Publications


2019

  1. Chamindu Deepagoda T., Jayarathne J., Clough T.J., Thomas S., Elberling B. (2019) Soil-gas diffusivity and soil-moisture effects on N2O emissions from intact pasture soils. Soil Science Society of America Journal, 83, 1032-1043.
  2. Chamindu D.T.K.K., Clough T.J., Thomas S.M., Balaine N., Elberling B. (2019) Density effects on soil-water characteristics, soil-gas diffusivity, and emissions of N2O and N2 from a re-packed pasture soil. Soil Science Society of America Journal, 83, 118-125.
  3. Chen Y.Y., Huang W., Wang W.H., Juang J.Y.,Kato T., Luyssaert S. (2019) Reconstructing Taiwan’s land cover changes between 1904 and 2015 from historical maps and satellite images. Scientific Reports, 9, article number 3643.
  4. Ciganda V.S., López-Aizpún M., Repullo M.A., Wu D., Terra J.A., Elustondo D., Clough T., Cardenas L.M. (2019) Soil nitrous oxide emissions from grassland: Potential inhibitor effect of hippuric acid. Journal of Plant Nutrition and Soil Science, 182, 40-47.
  5. Clark L.V., Dwiyanti M.S., Anzoua K.G., Brummer J.E., Ghimire B.K., Głowacka K., Hall M., Heo K., Jin X., Lipka A.E., Peng J., Yamada T., Yoo J.H., Yu C.Y., Zhao H., Long S.P., Sacks E.J. (2019) Biomass yield in a genetically diverse Miscanthus sinensis germplasm panel evaluated at five locations revealed individuals with exceptional potential. Global Change Biology Bioenergy, 11(10), 1125-1145.
  6. Clark L.V., Dwiyanti M.S., Anzoua K.G., Brummer J.E., Ghimire B.K., Głowacka K., Hall M., Heo K., Jin X., Lipka A.E., Peng J., Yamada T., Yoo J.H., Yu C.Y., Zhao H., Long S.P., Sacks E.J. (2019) Genome-wide association and genomic prediction for biomass yield in a genetically diverse Miscanthus sinensis germplasm panel phenotyped at five locations in Asia and North America. Global Change Biology Bioenergy, 11(8), 988-1007.
  7. Clifton-Brown J., Harfouche A., Casler M.D., Jones H.D., Macalpine W.J., Murphy-Bokern D., Smart L.B., Adler A., Ashman C., Awty-Carroll D., Bastien C., Bopper S., Botnari V., Brancourt- Hulmel M., Chen Z., Clark L.V., Cosentino S., Dalton S., Davey C., Dolstra O., Donnison I., Flavel R., Greef J., Hanley S., Hastings A., Hertzberg M., Hsu T-W., Huang L.S., Iurato A., Jensen E., Jin X., Jørgensen U., Kiesel A., Kim D-S., Liu J., McCalmont J.P., McMahon B.G., Mos M., Robson P., Sacks E.J., Sandu A., Scalici G., Schwarz K., Scordia D., Shafiei R., Shield I., Slavov G., Stanton B.J., Swaminathan K., Taylor G., Torres A.F., Trindade L.M., Tschaplinski T., Tuskan J., Yamada T., Yu C.Y., Zalesny Jr R.F., Zong J., Lewandowski I. (2019) Breeding progress and preparedness for mass-scale deployment of perennial lignocellulosic biomass crops switchgrass, miscanthus, willow and poplar. Global Change Biology Bioenergy, 11(1), 118–151.
  8. Dong H., Clark L., Lipka A., Brummer J., Głowacka K., Hall M., Heo K., Jin X., Peng J., Yamada T., Ghimire B., Yoo J.H., Yu C.Y., Zhao H., Long S., Sacks E. (2019) Winter hardiness of Miscanthus (III): Genome-wide association and genomic prediction for overwintering ability in Miscanthus sinensis. Global Change Biology Bioenergy, 11(8), 930-955.
  9. Estifanos T.K., Polyakov M., Pandit R., Hailu A., Burton M. (2019) What are tourists willing to pay for securing the survival of a flagship species? The case of protection of the Ethiopian wolf. Tourism Economics, https://doi.org/10.1177/1354816619880430
  10. Fitrani M., Wudtisin I., Kaewnern M., Susanto R.H. (2019) Pond soil characteristic in reclaimed tidal lowlands and its correlation with the water quality for aquaculture. IOP Conf. Series: Earth and Environmental Science, 236, 012021.
