 81(4):10-19.
    ※平成25年度日本水道協会会長表彰（有効賞） 受賞
  134. Yureana Wijayanti, Takashi Nakamura, Kei Nishida, Eiji Haramoto, and Yasushi Sakamoto. 2012. Identification of groundwater recharge and nitrate pollution in the Kanegawa alluvial fan of the Kofu basin, Japan, using stable isotopes and ions. Journal of Japan Society of Civil Engineers, Ser. B1 (Hydraulic Engineering). 68(4):I_199-I_204.
    [Abstract]
  135. Eiji Haramoto, Mikie Otagiri, Hiroshi Morita, and Masaaki Kitajima. 2012. Genogroup distribution of F-specific coliphages in wastewater and river water in the Kofu basin in Japan. Letters in Applied Microbiology. 54(4):367-373.
    [Abstract]
  136. Masaaki Kitajima, Eiji Haramoto, Chanetta Phanuwan, Hiroyuki Katayama, and Hiroaki Furumai. 2012. Molecular detection and genotyping of human noroviruses in influent and effluent water at a wastewater treatment plant in Japan. Journal of Applied Microbiology. 112(3):605-613.
    [Abstract]
  137. 村上道夫, 稲葉愛美, 原本英司, 韋希聞, 中村高志, 屋井裕幸, 片山浩之, 古米弘明, 中谷隼, 佐野翔一. 2012. 低炭素型住宅へ向けた雨水利用の可能性 -住宅における用途別雨水利用を目的とした屋根排水の水質評価-. 住総研研究論文集. 38:235-244.
  138. Eiji Haramoto, Kaoru Yamada, and Kei Nishida. 2011. Prevalence of protozoa, viruses, coliphages and indicator bacteria in groundwater and river water in the Kathmandu Valley, Nepal. Transactions of the Royal Society of Tropical Medicine and Hygiene. 105(12):711-716.
    [Abstract]
  139. Naohiro Kishida, Masayuki Nakano, Kyungju Kim, Eiji Haramoto, Shigemitsu Morita, Mari Asami, and Michihiro Akiba. 2011. Annual and diurnal profiles of Cryptosporidium and Giardia in river water in Japan. Journal of Water and Environment Technology. 9(2):225-233.
    [Abstract] [PDF]
  140. Masaaki Kitajima, Eiji Haramoto, Chanetta Phanuwan, and Hiroyuki Katayama. 2011. Genotype distribution of human sapoviruses in wastewater in Japan. Applied and Environmental Microbiology. 77(12):4226-4229.
    [Abstract] [PDF]
  141. 岸田直裕, 原本英司, 浅見真理, 森田重光, 秋葉道宏. 2011. 水源における病原微生物濃度の予測と発生源対策効果の推定. 用水と廃水. 53(6):451-457.
  142. Masaaki Kitajima, Eiji Haramoto, Chanetta Phanuwan, and Hiroyuki Katayama. 2011. Prevalence and genetic diversity of Aichi viruses in wastewater and river water in Japan. Applied and Environmental Microbiology. 77(6):2184-2187.
    [Abstract] [PDF]
  143. Masaaki Kitajima, Tomoichiro Oka, Eiji Haramoto, Chanetta Phanuwan, Naokazu Takeda, Kazuhiko Katayama, and Hiroyuki Katayama. 2011. Genetic diversity of genogroup IV noroviruses in wastewater in Japan. Letters in Applied Microbiology. 52(2):181-184.
    [Abstract]
  144. 原本英司, 片山浩之, 浅見真理, 秋葉道宏, 国包章一. 2010. 河川水からのウイルス及び原虫の同時濃縮法の開発. 水道協会雑誌. 79(10):2-11.
  145. Masaaki Kitajima, Tomoichiro Oka, Eiji Haramoto, Naokazu Takeda, Kazuhiko Katayama, and Hiroyuki Katayama. 2010. Seasonal distribution and genetic diversity of genogroups I, II, and IV noroviruses in the Tamagawa River, Japan. Environmental Science & Technology. 44(18):7116-7122.
    [Abstract]
  146. 原本英司, 小田切美希栄, 北島正章, 西田継, 坂本康. 2010. F特異RNA大腸菌ファージを用いた水環境中のふん便汚染源の解析. 用水と廃水. 52(8):640-646.
  147. Masaaki Kitajima, Yukinobu Tohya, Koichi Matsubara, Eiji Haramoto, Etsuko Utagawa, and Hiroyuki Katayama. 2010. Chlorine inactivation of human norovirus, murine norovirus and poliovirus in drinking water. Letters in Applied Microbiology. 51(1):119-121.