  11. Harlyan L.I., Wu D., Kinashi R., Kaewnern M., Matsuishi T. (2019) Validation of a feedback harvest control rule in data-limited conditions for managing multispecies fisheries. Canadian Journal of Fisheries and Aquatic Sciences, 76(10), 1885-1893. @) i)
  12. Is-haak J., Kaewnern M., Yoonpundh R., Taparhudee W. (2019) Oxygen consumption rates of hybrid Red Tilapia at different sizes during challenge to water velocity. Journal of Fisheries and Environment, 43(2), 57-65.
  13. Kar S., Zhang N., Nakashima T., Villanueva-Morales A., Stewart J.R., Sacks E.J., Terajima Y., Yamada T. (2019) Saccharum × Miscanthus intergeneric hybrids (miscanes) exhibit greater chilling tolerance of C4 photosynthesis and postchilling recovery than sugarcane (Saccharum spp. hybrids). Global Change Biology Bioenergy, 11 (11), 1318-1333.
  14. Kar S., Weng T-Y., Nakashima T., Villanueva-Morales A., Stewart J.R., Sacks E.J., Terajima Y., Yamada T. (2019) Field performance of Saccharum × Miscanthus intergeneric hybrids (Miscanes) under cool climatic conditions of northern Japan. BioEnergy Research, 13, 132-146.
  15. Kawaguchi T., Takahashi M., Gonzalez L.A. (2019) Prospect of Gas Biosensor. Austin J Biosens. Bioelectron, 2019; 5(1), 1033. @ i)
  16. Langley S., Eng T., Wan K.H., Herbert R.A., Klein A.P., Yoshikuni Y., Tringe S.G., Brown J.B., Celniker S.E., Mortimer J.C., Mukhopadhyay A. (2019) Complete genome sequence of Agrobacterium sp. strain 33MFTa1.1, isolated from Thlaspi arvense roots. Microbiology Resource Announcements, 8, e00432-19.
  17. Li S., Kawaguchi T., Takahashi M., Gonzalez L.A. (2019) Kinetic Analysis of Biosensor, Austin J. Biosens Bioelectron. 2019; 5(1): 1035. @ i)
  18. Liu T., Qin S., Pang Y., Yao J., Zhao X., Clough T., Wrage-Mönnig N., Zhou S. (2019) Rice root Fe plaque enhances paddy soil N2O emissions via Fe(II) oxidation-coupled denitrification. Soil Biology and Biochemistry, 139, 107610.
  19. Lopez Z.M.A., Gonzalez P.O.I., Ruelas H.C., Mena C.D., Mokthar G. (2019) Use of cyclic voltammetry to describe the electrochemical behavior of a dual-chamber microbial fuel cell. Energies, 12(18): 3532. i)
  20. Olatoye O.M., Clark L.V., Wang J., Yang X., Yamada T., Sacks E.J., Lipka A.E. (2019) Evaluation of genomic selection and marker assisted selection in Miscanthus and energycane. Molecular Breeding, 39, 171.
  21. Pandit R., Parrotta J.A., Chaudhary A.K., Karlen D.L., Vieira D.L.M., Anker Y., Ntshotsho P. (2019) A framework to evaluate land degradation and restoration responses for improved planning and decision-making. Ecosystems and People, 16(1), 1-18.
  22. Parvin B., Kawaguchi T., Gonzalez L.A. (2019) Development of gas monitoring system for cow, Online Chemical Sensors, 35, B, 46-48. @ i)
  23. Peaucelle M., Bacour C., Ciais P., Vuichard N., Kuppel S., Peñuelas J., Marchesini B.L., Blanken P.D., Buchmann N., Chen J., Delpierre N., Desai A.R., Dufrene E., Gianelle D., Gimeno-Colera C., Gruening C., Helfter C., Hörtnagl L., Ibrom A., Joffre R., Kato T., Kolb T.E., Law B., Lindroth A., Mammarella I., Merbold L., Minerbi S., Montagnani L., Šigut L., Sutton M., Varlagin A., Vesala T., Wohlfahrt G., Wolf S., Yakir D., Viovy N. (2019)Covariations between plant functional traits emerge from constraining parameterization of a terrestrial biosphere model. Global Ecology and Biogeography, 28, 1351-1365. i)
  24. Qin S., Yu L., Yang Z., Li M., Clough T., Wrage-Mönnig N., Hu C., Liu B., Chen S., Zhou S. (2019) Electrodes donate electrons for nitrate reduction in a soil matrix via DNRA and denitrification. Environmental Science and Technology, 53(4), 2002-2012.
  25. Rayner S., Clough T.J., Baisden T., Moir J. (2019) Can ruminant urine-N rate and plants affect nitrate leaching and its isotopic composition?. New Zealand Journal of Agricultural Research, 63(1), 87-105.