    [Abstract]
  148. Masaaki Kitajima, Tomoichiro Oka, Eiji Haramoto, Hiroyuki Katayama, Naokazu Takeda, Kazuhiko Katayama, and Shinichiro Ohgaki. 2010. Detection and genetic analysis of human sapoviruses in river water in Japan. Applied and Environmental Microbiology. 76(8):2461-2467.
    [Abstract] [PDF]
  149. Eiji Haramoto, Masaaki Kitajima, Hiroyuki Katayama, and Shinichiro Ohgaki. 2010. Real-time PCR detection of adenoviruses, polyomaviruses, and torque teno viruses in river water in Japan. Water Research. 44(6):1747-1752.
    [Abstract]
  150. Masaaki Kitajima, Eiji Haramoto, Chanetta Phanuwan, Hiroyuki Katayama, and Shinichiro Ohgaki. 2009. Detection of genogroup IV norovirus in wastewater and river water in Japan. Letters in Applied Microbiology. 49(5):655-658.
    [Abstract]
  151. Masaaki Kitajima, Koichi Matsubara, Sethy Sour, Eiji Haramoto, Hiroyuki Katayama, and Shinichiro Ohgaki. 2009. First detection of genotype 3 hepatitis E virus RNA in river water in Cambodia. Transactions of the Royal Society of Tropical Medicine and Hygiene. 103(9):955-957.
    [Abstract]
  152. Eiji Haramoto, Hiroyuki Katayama, Etsuko Utagawa, and Shinichiro Ohgaki. 2009. Recovery of human norovirus from water by virus concentration methods. Journal of Virological Methods. 160(1-2):206-209.
    [Abstract]
  153. Eiji Haramoto, Masaaki Kitajima, Hiroyuki Katayama, Mari Asami, Michihiro Akiba, and Shoichi Kunikane. 2009. Application of real-time PCR assays to genotyping of F-specific phages in river water and sediments in Japan. Water Research. 43(15):3759-3764.
    [Abstract]
  154. 原本英司, 片山浩之, 大垣眞一郎. 2009. 下水処理場における病原ウイルスの低減効果の解明. 水環境学会誌. 32(6):315-320.
    [Abstract] [PDF]
  155. 原本英司, 與那城雄司, 西澤博, 浅見真理, 秋葉道宏, 国包章一. 2009. 利根川流域における原虫の検出と遺伝子型の同定及び指標菌との相関. 水道協会雑誌. 78(3):2-11.
    ※第29回月刊「水」論文賞 受賞（受賞者：秋葉道宏先生）
  156. Eiji Haramoto, Masaaki Kitajima, Hiroyuki Katayama, Takafumi Ito, and Shinichiro Ohgaki. 2009. Development of virus concentration methods for detection of koi herpesvirus in water. Journal of Fish Diseases. 32(3):297-300.
    [Abstract]
  157. Eiji Haramoto, Hiroyuki Katayama, and Shinichiro Ohgaki. 2008. Quantification and genotyping of torque teno virus at a wastewater treatment plant in Japan. Applied and Environmental Microbiology. 74(23):7434-7436.
    [Abstract] [PDF]
  158. 原本英司, 與那城雄司, 秋葉道宏, 橋本温, 森田重光, 浅見真理, 国包章一. 2008. 利根川流域の小河川におけるクリプトスポリジウムおよびジアルジアの汚染実態の解明. 環境工学研究論文集. 45:371-377.
    [Abstract] [PDF]
  159. 北島正章, 遠矢幸伸, 松原康一, 原本英司, 宇田川悦子, 片山浩之, 大垣眞一郎. 2008. 新たな代替指標としてマウス分離株を用いた水道水中のノロウイルスの塩素耐性の解明. 環境工学研究論文集. 45:361-370.
    [Abstract] [PDF]
    ※第45回環境工学研究フォーラム 論文賞 受賞
  160. Eiji Haramoto, Hiroyuki Katayama, Etsuko Utagawa, and Shinichiro Ohgaki. 2008. Development of sample storage methods for detecting enteric viruses in environmental water. Journal of Virological Methods. 151(1):1-6.
    [Abstract]
  161. Hiroyuki Katayama, Eiji Haramoto, Kumiko Oguma, Hiromasa Yamashita, Atsushi Tajima, Hideichiro Nakajima, and Shinichiro Ohgaki. 2008. One-year monthly quantitative survey of noroviruses, enteroviruses and adenoviruses in wastewater collected from six plants in Japan. Water Research. 42(6-7):1441-1448.