  26. Rex D., Clough T.J., Richards K.G., Condron L.M., de Klein C.A.M., Morales S.E., Lanigan G.J. (2019) Impact of nitrogen compounds on fungal and bacterial contributions to codenitrification in a pasture soil. Scientific Reports, 9, article number 13371.
  27. Rissmann C.W.F., Pearson L.K., Beyer M., Couldrey M.A., Lindsay J.L., Martin A.P., Baisden W.T., Clough T.J., Horton T.W., Webster-Brown J.G. (2019) A hydrochemically guided landscape classification system for modelling spatial variation in multiple water quality indices: Process-attribute mapping. Science of the Total Environment, 672, 815-833.
  28. Schwartz C., Cheng J.F., Evans R., Schwartz C.A., Wagner J.M., Anglin S., Beitz A., Pan W., Lonardi S., Blenner M., Alper H.S., Yoshikuni Y., Wheeldon I. (2019) Validating genome-wide CRISPR-Cas9 function improves screening in the oleaginous yeast Yarrowia lipolytica. Metabolic Engineering, 55, 102-110.
  29. Shulse C.N., Chovatia M., Agosto C., Wang G., Hamilton M., Deutsch S., Yoshikuni Y., Blow M.J. (2019) Engineered root bacteria release plant-available phosphate from phytate. Applied and Environmental Microbiology, 85(18), e01210-19.
  30. Stoffel G.M.M., Saez D.A., DeMirci H., Vögeli B., Rao Y., Zarzycki J., Yoshikuni Y., Wakatsuki S., Vöhringer-Martinez E., Erb T.J. (2019) Four amino acids define the CO2 binding pocket of enoyl-CoA carboxylases/reductases. PNAS, 116(28), 13964-13969.
  31. Taghizadeh-Toosi A., Elsgaard L., Clough T.J., Labouriau R., Ernstsen V., Petersen S.O. (2019) Regulation of N2O emissions from acid organic soil drained for agriculture. Biogeosciences, 16, 4555-4575.
  32. Thomas S.M., Fraser P.M., Hu W., Clough T.J., van der Klei G., Wilson S., Tregurtha R., Baird D. (2019) Tillage, compaction and wetting effects on NO3, N2O and N2 Soil Research, 57 (6), 670-688.
  33. Vujinović T., Clough T.J., Curtin D., Meenken E.D., Lehto N.J., Beare M.H. (2019) Quantity and biodegradability of dissolved organic matter released from sequentially leached soils, as influenced by the extent of soil drying prior to rewetting. Soil Research, 57 (4), 374-386.
  34. Wang G., Zhao Z., Ke J., Engel Y., Shi Y.M., Robinson D., Bingol K., Zhang Z., Bowen B., Louie K., Wang B., Evans R., Miyamoto Y., Cheng K., Kosina S., De Raad M., Silva L., Luhrs A., Lubbe A., Hoyt D.W., Francavilla C., Otani H., Deutsch S., Washton N.M., Rubin E.M., Mouncey N.J., Visel A., Northen T., Cheng J.F., Bode H.B., Yoshikuni Y. (2019) CRAGE enables rapid activation of biosynthetic gene clusters in undomesticated bacteria. Nature Microbiology, 4, 2498-2510.
  35. Yamada K.T., Kitamura S., Abe S., Tajima Y., Matsuda A., Mead J.G., Matsuishi T.F. (2019) Description of a new species of beaked whale (Berardius) found in the North Pacific. Scientific Reports, 9, article number 12723. i)
  36. Yuan H., Zhang Z., Li M., Clough T., Wrage-Mönnig N., Qin S., Ge T., Liao H., Zhou S. (2019) Biochar’s role as an electron shuttle for mediating soil N2O emissions. Soil Biology and Biochemistry, 133, 94-96.
  37. Glasgow E.M., Vander Meulen K.A., Takasuka T.E., Bianchetti C.M., Bergeman L.F., Deutsch S., Fox B.G. (2019) Extent and origins of functional diversity in a subfamily of glycoside hydrolases. Journal of Molecular Biology, 431, 1217-1233. @
  38. Harlyan L., Wu D., Kinashi R., Kaewnern M., Matsuishi T. (2019) Validation of a feedback harvest control rule in data-limited conditions for managing multispecies fisheries. Canadian Journal of Fisheries and Aquatic Sciences, 76(10), 1885-1893. @ i)
  39. Huang J., Yu Z., Groom J., Cheng J.F., Tarver A., Yoshikuni Y., Chistoserdova L. (2019) Rare earth element alcohol dehydrogenases widely occur among globally distributed, numerically abundant and environmentally important microbes. ISME J, 13, 2005-2017.