    [Abstract]
  162. Eiji Haramoto, Hiroyuki Katayama, Chanetta Phanuwan, and Shinichiro Ohgaki. 2008. Quantitative detection of sapoviruses in wastewater and river water in Japan. Letters in Applied Microbiology. 46(3):408-413.
    [Abstract]
  163. Eiji Haramoto, Hiroyuki Katayama, Kumiko Oguma, and Shinichiro Ohgaki. 2007. Quantitative analysis of human enteric adenoviruses in aquatic environments. Journal of Applied Microbiology. 103(6):2153-2159.
    [Abstract]
  164. Eiji Haramoto, Hiroyuki Katayama, Kumiko Oguma, and Shinichiro Ohgaki. 2007. Recovery of naked viral genomes in water by virus concentration methods. Journal of Virological Methods. 142(1-2):169-173.
    [Abstract]
  165. Eiji Haramoto, Masaaki Kitajima, Hiroyuki Katayama, and Shinichiro Ohgaki. 2007. Detection of koi herpesvirus DNA in river water in Japan. Journal of Fish Diseases. 30(1):59-61.
    [Abstract]
  166. Yoshifumi Masago, Hiroyuki Katayama, Toru Watanabe, Eiji Haramoto, Atsushi Hashimoto, Tatsuo Omura, Tsuyoshi Hirata, and Shinichiro Ohgaki. 2006. Quantitative risk assessment of noroviruses in drinking water based on qualitative data in Japan. Environmental Science & Technology. 40(23):7428-7433.
    [Abstract]
  167. Eiji Haramoto, Hiroyuki Katayama, Kumiko Oguma, Hiromasa Yamashita, Atsushi Tajima, Hideichiro Nakajima, and Shinichiro Ohgaki. 2006. Seasonal profiles of human noroviruses and indicator bacteria in wastewater treatment plant in Tokyo, Japan. Water Science and Technology. 54(11-12):301-308.
    [Abstract]
  168. Eiji Haramoto, Hiroyuki Katayama, Kumiko Oguma, Yukio Koibuchi, Hiroaki Furumai, and Shinichiro Ohgaki. 2006. Effects of rainfall on the occurrence of human adenoviruses, total coliforms, and Escherichia coli in seawater. Water Science and Technology. 54(3):225-230.
    [Abstract]
  169. 上條絵美子, 原本英司, 片山浩之, 小熊久美子, 味埜俊, 大垣眞一郎. 2005. オゾン処理による下水処理水中の大腸菌群および大腸菌ファージの不活化. 用水と廃水. 47(12):1047-1051.
  170. 鯉渕幸生, 小野澤恵一, 中村格之, 原本英司, 片山浩之, 古米弘明, 佐藤慎司, 岡安章夫, 磯部雅彦. 2005. 東京湾お台場海浜公園における雨天時合流式下水道越流水の影響調査. 海岸工学論文集. 52:886-890.
    [PDF]
  171. Eiji Haramoto, Hiroyuki Katayama, Kumiko Oguma, Hiromasa Yamashita, Hideichiro Nakajima, and Shinichiro Ohgaki. 2005. One-year monthly monitoring of torque teno virus (TTV) in wastewater treatment plants in Japan. Water Research. 39(10):2008-2013.
    [Abstract]
  172. Eiji Haramoto, Hiroyuki Katayama, Kumiko Oguma, and Shinichiro Ohgaki. 2005. Application of cation-coated filter method to detection of noroviruses, enteroviruses, adenoviruses, and torque teno viruses in the Tamagawa River in Japan. Applied and Environmental Microbiology. 71(5):2403-2411.
    [Abstract] [PDF]
  173. Eiji Haramoto, Hiroyuki Katayama, and Shinichiro Ohgaki. 2004. Detection of noroviruses in tap water in Japan by means of a new method for concentrating enteric viruses in large volumes of freshwater. Applied and Environmental Microbiology. 70(4):2154-2160.
    [Abstract] [PDF]
  174. 原本英司, 片山浩之, 大垣眞一郎. 2002. 水道水および河川水中の腸管系ウイルスのモニタリングを目的とした新しい濃縮法の開発. 環境工学研究論文集. 39:355-364.
    [    Abstract] [PDF]