  40. Khuu T.P.D., Saito Y., Tojo N., Nguyen P.D., Nguyen T.N.H., Matsuishi T. (2019) Are consumers willing to pay more for traceability? Evidence from an auction experiment of Vietnamese pork. International Journal of Food and Agricultural Economics, 7, 127-140. i)
  41. Khuu T.P.D., Saito Y., Nguyen T.N.H., Tong Y. D., Matsuishi T. (2019) Pressure-State-Response of traceability implementation in seafood-exporting countries: Evidence from Vietnamese shrimp products. Aquaculture International, 27, 1209-1229. @i)
  42. Akizawa H., Yanagawa Y., Nagano M., Bai H., Takahashi M., Kawahara M. (2019) Significance of CCN2 expression in bovine preimplantation development. Animal science journal, 90, 49-54. ii)
  43. Anabuki T., Ito Y., Ohashi K., Takasuka T.E., Matsuura H., Takahashi K. (2019) Identification of recombinant AtPYL2, an abscisic acid receptor, in E. coli using a substrate-derived bioactive small molecule, a biotin linker with alkyne and amino groups, and a protein cross-linker. Bioorganic and Medical Chemistry Letters, 29(21), 126634.
  44. Bai H., Shabur T.M.A., Kunii H., Itoh T., Kawahara M., Takahashi M. (2019) Evaluation of the immune status of peripheral blood monocytes from dairy cows during the periparturition period. Journal of Reproduction and Development, 65(4), 313-318.
  45. Hamamoto T., Uchida Y. (2019) The role of different earthworm species (Metaphire Hilgendorfi and Eisenia Fetida) on CO2 emissions and microbial biomass during barley decomposition. Sustainability, 11(23), 6544.
  46. Koide Y., Sakaguchi S., Uchiyama T., Ota Y., Tezuka A., Nagano A.J., Ishiguro S., Takamure I., Kishima Y. (2019) Genetic properties responsible for the transgressive segregation of days to heading in rice. G3: Genes, Genomes, Genetics, 9(5), 1655-1662.
  47. Maezawa T., Matsuishi T., Ito K., Kaji S., Tsunokawa M., Kawahara J.I. (2019) The effects of visual impediment on the approaching behavior of harbor porpoise, Phocoena phocoena. Mammal Study, 44(3) 205-213. i)
  48. Shiina K., Komatsu M., Yokoi E., Bai H., Takahashi M., Kawahara M. (2019) Overgrowth of mice generated from postovulatory-aged oocyte spindles. FASEB BioAdvances, 1, 393-403.
  49. Uchida Y., Moriizumi M., Shimotsuma M. (2019) Effects of rice husk biochar and soil moisture on the accumulation of organic and inorganic nitrogen and nitrous oxide emissions during the decomposition of hairy vetch (Vicia villosa) mulch. Soil Science and Plant Nutrition, 65, 409-418.
  50. Wu L., Kato T., Sato H., Hirano T., Yazaki T. (2019) Sensitivity analysis of the typhoon disturbance effect on forest dynamics and carbon balance in the future in a cool-temperate forest in northern Japan by using SEIB-DGVM. Forest Ecology and Management, 451, 117529. i)
  51. Begum P., Li S., Morozumi T., Johmen M., Sone T., Kawaguchi T. (2019) Electrochemical sensing for analysis of wine. Online Chemical Sensors, 35, A, 49-51. i)
  52. Clifton-Brown J., Harfouche A., Casler M.D., Jones H.D., Macalpine W.J., Murphy-Bokern D., Smart L.B., Adler A., Ashman C., Awty-Carroll D., Bastien C., Bopper S., Botnari V., Brancourt-Hulmel M., Chen Z., Clark L.V., Cosentino S., Dalton S., Davey C., Dolstra O., Donnison I., Flavel R., Greef J., Hanley S., Hastings A., Hertzberg M., Hsu T-W., Huang L., Iurato A., Jensen E., Jin X., Jørgensen U., Kiesel A., Kim D-S., Liu J., McCalmont J.P., McMahon B.G., Mos M., Robson P., Sacks E.J., Sandu A., Scalici G., Schwarz K., Scordia D., Shafiei R., Shield I., Slavov G., Stanton B.J., Swaminathan K., Taylor G., Torres A.F., Trindade L.M., Tschaplinski T., Tuskan J., Yamada T., Yu C.Y., Zalesny R-F., Zong J., Lewandowski I. (2019) Breeding progress and preparedness for mass‐scale deployment of perennial lignocellulosic biomass crops switchgrass, miscanthus, willow and poplar. Global Change Biology Bioenergy, 11(1), 118-151.
  53. Dong H., Green S., Nishiwaki A., Yamada T., Stewart J.R., Deuter M., Sacks E. (2019) Winter hardiness of Miscanthus (I): Overwintering ability and yield of new Miscanthus × giganteus genotypes in Illinois and Arkansas. Global Change Biology Bioenergy, 11, 691-705.
  54. Hussey S., Grima-Pettenati J., Myburg A.A., Mizrachi E., Brady S.M., Yoshikuni Y., Deutsch S. (2019) A standardized synthetic Eucalyptus transcription factor and promoter panel for re-engineering secondary cell wall regulation in biomass and bioenergy crops. ACS Synth Biolology, 8, 463-465.
  55. Kato S., Wada K., Kitagawa W., Mayumi D., Ikarashi M., Sone T., Asano K., Kamagata Y. (2019) Conductive iron oxides promote methanogenic acetate degradation by microbial communities in a high-temperature petroleum reservoir. Microbes and Environment, 34, 95-98.
  56. Koyama K., Abe H., Kawamura S., Koseki S. (2019) Stochastic simulation for death probability of bacterial population considering variability in individual cell inactivation time and initial number of cells. International Journal of Food Microbiology, 290, 125-131.
  57. Mokthar G, Saito M., Ito R., Funamizu N. (2019) Combined FO and RO system for the recovery of energy from wastewater and the desalination of seawater. Desalination and water treatment Journal, 154, 14-20. i) ii)
  58. Mokthar G, Maeda T., Ito R., Funamizu N. (2019) Engineering of size-controlled magnetic nanoparticles for use as draw solution in forward osmosis process. Desalination and water treatment Journal, 154, 21-29. i) ii)
  59. Mouncey N.J., Otani H., Udwary D., Yoshikuni Y. (2019) New voyages to explore the natural product galaxy. Journal of Industrial Microbiology and Biotechnology, 46, 273-279.
  60. Ohbayashi T., Futahashi R., Terashima M., Barrière Q., Lamouche F., Takeshita K., Meng X.Y., Mitani Y., Sone T., Shigenobu S., Fukatsu T., Mergaert P., Kikuchi Y. (2019) Comparative cytology, physiology and transcriptomics of Burkholderia insecticola in symbiosis with the bean bug Riptortus pedestris and in culture. ISME Journal, 13, 1469-1483.
  61. Olivares D.E., Kawamura S., Matsuo M., Kato M., Koseki S. (2019) Combined analysis of near-infrared spectra, colour, and physicochemical information of brown rice to develop accurate calibration models for determining amylose content. Food Chemistry, 286, 297-306.
  62. Terashima M., Kojima H., Ohashi K., Takasuka T.E., Fukui M. (2019) Antarctic heterotrophic bacterium Hymenobacter nivis P3T displays light-enhanced growth and expresses putative photoactive proteins. Environmental Microbiology Reports, 11, 227-235.
  63. Wang S., Mokthar G., Ito R., Funamizu N., Johmen M., Kawaguchi T. (2019) Water quality monitoring by utilizing planar type electrochemical chip. Online Chemical Sensors, 39, A, 10-12. i)
  64. Wang W.H., Juang J.Y., Kato T., Luyssaert S. (2019) Reconstructing Taiwan’s land cover changes between 1904 and 2015 from historical maps and satellite images. Scientific Reports, 9, article number 3643.
  65. Watanabe T., Kojima H., Umezawa K., Hori C., Takasuka T., Kato Y., Fukui M. (2019) Genomes of neutrophilic sulfur-oxidizing chemolithoautotrophs representing 9 proteobacterial species from 8 genera. Frontiers in Microbiology, 10, 316.
  66. Wells N.S., Clough T.J., Johnson-Beebout S.E., Elberling B., Baisden W.T. (2019) Effects of denitrification and transport on the isotopic composition of nitrate (δ18O, δ15N) in freshwater systems. Science of the Total Environment, 651, 2228-2234.
  67. Yang L., Mokthar G., Ito R., Funamizu N., Johmen M., Kawaguchi T. (2019) Detection of heavy metals by using electrochemical sensor chip. Online Chemical Sensors, 39, A, 55-57. i)
  68. Yuan H., Zhang Z., Qin S., Zhou S., Hu C., Clough T., Wrage-Mönnig N., Luo J., Conrad R. (2019) Effects of nitrate and water content on acetylene inhibition technique bias when analysing soil denitrification rates under an aerobic atmosphere. Geoderma, 334, 33-36
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