著書・総説 / Books & Review papers

  1. 原本英司. 2024. 下水中のウイルス検出技術の高度化. 月刊下水道. 47(12):46-48.

  2. 水中の健康関連微生物研究委員会（片山浩之, 原本英司, 佐野大輔, 井原賢, 大石若菜, 五味良太, 鳥居将太郎, 西山正晃, 端昭彦, 安井碧, 渡部徹）. 2023. 水中の健康関連微生物研究委員会の研究・活動紹介. 水環境学会誌. 46(12):422-429.

  3. 原本英司. 2022. 下水疫学調査の社会実装に向けた新型コロナウイルスの検出技術の高度化への取り組み. 臨床とウイルス. 50(4):189-195.

  4. 原本英司, Bikash Malla, 瀬川高弘, 北島正章. 2022. 下水中の新型コロナウイルスおよび他の病原ウイルスの一斉検出法の開発. 環境浄化技術. 21(5):74-78.
    https://www.nikko-pb.co.jp/products/detail.php?product_id=5359

  5. 原本英司. 2022. 下水からの新型コロナウイルスの検出. リアルタイム・デジタルPCR実験スタンダード. pp.164-171. 羊土社. ISBN 978-4-7581-2257-3.
    https://www.yodosha.co.jp/jikkenigaku/book/9784758122573/index.html

  6. 原本英司. 2022. 下水中の新型コロナウイルス遺伝子の高感度検出キットの開発. 月刊下水道. 45(1):54-58.
    PDF

  7. 原本英司. 2021. 下水中の新型コロナウイルス遺伝子検出マニュアルの作成. 水環境学会誌. 44(11):359-363.

  8. Tomoko Takeda, Masaaki Kitajima, Ahmad Setiyawan, Ngo Thi Thuy Huong, Nguyen Quoc Dinh, Kwanrawee Sirikanchana, Miliana Navia, Alauta Ah Sam, Masashi Tsudaka, Dang The Hung, and Eiji Haramoto. 2021. Governance of wastewater surveillance systems to minimize the impact of COVID-19 and future epidemics: cases across Asia-Pacific, pp.115-126. In AL. Ramanathan, Sabarathinam Chidambaram, M. P. Jonathan, M. V. Prasanna, Pankaj Kumar, and Francisco Munoz Arriola (ed.), Environmental Resilience and Transformation in Times of COVID-19: Climate Change Effects on Environmental Functionality. Elsevier, Amsterdam, the Netherlands. ISBN: 9780323855129 (paperback), 9780323858038 (eBook).
    doi: 10.1016/C2020-0-02703-9

  9. 原本英司. 2021. 新たな微生物のリスク. 水環境の事典. pp.144-145. 朝倉書店. ISBN 978-4-254-18056-5.
    https://www.asakura.co.jp/books/isbn/978-4-254-18056-5/

  10. 北島正章, 原本英司. 2020. 新型コロナウイルスの下水疫学調査. 水環境学会誌. 43(12):413-416.

  11. 北島正章, 原本英司. 2020. 下水中の新型コロナウイルスの分析. ぶんせき. 2020年11月号, pp.411-416.
    PDF

  12. 鳥居将太郎, 北島正章, 原本英司, 片山浩之. 2020. 下水中の新型コロナウイルスに関する知見. オゾンニュース・イン・ジャパン. 115:15-21.

  13. 原本英司, 北島正章. 2020. 下水および河川水中における新型コロナウイルスRNAの存在実態に関する国内初の環境調査. 水道公論. 56(8):62-68.

  14. 北島正章, 原本英司. 2020. 下水中の新型コロナウイルスに関する最新知見. 水道公論. 56(6):47-52.

  15. 中村高志, 石平博, 原本英司, 遠山忠, 新藤純子, 西田継, Narendra Man Shakya, 風間ふたば. 2018. ネパール・カトマンズでの挑戦. 日本水文科学会誌. 48(2):95-99.
    DOI: 10.4145/jahs.48.95

  16. 水中の健康関連微生物研究委員会（片山浩之, 安井宣仁, 猪又明子, 田中宏明, 岸田直裕, 原本英司, 渡部徹, 真砂佳史, 浅田安廣, 端昭彦, 佐野大輔, 井原賢, 稲葉愛美）. 2014. 水中の健康関連微生物に関する研究動向. 水環境学会誌. 37(12):424-433.

  17. Masaaki Kitajima, Eiji Haramoto, and Charles P. Gerba. 2014. Salivirus/klassevirus: an emerging virus associated with paediatric diarrhea/acute flaccid paralysis and environmental contamination, pp.111-122. In Roxanne H. Bishop (ed.), Influenza and RNA Viruses: Emergence, Classification and Management. Nova Science Publishers, New York, USA. ISBN: 978-1-63321-799-7.
    https://www.novapublishers.com/catalog/product_info.php?products_id=51194

  18. 原本英司. 2013. 病原微生物（第1編, 第6章）. 排水・汚水処理技術集成vol. 2. pp.69-78. 株式会社エヌ・ティー・エス. ISBN 978-4-86469-081-2.
    http://www.nts-book.co.jp/item/detail/summary/kankyo/20131200_64.html

  19. 北島正章, 原本英司. 2013. 環境ウイルス学の最新知見. 水環境学会誌. 36(5):156-160.

  20. Koichi Matsubara, Chanetta Phanuwan, Nguyen Thi Van Ha, Masaaki Kitajima, Eiji Haramoto, Hiroyuki Katayama, Satoshi Takizawa, and Shinichiro Ohgaki. 2009. Noroviruses and faecal contamination in Saigon River and urban canals in Ho Chi Minh City, Vietnam, p.95-101. In Satoshi Takizawa, Futoshi Kurisu, and Hiroyasu Satoh (ed.), Southeast Asian Water Environment 3. IWA Publishing, London, UK. ISBN: 978-1-84339-276-7.
    http://www.iwapublishing.com/template.cfm?name=isbn9781843392767

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